Copyright (C) 2013-2016 Centre for Biomedical Image Analysis (CBIA) This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. main.cpp::main(): starting time: Tue 2017-11-28, 10:03:45 main.cpp::main(): supplied configuration file: config-smallVOI-highSNR.ini main.cpp::main(): stdlib generator seeded with 1511859825 main.cpp::makeReport(): enabled features: + extended comments (DEBUG) + parallel convolutions + parallel processing of cell phases + 3D rigid motion + phantoms + cell masks + TIFF images + ST images at z=60 + testing mode: watch out for TESTING MODE messages main.cpp::makeReport(): constants used: cellDiameter=7 um, nucleolusDiameter=1.4 um, coverage=400 % cellNonRigidDeformation=0.15 um, cellNonRigidStrongDeformation=0.7 um (mean) noFramesPerCellCycle=50 frames, cellSparseNonRigidDeformations=false cellMagnitudeOfMovementPerFrame=0.4 um, VarianceOf_cellMagnitudeOfMovementPerFrame=0.3 um cometCellMagnitudeOfMovementPerFrame=0.5 um, cellLookDistance=0.6 um cellMovementDirectionality=0.5 um, cellMovement3Danisotropy=0.3 um main.cpp::makeReport(): Mitocheck HeLa movement is simulated, watch out for MITOCHECK MODE messages. Some movement constants may be ignored then. main.cpp::main(): using the pregenerated image initial_mask_after_005.ics scheduler.cpp::Scheduler(): mask res. minus ini file res.=(-1.14441e-05,-1.14441e-05,-1.14441e-05), L2=3.92902e-10 scheduler.cpp::Scheduler(): mask image is compatible with ini file scheduler.cpp::Scheduler(): sceneSize = (84.9308,84.9308,11.8854)um, sceneOffset = (0,0,0)um scheduler.cpp::Scheduler(): sceneRes = (8.07716,8.07716,8.07716)px/um cell.h::Cell(): cell params loading started cell.h::Cell(): cell params loaded rnd_generators.cpp::GetRandomGauss(): randomness started with seed 80817072 cell.h::Cell(): first stronger non-rigid will occur at frame 6 cell.h::Cell(): MITOCHECK MODE: enforcing custom turning angle distribution ala Mitocheck. randWalk.h::SetZstepLimit(): new Z anisotropy value: 0 [no units] rnd_generators.cpp::GetRandomUniform(): randomness started with seed 80817072 cell.h::Cell(): MITOCHECK MODE: enforcing mean step size of 1.56085 microns ala Mitocheck. cell.h::Cell(): MITOCHECK MODE: enforcing new cellLookDistance of size 2.89889 microns due to Mitocheck. randWalk.h::ResetXYHeading(): new XY heading angle: 0.389556 radians cell.h::Cell(): new cell created with ID=1 and timePoint=0 cell.h::Cell(): new cell has cycle length 59 frames scheduler.cpp::Scheduler(): TESTING MODE: fixing initial G2 phase life to 50 frames. cell.h::SetDelay(): delay: 50 cell.cpp::ReadMaskInG2Phase(): Using mask image ID=1 for this cell with ID=1 bp_lists.cpp::ResetBoundaryPoints(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 162620 points (10298 outer) with centre at (15.5124,20.9451,9.42636) cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 with centre at (15.5124,20.9451,9.42636) in microns bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(11.7616,17.3328,7.30454) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.42835,7.18074,4.3332) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(95,140,59) pixels bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00317201 seconds bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00560099 seconds bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.00030601 seconds cellScm.cpp::ScmRenderCellIntoMask(): 49412 dots were added (ID 1 ) bp_lists.cpp::AllocateAndZeroNewMask(): points span x=12.0092 to 18.9423; y=17.5804 to 24.2659; z=7.55216 to 11.3901 bp_lists.cpp::AllocateAndZeroNewMask(): new image at (10.2759,15.8471,6.68551) of size (10.2759,10.1521,5.57126) in microns bp_lists.cpp::RenderBPListIntoMask(): source image at (10.2759,15.8471,6.68551) of size (10.2759,10.1521,5.57126) in microns bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(1.48567,1.48567,0.619029) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.42835,7.18074,4.3332) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(12,12,4) pixels bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00351799 seconds bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.005303 seconds bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000273019 seconds cell.cpp::GetCellPolarityAndCentreVector(): Computing principal axes cell.cpp::GetCellPolarityAndCentreVector(): axis1: (-0.995932,0.00624961,0.0898907) cell.cpp::GetCellPolarityAndCentreVector(): axis2: (0.00225511,0.999008,-0.0444692) cell.cpp::GetCellPolarityAndCentreVector(): axis3: (0.0900794,0.0440856,0.994958) cell.cpp::GetCellPolarityAndCentreVector(): val1: 8.29274e+06 cell.cpp::GetCellPolarityAndCentreVector(): val2: 7.5124e+06 cell.cpp::GetCellPolarityAndCentreVector(): val3: 2.2231e+06 cell.cpp::GetCellPolarityAndCentreVector(): polarity vector is: (-0.995932,0.00624961,0.0898907) cell.cpp::GetCellPolarityAndCentreVector(): centroid (in microns): (15.4757,20.9232,9.40924) cell.cpp::GenerateDotDistributionInG2Phase(): Generating nucleus mask. bp_lists.cpp::ResetBoundaryPoints(): source image at (11.7616,17.3328,7.30454) of size (7.55216,7.30454,4.45701) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 139637 points (8843 outer) with centre at (15.5004,20.9548,9.43355) cell.cpp::GenerateDotDistributionInG2Phase(): Nucleus mask created successfully. cell.cpp::GenerateDotDistributionInG2Phase(): Generating nucleoli. collisions.cpp::LocateAllFreePositions(): dilation of space image collisions.cpp::LocateAllFreePositions(): drawing border line collisions.cpp::LocateAllFreePositions(): performing convolution collisions.cpp::LocateAllFreePositions(): thresholding convolution result collisions.cpp::FindPosition(): sum of free positions: 12996 collisions.cpp::FindPosition(): searching finished cell.cpp::GenerateNucleolus(): attempt number: 1 cell.cpp::GenerateNucleolus(): shift: (14.3008,20.3673,8.35812) bp_lists.cpp::ResetBoundaryPoints(): source image at (14.3008,20.3673,8.35812) of size (2.72373,2.72373,2.72373) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 5023 points (337 outer) with centre at (15.7332,21.821,9.79273) collisions.cpp::LocateAllFreePositions(): dilation of space image collisions.cpp::LocateAllFreePositions(): drawing border line collisions.cpp::LocateAllFreePositions(): performing convolution collisions.cpp::LocateAllFreePositions(): thresholding convolution result collisions.cpp::FindPosition(): sum of free positions: 7778 collisions.cpp::FindPosition(): searching finished cell.cpp::GenerateNucleolus(): attempt number: 1 cell.cpp::GenerateNucleolus(): shift: (14.1592,17.8734,8.58792) bp_lists.cpp::ResetBoundaryPoints(): source image at (14.1592,17.8734,8.58792) of size (3.09515,3.09515,3.09515) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 4639 points (313 outer) with centre at (15.7449,19.4219,10.1436) cell.cpp::GenerateDotDistributionInG2Phase(): Nucleoli generated successfully. cellChr.cpp::ChrInitialDistribution(): 40657 pixels were found in the mask cellChr.cpp::ChrInitialDistribution(): going to use 3536 molecules for a chromosome, as 162656 is required total cell.cpp::GenerateDotDistributionInG2Phase(): Seeds placed for the new chromosomes. cellChr.cpp::ChrUpdateStats(): operation took 0.035396 seconds, percentil is 0.9 cellChr.cpp::ChrRenderIntoPhantoms(): going to render 162656 'chr' points, ID=1 cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.125746 seconds cell.cpp::GenerateDotDistributionInG2Phase(): Initial generation of dots and molecules finished. cell.h::Cell(): cell params loading started cell.h::Cell(): cell params loaded cell.h::Cell(): first stronger non-rigid will occur at frame 8 cell.h::Cell(): MITOCHECK MODE: enforcing custom turning angle distribution ala Mitocheck. randWalk.h::SetZstepLimit(): new Z anisotropy value: 0 [no units] cell.h::Cell(): MITOCHECK MODE: enforcing mean step size of 1.63578 microns ala Mitocheck. cell.h::Cell(): MITOCHECK MODE: enforcing new cellLookDistance of size 2.97757 microns due to Mitocheck. randWalk.h::ResetXYHeading(): new XY heading angle: 3.04377 radians cell.h::Cell(): new cell created with ID=2 and timePoint=0 cell.h::Cell(): new cell has cycle length 47 frames scheduler.cpp::Scheduler(): TESTING MODE: fixing initial G2 phase life to 50 frames. cell.h::SetDelay(): delay: 50 cell.cpp::ReadMaskInG2Phase(): Using mask image ID=2 for this cell with ID=2 bp_lists.cpp::ResetBoundaryPoints(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 206114 points (13028 outer) with centre at (4.2114,12.6927,8.51112) cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 with centre at (4.2114,12.6927,8.51112) in microns bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(0.742835,8.66641,5.44746) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(6.93313,8.17118,6.3141) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(6,69,44) pixels bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.003933 seconds bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00847501 seconds bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000309005 seconds cellScm.cpp::ScmRenderCellIntoMask(): 74945 dots were added (ID 2 ) bp_lists.cpp::AllocateAndZeroNewMask(): points span x=0.990447 to 7.42835; y=8.91402 to 16.59; z=5.69507 to 11.5139 bp_lists.cpp::AllocateAndZeroNewMask(): new image at (-1.23806,7.05693,4.45701) of size (10.7711,11.2663,8.29499) in microns bp_lists.cpp::RenderBPListIntoMask(): source image at (-1.23806,7.05693,4.45701) of size (10.7711,11.2663,8.29499) in microns bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(1.98089,1.60947,0.990447) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(6.93313,8.17118,6.3141) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(16,12,8) pixels bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.004186 seconds bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00831498 seconds bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000378013 seconds cell.cpp::GetCellPolarityAndCentreVector(): Computing principal axes cell.cpp::GetCellPolarityAndCentreVector(): axis1: (0.446656,0.89442,0.0226188) cell.cpp::GetCellPolarityAndCentreVector(): axis2: (0.888306,-0.446337,0.108143) cell.cpp::GetCellPolarityAndCentreVector(): axis3: (-0.106821,0.0282104,0.993878) cell.cpp::GetCellPolarityAndCentreVector(): val1: 1.51019e+07 cell.cpp::GetCellPolarityAndCentreVector(): val2: 9.01446e+06 cell.cpp::GetCellPolarityAndCentreVector(): val3: 8.11753e+06 cell.cpp::GetCellPolarityAndCentreVector(): polarity vector is: (0.446656,0.89442,0.0226187) cell.cpp::GetCellPolarityAndCentreVector(): centroid (in microns): (4.08559,12.6282,8.4188) cell.cpp::GenerateDotDistributionInG2Phase(): Generating nucleus mask. bp_lists.cpp::ResetBoundaryPoints(): source image at (0.742835,8.66641,5.44746) of size (7.05693,8.17118,6.4379) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 181701 points (11481 outer) with centre at (4.20299,12.6881,8.51786) cell.cpp::GenerateDotDistributionInG2Phase(): Nucleus mask created successfully. cell.cpp::GenerateDotDistributionInG2Phase(): Generating nucleoli. collisions.cpp::LocateAllFreePositions(): dilation of space image collisions.cpp::LocateAllFreePositions(): drawing border line collisions.cpp::LocateAllFreePositions(): performing convolution collisions.cpp::LocateAllFreePositions(): thresholding convolution result collisions.cpp::FindPosition(): sum of free positions: 26063 collisions.cpp::FindPosition(): searching finished cell.cpp::GenerateNucleolus(): attempt number: 1 cell.cpp::GenerateNucleolus(): shift: (3.66744,12.7053,6.39117) bp_lists.cpp::ResetBoundaryPoints(): source image at (3.66744,12.7053,6.39117) of size (2.72373,2.72373,2.72373) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 4947 points (333 outer) with centre at (5.123,14.1222,7.78538) collisions.cpp::LocateAllFreePositions(): dilation of space image collisions.cpp::LocateAllFreePositions(): drawing border line collisions.cpp::LocateAllFreePositions(): performing convolution collisions.cpp::LocateAllFreePositions(): thresholding convolution result collisions.cpp::FindPosition(): sum of free positions: 22855 collisions.cpp::FindPosition(): searching finished cell.cpp::GenerateNucleolus(): attempt number: 1 cell.cpp::GenerateNucleolus(): shift: (3.89473,10.085,6.37085) bp_lists.cpp::ResetBoundaryPoints(): source image at (3.89473,10.085,6.37085) of size (2.84753,2.84753,2.84753) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 4811 points (323 outer) with centre at (5.30642,11.5166,7.79557) cell.cpp::GenerateDotDistributionInG2Phase(): Nucleoli generated successfully. cellChr.cpp::ChrInitialDistribution(): 63951 pixels were found in the mask cellChr.cpp::ChrInitialDistribution(): going to use 5564 molecules for a chromosome, as 255944 is required total cell.cpp::GenerateDotDistributionInG2Phase(): Seeds placed for the new chromosomes. cellChr.cpp::ChrUpdateStats(): operation took 0.056556 seconds, percentil is 0.9 cellChr.cpp::ChrRenderIntoPhantoms(): going to render 255944 'chr' points, ID=2 cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.125643 seconds cell.cpp::GenerateDotDistributionInG2Phase(): Initial generation of dots and molecules finished. cell.h::Cell(): cell params loading started cell.h::Cell(): cell params loaded cell.h::Cell(): first stronger non-rigid will occur at frame 6 cell.h::Cell(): MITOCHECK MODE: enforcing custom turning angle distribution ala Mitocheck. randWalk.h::SetZstepLimit(): new Z anisotropy value: 0 [no units] cell.h::Cell(): MITOCHECK MODE: enforcing mean step size of 1.97383 microns ala Mitocheck. cell.h::Cell(): MITOCHECK MODE: enforcing new cellLookDistance of size 3.33253 microns due to Mitocheck. randWalk.h::ResetXYHeading(): new XY heading angle: 4.05445 radians cell.h::Cell(): new cell created with ID=3 and timePoint=0 cell.h::Cell(): new cell has cycle length 48 frames scheduler.cpp::Scheduler(): TESTING MODE: fixing initial G2 phase life to 50 frames. cell.h::SetDelay(): delay: 50 cell.cpp::ReadMaskInG2Phase(): Using mask image ID=3 for this cell with ID=3 bp_lists.cpp::ResetBoundaryPoints(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 227771 points (14387 outer) with centre at (65.6855,78.7756,8.11595) cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 with centre at (65.6855,78.7756,8.11595) in microns bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(62.0267,75.0263,4.3332) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.30455,7.67596,7.30454) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(500,606,35) pixels bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.004641 seconds bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00887901 seconds bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000438988 seconds cellScm.cpp::ScmRenderCellIntoMask(): 89053 dots were added (ID 3 ) bp_lists.cpp::AllocateAndZeroNewMask(): points span x=62.2743 to 69.0836; y=75.2739 to 82.4547; z=4.58082 to 11.3901 bp_lists.cpp::AllocateAndZeroNewMask(): new image at (60.2934,73.4169,3.09515) of size (10.6473,10.7711,9.65685) in microns bp_lists.cpp::RenderBPListIntoMask(): source image at (60.2934,73.4169,3.09515) of size (10.6473,10.7711,9.65685) in microns bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(1.73328,1.60947,1.23806) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.30455,7.67596,7.30454) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(13,12,10) pixels bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00424701 seconds bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.009047 seconds bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000762999 seconds cell.cpp::GetCellPolarityAndCentreVector(): Computing principal axes cell.cpp::GetCellPolarityAndCentreVector(): axis1: (-0.459513,0.880147,-0.119117) cell.cpp::GetCellPolarityAndCentreVector(): axis2: (-0.34423,-0.0528533,0.937397) cell.cpp::GetCellPolarityAndCentreVector(): axis3: (0.818751,0.47175,0.32726) cell.cpp::GetCellPolarityAndCentreVector(): val1: 1.66659e+07 cell.cpp::GetCellPolarityAndCentreVector(): val2: 1.28382e+07 cell.cpp::GetCellPolarityAndCentreVector(): val3: 1.2104e+07 cell.cpp::GetCellPolarityAndCentreVector(): polarity vector is: (-0.459513,0.880147,-0.119117) cell.cpp::GetCellPolarityAndCentreVector(): centroid (in microns): (65.6171,78.7405,8.04738) cell.cpp::GenerateDotDistributionInG2Phase(): Generating nucleus mask. bp_lists.cpp::ResetBoundaryPoints(): source image at (62.0267,75.0263,4.3332) of size (7.42835,7.79977,7.42835) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 203775 points (12867 outer) with centre at (65.6878,78.7665,8.12728) cell.cpp::GenerateDotDistributionInG2Phase(): Nucleus mask created successfully. cell.cpp::GenerateDotDistributionInG2Phase(): Generating nucleoli. collisions.cpp::LocateAllFreePositions(): dilation of space image collisions.cpp::LocateAllFreePositions(): drawing border line collisions.cpp::LocateAllFreePositions(): performing convolution collisions.cpp::LocateAllFreePositions(): thresholding convolution result collisions.cpp::FindPosition(): sum of free positions: 33956 collisions.cpp::FindPosition(): searching finished cell.cpp::GenerateNucleolus(): attempt number: 1 cell.cpp::GenerateNucleolus(): shift: (64.5241,76.5332,5.09728) bp_lists.cpp::ResetBoundaryPoints(): source image at (64.5241,76.5332,5.09728) of size (2.84753,2.84753,2.84753) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 5005 points (337 outer) with centre at (65.9906,77.9697,6.56495) collisions.cpp::LocateAllFreePositions(): dilation of space image collisions.cpp::LocateAllFreePositions(): drawing border line collisions.cpp::LocateAllFreePositions(): performing convolution collisions.cpp::LocateAllFreePositions(): thresholding convolution result collisions.cpp::FindPosition(): sum of free positions: 28529 collisions.cpp::FindPosition(): searching finished cell.cpp::GenerateNucleolus(): attempt number: 1 cell.cpp::GenerateNucleolus(): shift: (66.0893,77.8508,6.66249) bp_lists.cpp::ResetBoundaryPoints(): source image at (66.0893,77.8508,6.66249) of size (2.97134,2.97134,2.97134) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 5400 points (360 outer) with centre at (67.6148,79.3633,8.18358) cell.cpp::GenerateDotDistributionInG2Phase(): Nucleoli generated successfully. cellChr.cpp::ChrInitialDistribution(): 76950 pixels were found in the mask cellChr.cpp::ChrInitialDistribution(): going to use 6692 molecules for a chromosome, as 307832 is required total cell.cpp::GenerateDotDistributionInG2Phase(): Seeds placed for the new chromosomes. cellChr.cpp::ChrUpdateStats(): operation took 0.069254 seconds, percentil is 0.9 cellChr.cpp::ChrRenderIntoPhantoms(): going to render 307832 'chr' points, ID=3 cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.126568 seconds cell.cpp::GenerateDotDistributionInG2Phase(): Initial generation of dots and molecules finished. cell.h::Cell(): cell params loading started cell.h::Cell(): cell params loaded cell.h::Cell(): first stronger non-rigid will occur at frame 5 cell.h::Cell(): MITOCHECK MODE: enforcing custom turning angle distribution ala Mitocheck. randWalk.h::SetZstepLimit(): new Z anisotropy value: 0 [no units] cell.h::Cell(): MITOCHECK MODE: enforcing mean step size of 1.76402 microns ala Mitocheck. cell.h::Cell(): MITOCHECK MODE: enforcing new cellLookDistance of size 3.11222 microns due to Mitocheck. randWalk.h::ResetXYHeading(): new XY heading angle: 5.86584 radians cell.h::Cell(): new cell created with ID=4 and timePoint=0 cell.h::Cell(): new cell has cycle length 44 frames scheduler.cpp::Scheduler(): TESTING MODE: fixing initial G2 phase life to 50 frames. cell.h::SetDelay(): delay: 50 cell.cpp::ReadMaskInG2Phase(): Using mask image ID=4 for this cell with ID=4 bp_lists.cpp::ResetBoundaryPoints(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 194515 points (12301 outer) with centre at (7.10498,39.2767,8.69833) cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 with centre at (7.10498,39.2767,8.69833) in microns bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(2.47612,36.3989,5.69507) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(9.16163,5.81887,5.94268) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(19,294,46) pixels bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00359696 seconds bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.006194 seconds bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000371039 seconds cellScm.cpp::ScmRenderCellIntoMask(): 67660 dots were added (ID 4 ) bp_lists.cpp::AllocateAndZeroNewMask(): points span x=2.72373 to 11.3901; y=36.6465 to 41.9702; z=5.94268 to 11.3901 bp_lists.cpp::AllocateAndZeroNewMask(): new image at (0.619029,33.5514,4.70462) of size (12.752,11.5139,7.79977) in microns bp_lists.cpp::RenderBPListIntoMask(): source image at (0.619029,33.5514,4.70462) of size (12.752,11.5139,7.79977) in microns bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(1.85709,2.84753,0.990447) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(9.16163,5.81887,5.94268) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(14,23,8) pixels bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00366795 seconds bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.006504 seconds bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000311017 seconds cell.cpp::GetCellPolarityAndCentreVector(): Computing principal axes cell.cpp::GetCellPolarityAndCentreVector(): axis1: (-0.992967,0.117178,-0.0168827) cell.cpp::GetCellPolarityAndCentreVector(): axis2: (-0.0477915,-0.266281,0.96271) cell.cpp::GetCellPolarityAndCentreVector(): axis3: (0.108313,0.956747,0.270008) cell.cpp::GetCellPolarityAndCentreVector(): val1: 1.69069e+07 cell.cpp::GetCellPolarityAndCentreVector(): val2: 6.38e+06 cell.cpp::GetCellPolarityAndCentreVector(): val3: 6.11529e+06 cell.cpp::GetCellPolarityAndCentreVector(): polarity vector is: (-0.992967,0.117178,-0.0168827) cell.cpp::GetCellPolarityAndCentreVector(): centroid (in microns): (7.05693,39.2464,8.66641) cell.cpp::GenerateDotDistributionInG2Phase(): Generating nucleus mask. bp_lists.cpp::ResetBoundaryPoints(): source image at (2.47612,36.3989,5.69507) of size (9.16163,5.94268,6.06649) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 171382 points (10834 outer) with centre at (7.10369,39.2685,8.69279) cell.cpp::GenerateDotDistributionInG2Phase(): Nucleus mask created successfully. cell.cpp::GenerateDotDistributionInG2Phase(): Generating nucleoli. collisions.cpp::LocateAllFreePositions(): dilation of space image collisions.cpp::LocateAllFreePositions(): drawing border line collisions.cpp::LocateAllFreePositions(): performing convolution collisions.cpp::LocateAllFreePositions(): thresholding convolution result collisions.cpp::FindPosition(): sum of free positions: 21994 collisions.cpp::FindPosition(): searching finished cell.cpp::GenerateNucleolus(): attempt number: 1 cell.cpp::GenerateNucleolus(): shift: (6.59677,36.5578,7.58722) bp_lists.cpp::ResetBoundaryPoints(): source image at (6.59677,36.5578,7.58722) of size (2.84753,2.84753,2.84753) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 4739 points (317 outer) with centre at (8.018,37.9903,9.05414) collisions.cpp::LocateAllFreePositions(): dilation of space image collisions.cpp::LocateAllFreePositions(): drawing border line collisions.cpp::LocateAllFreePositions(): performing convolution collisions.cpp::LocateAllFreePositions(): thresholding convolution result collisions.cpp::FindPosition(): sum of free positions: 22313 collisions.cpp::FindPosition(): searching finished cell.cpp::GenerateNucleolus(): attempt number: 1 cell.cpp::GenerateNucleolus(): shift: (5.35675,38.4129,5.72817) bp_lists.cpp::ResetBoundaryPoints(): source image at (5.35675,38.4129,5.72817) of size (3.34276,3.34276,3.34276) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 2480 points (176 outer) with centre at (7.06471,40.1173,7.42698) cell.cpp::GenerateDotDistributionInG2Phase(): Nucleoli generated successfully. cellChr.cpp::ChrInitialDistribution(): 57510 pixels were found in the mask cellChr.cpp::ChrInitialDistribution(): going to use 5004 molecules for a chromosome, as 230184 is required total cell.cpp::GenerateDotDistributionInG2Phase(): Seeds placed for the new chromosomes. cellChr.cpp::ChrUpdateStats(): operation took 0.055576 seconds, percentil is 0.9 cellChr.cpp::ChrRenderIntoPhantoms(): going to render 230184 'chr' points, ID=4 cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.132891 seconds cell.cpp::GenerateDotDistributionInG2Phase(): Initial generation of dots and molecules finished. cell.h::Cell(): cell params loading started cell.h::Cell(): cell params loaded cell.h::Cell(): first stronger non-rigid will occur at frame 8 cell.h::Cell(): MITOCHECK MODE: enforcing custom turning angle distribution ala Mitocheck. randWalk.h::SetZstepLimit(): new Z anisotropy value: 0 [no units] cell.h::Cell(): MITOCHECK MODE: enforcing mean step size of 2.27762 microns ala Mitocheck. cell.h::Cell(): MITOCHECK MODE: enforcing new cellLookDistance of size 3.6515 microns due to Mitocheck. randWalk.h::ResetXYHeading(): new XY heading angle: 4.27761 radians cell.h::Cell(): new cell created with ID=5 and timePoint=0 cell.h::Cell(): new cell has cycle length 50 frames scheduler.cpp::Scheduler(): TESTING MODE: fixing initial G2 phase life to 50 frames. cell.h::SetDelay(): delay: 50 cell.cpp::ReadMaskInG2Phase(): Using mask image ID=5 for this cell with ID=5 bp_lists.cpp::ResetBoundaryPoints(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 194326 points (12292 outer) with centre at (54.287,32.3327,8.54858) cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 with centre at (54.287,32.3327,8.54858) in microns bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(50.6366,28.7229,5.44746) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.55215,7.05693,6.06649) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(409,232,44) pixels bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.003775 seconds bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00755399 seconds bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000322998 seconds cellScm.cpp::ScmRenderCellIntoMask(): 67965 dots were added (ID 5 ) bp_lists.cpp::AllocateAndZeroNewMask(): points span x=50.8842 to 57.9411; y=28.9706 to 35.5323; z=5.69507 to 11.2663 bp_lists.cpp::AllocateAndZeroNewMask(): new image at (49.1509,26.9897,4.45701) of size (10.5235,10.3997,7.92357) in microns bp_lists.cpp::RenderBPListIntoMask(): source image at (49.1509,26.9897,4.45701) of size (10.5235,10.3997,7.92357) in microns bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(1.48567,1.73328,0.990447) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.55215,7.05693,6.06649) microns (including 2px frame) bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(12,13,8) pixels bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00376004 seconds bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.007559 seconds bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000321984 seconds cell.cpp::GetCellPolarityAndCentreVector(): Computing principal axes cell.cpp::GetCellPolarityAndCentreVector(): axis1: (-0.862198,-0.155211,0.482208) cell.cpp::GetCellPolarityAndCentreVector(): axis2: (-0.219933,0.972203,-0.0803166) cell.cpp::GetCellPolarityAndCentreVector(): axis3: (0.456338,0.175302,0.872367) cell.cpp::GetCellPolarityAndCentreVector(): val1: 1.21635e+07 cell.cpp::GetCellPolarityAndCentreVector(): val2: 9.74009e+06 cell.cpp::GetCellPolarityAndCentreVector(): val3: 5.70827e+06 cell.cpp::GetCellPolarityAndCentreVector(): polarity vector is: (-0.862198,-0.155211,0.482208) cell.cpp::GetCellPolarityAndCentreVector(): centroid (in microns): (54.2269,32.3133,8.5426) cell.cpp::GenerateDotDistributionInG2Phase(): Generating nucleus mask. bp_lists.cpp::ResetBoundaryPoints(): source image at (50.6366,28.7229,5.44746) of size (7.67596,7.18074,6.19029) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 171687 points (10857 outer) with centre at (54.2837,32.3419,8.54549) cell.cpp::GenerateDotDistributionInG2Phase(): Nucleus mask created successfully. cell.cpp::GenerateDotDistributionInG2Phase(): Generating nucleoli. collisions.cpp::LocateAllFreePositions(): dilation of space image collisions.cpp::LocateAllFreePositions(): drawing border line collisions.cpp::LocateAllFreePositions(): performing convolution collisions.cpp::LocateAllFreePositions(): thresholding convolution result collisions.cpp::FindPosition(): sum of free positions: 20961 collisions.cpp::FindPosition(): searching finished cell.cpp::GenerateNucleolus(): attempt number: 1 cell.cpp::GenerateNucleolus(): shift: (51.7851,31.3571,6.34834) bp_lists.cpp::ResetBoundaryPoints(): source image at (51.7851,31.3571,6.34834) of size (2.84753,2.84753,2.84753) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 5438 points (362 outer) with centre at (53.2222,32.8082,7.8087) collisions.cpp::LocateAllFreePositions(): dilation of space image collisions.cpp::LocateAllFreePositions(): drawing border line collisions.cpp::LocateAllFreePositions(): performing convolution collisions.cpp::LocateAllFreePositions(): thresholding convolution result collisions.cpp::FindPosition(): sum of free positions: 16805 collisions.cpp::FindPosition(): searching finished cell.cpp::GenerateNucleolus(): attempt number: 1 cell.cpp::GenerateNucleolus(): shift: (52.1819,29.4016,7.85944) bp_lists.cpp::ResetBoundaryPoints(): source image at (52.1819,29.4016,7.85944) of size (2.84753,2.84753,2.84753) in microns bp_lists.cpp::ResetBoundaryPoints(): new list contains 5512 points (370 outer) with centre at (53.5893,30.8345,9.2899) cell.cpp::GenerateDotDistributionInG2Phase(): Nucleoli generated successfully. cellChr.cpp::ChrInitialDistribution(): 57358 pixels were found in the mask cellChr.cpp::ChrInitialDistribution(): going to use 4988 molecules for a chromosome, as 229448 is required total cell.cpp::GenerateDotDistributionInG2Phase(): Seeds placed for the new chromosomes. cellChr.cpp::ChrUpdateStats(): operation took 0.05022 seconds, percentil is 0.9 cellChr.cpp::ChrRenderIntoPhantoms(): going to render 229448 'chr' points, ID=5 cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.126609 seconds cell.cpp::GenerateDotDistributionInG2Phase(): Initial generation of dots and molecules finished. main.cpp::main(): going to work with scene of size (686,686,96) in pixels scheduler.cpp::PnInitArray(): Starting to load from cache file pnArray.cache scheduler.cpp::PnInitArray(): Discovered: RealWidth=197, pnSizes[]=198,197,197,18 scheduler.cpp::PnInitArray(): Reading power noise image of size 527 MBytes scheduler.cpp::PnInitArray(): Finished scheduler.cpp::PrintPhaseBudgets(): Overview of lengths of cell phases (in number of frames) when mean cell cycle length is 50. scheduler.cpp::PrintPhaseBudgets(): G1Phase: 3 times 8 frames, 24 frames in total scheduler.cpp::PrintPhaseBudgets(): SPhase: 2 times 8 frames, 16 frames in total scheduler.cpp::PrintPhaseBudgets(): G2Phase: 8 frames scheduler.cpp::PrintPhaseBudgets(): Prophase: 1 frames scheduler.cpp::PrintPhaseBudgets(): Metaphase: 2 frames scheduler.cpp::PrintPhaseBudgets(): Anaphase: 1 frames scheduler.cpp::PrintPhaseBudgets(): Telophase: 1 frames scheduler.cpp::PrintPhaseBudgets(): Cytokinesis: 1 frames main.cpp::main(): TESTING MODE: doing just single Run() of length (at least) 1 frames. scheduler.cpp::Run_st(): Detected available hardware threads: 56 scheduler.cpp::Run_st(): Starting 16 worker threads! Thread 0 at 00:00:17:373, Cell ID: 4, scheduler.cpp::RunFeeder_st(): Started processing of cell with ID=4 on frame no. 0 at Tue 2017-11-28, 10:04:03, there are 5 cells currently in the system Thread 0 at 00:00:17:373, Cell ID: 4, scheduler.cpp::AddNewScenes(): asked to add 7 frames Thread 0 at 00:00:17:373, Cell ID: 4, regionlock.h::printLockInfo(): TIME lock, waiting time: 0ms, timePoint: 0-0, sceneType: masks Thread 0 at 00:00:17:373, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 4 at 00:00:17:373, Cell ID: 2, scheduler.cpp::RunFeeder_st(): Started processing of cell with ID=2 on frame no. 0 at Tue 2017-11-28, 10:04:03, there are 5 cells currently in the system Thread 7 at 00:00:17:373, Cell ID: 3, scheduler.cpp::RunFeeder_st(): Started processing of cell with ID=3 on frame no. 0 at Tue 2017-11-28, 10:04:03, there are 5 cells currently in the system Thread 9 at 00:00:17:373, Cell ID: 5, scheduler.cpp::RunFeeder_st(): Started processing of cell with ID=5 on frame no. 0 at Tue 2017-11-28, 10:04:03, there are 5 cells currently in the system Thread 10 at 00:00:17:373, Cell ID: 1, scheduler.cpp::RunFeeder_st(): Started processing of cell with ID=1 on frame no. 0 at Tue 2017-11-28, 10:04:03, there are 5 cells currently in the system Thread 0 at 00:00:18:058, Cell ID: 4, scheduler.cpp::AddNewScenes(): 8 frames are kept in memory Thread 0 at 00:00:18:058, Cell ID: 4, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=4, STARTING G2-phase at timePoint=0 Thread 4 at 00:00:18:058, Cell ID: 2, scheduler.cpp::AddNewScenes(): asked to add 1 frames Thread 4 at 00:00:18:058, Cell ID: 2, regionlock.h::printLockInfo(): TIME lock, waiting time: 0ms, timePoint: 7-7, sceneType: masks Thread 4 at 00:00:18:058, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:18:059, Cell ID: 4, bp_lists.cpp::AllocateAndZeroNewMask(): points span x=2.72373 to 11.3901; y=36.6465 to 41.9702; z=5.94268 to 11.3901 Thread 0 at 00:00:18:072, Cell ID: 4, bp_lists.cpp::AllocateAndZeroNewMask(): new image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:18:072, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:18:073, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(19.4375,20.428,2.59992) microns (including 2px frame) Thread 0 at 00:00:18:073, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(8.5426,5.57126,5.69507) microns (including 2px frame) Thread 0 at 00:00:18:073, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(157,164,21) pixels Thread 0 at 00:00:18:073, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 0 at 00:00:18:077, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.004677 seconds Thread 0 at 00:00:18:086, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00943804 seconds Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000334978 seconds Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(23.9296,21.0821,5.23491) microns (including 2px frame) Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.60948,1.60947,1.23806) microns (including 2px frame) Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(193,170,42) pixels Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000172019 seconds Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000297964 seconds Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.50204e-05 seconds Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(23.1848,23.1848,3.74727) microns (including 2px frame) Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.23806,1.60947,0.990447) microns (including 2px frame) Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(187,187,30) pixels Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 9.29832e-05 seconds Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000203013 seconds Thread 0 at 00:00:18:087, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.00136e-05 seconds Thread 4 at 00:00:18:163, Cell ID: 2, scheduler.cpp::AddNewScenes(): 9 frames are kept in memory Thread 4 at 00:00:18:163, Cell ID: 2, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=2, STARTING G2-phase at timePoint=0 Thread 7 at 00:00:18:163, Cell ID: 3, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=3, STARTING G2-phase at timePoint=0 Thread 9 at 00:00:18:163, Cell ID: 5, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=5, STARTING G2-phase at timePoint=0 Thread 10 at 00:00:18:163, Cell ID: 1, scheduler.cpp::AddNewScenes(): asked to add 1 frames Thread 10 at 00:00:18:163, Cell ID: 1, regionlock.h::printLockInfo(): TIME lock, waiting time: 0ms, timePoint: 8-8, sceneType: masks Thread 10 at 00:00:18:163, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:18:165, Cell ID: 5, bp_lists.cpp::AllocateAndZeroNewMask(): points span x=50.8842 to 57.9411; y=28.9706 to 35.5323; z=5.69507 to 11.2663 Thread 4 at 00:00:18:167, Cell ID: 2, bp_lists.cpp::AllocateAndZeroNewMask(): points span x=0.990447 to 7.42835; y=8.91402 to 16.59; z=5.69507 to 11.5139 Thread 0 at 00:00:18:172, Cell ID: 4, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=4, doing G2-phase at timePoint=0 with sync Thread 0 at 00:00:18:172, Cell ID: 4, rnd_generators.cpp::GetRandomGauss(): randomness started with seed 18446744072939310688 Thread 7 at 00:00:18:173, Cell ID: 3, bp_lists.cpp::AllocateAndZeroNewMask(): points span x=62.2743 to 69.0836; y=75.2739 to 82.4547; z=4.58082 to 11.3901 Thread 4 at 00:00:18:190, Cell ID: 2, bp_lists.cpp::AllocateAndZeroNewMask(): new image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:18:190, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:18:191, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(21.1708,20.9232,2.84753) microns (including 2px frame) Thread 4 at 00:00:18:191, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(6.68551,7.55216,6.06648) microns (including 2px frame) Thread 4 at 00:00:18:191, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(171,169,23) pixels Thread 9 at 00:00:18:195, Cell ID: 5, bp_lists.cpp::AllocateAndZeroNewMask(): new image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:18:195, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:18:196, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(25.1326,25.3802,2.84753) microns (including 2px frame) Thread 9 at 00:00:18:196, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.05693,6.68551,5.81887) microns (including 2px frame) Thread 9 at 00:00:18:196, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(203,205,23) pixels Thread 4 at 00:00:18:198, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00791 seconds Thread 7 at 00:00:18:201, Cell ID: 3, bp_lists.cpp::AllocateAndZeroNewMask(): new image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:18:201, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 9 at 00:00:18:203, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.0078 seconds Thread 7 at 00:00:18:207, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(23.2755,23.0279,3.21895) microns (including 2px frame) Thread 7 at 00:00:18:207, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(6.80932,7.30455,6.93313) microns (including 2px frame) Thread 7 at 00:00:18:207, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(188,185,26) pixels Thread 7 at 00:00:18:214, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.013622 seconds Thread 4 at 00:00:18:216, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.017476 seconds Thread 4 at 00:00:18:216, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000567995 seconds Thread 4 at 00:00:18:216, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:18:216, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.4668,25.3335,4.41028) microns (including 2px frame) Thread 4 at 00:00:18:216, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.85709,1.60948,1.23806) microns (including 2px frame) Thread 4 at 00:00:18:216, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(197,204,35) pixels Thread 4 at 00:00:18:216, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:18:217, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000257 seconds Thread 9 at 00:00:18:217, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.014058 seconds Thread 4 at 00:00:18:217, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000359997 seconds Thread 4 at 00:00:18:217, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.70022e-05 seconds Thread 4 at 00:00:18:217, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:18:217, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.8179,22.7132,4.38995) microns (including 2px frame) Thread 4 at 00:00:18:217, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.60948,1.60948,1.36186) microns (including 2px frame) Thread 4 at 00:00:18:217, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(200,183,35) pixels Thread 4 at 00:00:18:217, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000238001 seconds Thread 9 at 00:00:18:217, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000488997 seconds Thread 9 at 00:00:18:217, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:18:217, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.6525,28.3858,4.36745) microns (including 2px frame) Thread 9 at 00:00:18:217, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.60947,1.60947,1.48567) microns (including 2px frame) Thread 9 at 00:00:18:217, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(215,229,35) pixels Thread 4 at 00:00:18:218, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000409 seconds Thread 9 at 00:00:18:218, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000253998 seconds Thread 4 at 00:00:18:218, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.8999e-05 seconds Thread 9 at 00:00:18:218, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000467002 seconds Thread 9 at 00:00:18:218, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 2.09957e-05 seconds Thread 9 at 00:00:18:218, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:18:218, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(27.0493,26.4303,5.75474) microns (including 2px frame) Thread 9 at 00:00:18:218, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.60947,1.60948,1.60948) microns (including 2px frame) Thread 9 at 00:00:18:218, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(218,213,46) pixels Thread 9 at 00:00:18:218, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000226997 seconds Thread 9 at 00:00:18:219, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000494003 seconds Thread 9 at 00:00:18:219, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 2.10032e-05 seconds Thread 7 at 00:00:18:234, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.020017 seconds Thread 7 at 00:00:18:235, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000653997 seconds Thread 7 at 00:00:18:235, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:18:235, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.1443,25.03,4.47826) microns (including 2px frame) Thread 7 at 00:00:18:235, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.73328,1.60948,1.36186) microns (including 2px frame) Thread 7 at 00:00:18:235, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(211,202,36) pixels Thread 7 at 00:00:18:235, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000317 seconds Thread 7 at 00:00:18:236, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000455998 seconds Thread 7 at 00:00:18:236, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.80006e-05 seconds Thread 7 at 00:00:18:236, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:18:236, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(27.8333,26.4714,6.16727) microns (including 2px frame) Thread 7 at 00:00:18:236, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.60947,1.60947,1.36186) microns (including 2px frame) Thread 7 at 00:00:18:236, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(224,213,49) pixels Thread 7 at 00:00:18:236, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 7 at 00:00:18:236, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000222005 seconds Thread 7 at 00:00:18:236, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000358999 seconds Thread 7 at 00:00:18:236, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.39996e-05 seconds Thread 0 at 00:00:18:238, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 57434 pixels Thread 10 at 00:00:18:274, Cell ID: 1, scheduler.cpp::AddNewScenes(): 10 frames are kept in memory Thread 10 at 00:00:18:274, Cell ID: 1, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=1, STARTING G2-phase at timePoint=0 Thread 10 at 00:00:18:277, Cell ID: 1, bp_lists.cpp::AllocateAndZeroNewMask(): points span x=12.0092 to 18.9423; y=17.5804 to 24.2659; z=7.55216 to 11.3901 Thread 10 at 00:00:18:291, Cell ID: 1, bp_lists.cpp::AllocateAndZeroNewMask(): new image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:18:291, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:18:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(22.5327,22.6565,2.72373) microns (including 2px frame) Thread 10 at 00:00:18:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(6.93313,6.68551,4.08559) microns (including 2px frame) Thread 10 at 00:00:18:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(181,183,22) pixels Thread 10 at 00:00:18:298, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.006552 seconds Thread 10 at 00:00:18:304, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00625901 seconds Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000265002 seconds Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(25.4433,26.0624,4.39634) microns (including 2px frame) Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.60948,1.73328,1.36186) microns (including 2px frame) Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(205,210,35) pixels Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000267997 seconds Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000308007 seconds Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.19954e-05 seconds Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(25.5493,23.816,4.50232) microns (including 2px frame) Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.48567,1.48567,1.73328) microns (including 2px frame) Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(206,192,36) pixels Thread 10 at 00:00:18:305, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000231996 seconds Thread 10 at 00:00:18:306, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000306994 seconds Thread 10 at 00:00:18:306, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.20103e-05 seconds Thread 4 at 00:00:18:318, Cell ID: 2, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=2, doing G2-phase at timePoint=0 with sync Thread 4 at 00:00:18:318, Cell ID: 2, rnd_generators.cpp::GetRandomGauss(): randomness started with seed 443762656 Thread 9 at 00:00:18:347, Cell ID: 5, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=5, doing G2-phase at timePoint=0 with sync Thread 9 at 00:00:18:347, Cell ID: 5, rnd_generators.cpp::GetRandomGauss(): randomness started with seed 887525312 Thread 7 at 00:00:18:362, Cell ID: 3, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=3, doing G2-phase at timePoint=0 with sync Thread 7 at 00:00:18:362, Cell ID: 3, rnd_generators.cpp::GetRandomGauss(): randomness started with seed 18446744071842591488 Thread 10 at 00:00:18:396, Cell ID: 1, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=1, doing G2-phase at timePoint=0 with sync Thread 10 at 00:00:18:396, Cell ID: 1, rnd_generators.cpp::GetRandomGauss(): randomness started with seed 117284384 Thread 4 at 00:00:18:397, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 64014 pixels Thread 9 at 00:00:18:450, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 57360 pixels Thread 10 at 00:00:18:464, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 40685 pixels Thread 7 at 00:00:18:467, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 76977 pixels Thread 0 at 00:00:18:570, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 0 at 00:00:18:725, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: masks, centre: [7.10498, 39.2767, 8.69833], radius: 8.75 Thread 0 at 00:00:18:725, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:18:725, Cell ID: 4, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 0 at 00:00:18:725, Cell ID: 4, rnd_generators.cpp::GetRandomUniform(): randomness started with seed 18446744072939310688 Thread 0 at 00:00:18:726, Cell ID: 4, flowfields.cpp::DescribeTranslation(): adding vector (1.79891,1.08347,0) to the flow field Thread 10 at 00:00:18:734, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 0 at 00:00:18:756, Cell ID: 4, flowfields.cpp::DescribeRotation(): adding rotation by 2.09147deg clockwise around (7.10498,39.2767,8.69833) in microns Thread 10 at 00:00:18:814, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: masks, centre: [15.5124, 20.9451, 9.42636], radius: 8.75 Thread 10 at 00:00:18:814, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:18:814, Cell ID: 1, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 10 at 00:00:18:814, Cell ID: 1, rnd_generators.cpp::GetRandomUniform(): randomness started with seed 117284384 Thread 10 at 00:00:18:815, Cell ID: 1, flowfields.cpp::DescribeTranslation(): adding vector (-1.89855,-0.0742222,0) to the flow field Thread 10 at 00:00:18:842, Cell ID: 1, flowfields.cpp::DescribeRotation(): adding rotation by 9.74327deg clockwise around (15.5124,20.9451,9.42636) in microns Thread 0 at 00:00:18:844, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 194515 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 4 at 00:00:18:858, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 0 at 00:00:18:868, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.90473,40.3604,8.69831) Thread 0 at 00:00:18:868, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 171382 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:18:889, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.90386,40.3521,8.69302) Thread 0 at 00:00:18:889, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 4739 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:18:890, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (9.8613,39.1082,9.05408) Thread 0 at 00:00:18:890, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 2480 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:18:890, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.82904,41.204,7.42575) Thread 0 at 00:00:18:890, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: masks, centre: [7.10498, 39.2767, 8.69833], radius: 8.75 Thread 0 at 00:00:18:890, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:18:890, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=4 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:18:890, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--121, y:253--381, z:6--95 Thread 0 at 00:00:18:893, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): 67660 dots were removed (ID 4) Thread 0 at 00:00:18:893, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:18:893, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 with centre at (8.90473,40.3604,8.69831) in microns Thread 0 at 00:00:18:893, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:18:894, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(4.24291,37.4688,5.69507) microns (including 2px frame) Thread 0 at 00:00:18:894, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(9.20556,5.81081,5.94268) microns (including 2px frame) Thread 0 at 00:00:18:894, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(34,302,46) pixels Thread 0 at 00:00:18:894, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 0 at 00:00:18:898, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00467104 seconds Thread 0 at 00:00:18:907, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00895798 seconds Thread 0 at 00:00:18:907, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000391006 seconds Thread 0 at 00:00:18:925, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): 67770 dots were added (ID 4 ) Thread 0 at 00:00:18:930, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:18:930, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(21.2132,21.4978,2.59992) microns (including 2px frame) Thread 0 at 00:00:18:930, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(8.59598,5.56336,5.69507) microns (including 2px frame) Thread 0 at 00:00:18:930, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(171,173,21) pixels Thread 0 at 00:00:18:930, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 10 at 00:00:18:932, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 162620 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 0 at 00:00:18:934, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00409502 seconds Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.007783 seconds Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000317991 seconds Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(25.7597,22.1889,5.23491) microns (including 2px frame) Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.64036,1.63584,1.23806) microns (including 2px frame) Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(208,179,42) pixels Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000140965 seconds Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000298023 seconds Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.19805e-05 seconds Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.9387,24.254,3.74727) microns (including 2px frame) Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.26919,1.63584,0.990447) microns (including 2px frame) Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(201,195,30) pixels Thread 0 at 00:00:18:942, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 7.80225e-05 seconds Thread 0 at 00:00:18:943, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000229001 seconds Thread 0 at 00:00:18:943, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.10269e-05 seconds Thread 10 at 00:00:18:949, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (13.6127,20.8712,9.42653) Thread 10 at 00:00:18:949, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 139637 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:18:965, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (13.5991,20.8789,9.43379) Thread 10 at 00:00:18:965, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 5023 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:18:965, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (13.6842,21.7696,9.79304) Thread 10 at 00:00:18:965, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 4639 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:18:966, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (14.1004,19.4076,10.1458) Thread 10 at 00:00:18:966, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: masks, centre: [15.5124, 20.9451, 9.42636], radius: 8.75 Thread 10 at 00:00:18:966, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:18:966, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=1 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:18:966, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:61--189, y:105--233, z:12--95 Thread 7 at 00:00:18:967, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 10 at 00:00:18:968, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): 49412 dots were removed (ID 1) Thread 10 at 00:00:18:968, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:18:968, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 with centre at (13.6127,20.8712,9.42653) in microns Thread 10 at 00:00:18:968, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:18:969, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(9.68678,17.1962,7.30454) microns (including 2px frame) Thread 10 at 00:00:18:969, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.74739,7.35668,4.3332) microns (including 2px frame) Thread 10 at 00:00:18:969, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(78,138,59) pixels Thread 10 at 00:00:18:972, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00325698 seconds Thread 10 at 00:00:18:981, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00899798 seconds Thread 10 at 00:00:18:981, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000262022 seconds Thread 9 at 00:00:18:988, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 10 at 00:00:19:002, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): 49729 dots were added (ID 1 ) Thread 4 at 00:00:19:004, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: masks, centre: [4.2114, 12.6927, 8.51112], radius: 8.75 Thread 4 at 00:00:19:005, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 4 at 00:00:19:005, Cell ID: 2, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 4 at 00:00:19:005, Cell ID: 2, rnd_generators.cpp::GetRandomUniform(): randomness started with seed 443762656 Thread 10 at 00:00:19:007, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:19:008, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(20.4753,22.5162,2.72373) microns (including 2px frame) Thread 10 at 00:00:19:008, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.23835,6.8686,4.08559) microns (including 2px frame) Thread 10 at 00:00:19:008, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(165,181,22) pixels Thread 4 at 00:00:19:008, Cell ID: 2, cellScm.cpp::ScmUniversalMovement(): RndWalk not lucky, going the slow way. Thread 4 at 00:00:19:008, Cell ID: 2, cellScm.cpp::ScmSuggestTranslationsTowardsEmpty_SS(): MovsMask will have size (49,49,5) Thread 10 at 00:00:19:010, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00285602 seconds Thread 0 at 00:00:19:010, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 57581 pixels Thread 10 at 00:00:19:015, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00527102 seconds Thread 10 at 00:00:19:015, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000211 seconds Thread 10 at 00:00:19:015, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:19:015, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(23.3542,25.9884,4.39634) microns (including 2px frame) Thread 10 at 00:00:19:015, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.69816,1.77828,1.36186) microns (including 2px frame) Thread 10 at 00:00:19:015, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(188,209,35) pixels Thread 10 at 00:00:19:016, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000136018 seconds Thread 10 at 00:00:19:016, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000277996 seconds Thread 10 at 00:00:19:016, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.10269e-05 seconds Thread 10 at 00:00:19:016, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:19:016, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(23.8598,23.7296,4.50232) microns (including 2px frame) Thread 10 at 00:00:19:016, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.57614,1.57614,1.73328) microns (including 2px frame) Thread 10 at 00:00:19:016, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(192,191,36) pixels Thread 10 at 00:00:19:016, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000126004 seconds Thread 10 at 00:00:19:016, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000270009 seconds Thread 10 at 00:00:19:016, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.00136e-05 seconds Thread 10 at 00:00:19:075, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 40902 pixels Thread 7 at 00:00:19:087, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: masks, centre: [65.6855, 78.7756, 8.11595], radius: 8.75 Thread 7 at 00:00:19:087, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:19:087, Cell ID: 3, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 7 at 00:00:19:087, Cell ID: 3, rnd_generators.cpp::GetRandomUniform(): randomness started with seed 18446744071842591488 Thread 7 at 00:00:19:088, Cell ID: 3, flowfields.cpp::DescribeTranslation(): adding vector (-1.33184,0.886676,0) to the flow field Thread 7 at 00:00:19:123, Cell ID: 3, flowfields.cpp::DescribeRotation(): adding rotation by 12.7049deg clockwise around (65.6855,78.7756,8.11595) in microns Thread 9 at 00:00:19:125, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: masks, centre: [54.287, 32.3327, 8.54858], radius: 8.75 Thread 9 at 00:00:19:125, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:19:125, Cell ID: 5, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 9 at 00:00:19:125, Cell ID: 5, rnd_generators.cpp::GetRandomUniform(): randomness started with seed 887525312 Thread 9 at 00:00:19:126, Cell ID: 5, flowfields.cpp::DescribeTranslation(): adding vector (-0.999883,0.0153189,0) to the flow field Thread 9 at 00:00:19:167, Cell ID: 5, flowfields.cpp::DescribeRotation(): adding rotation by 1.1575deg clockwise around (54.287,32.3327,8.54858) in microns Thread 7 at 00:00:19:232, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 227771 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:19:255, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (64.3537,79.662,8.11624) Thread 7 at 00:00:19:255, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 203775 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:19:275, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (64.3579,79.6537,8.1271) Thread 7 at 00:00:19:275, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5005 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:19:276, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (64.8295,78.9429,6.56623) Thread 7 at 00:00:19:276, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5400 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:19:276, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (66.1058,80.6599,8.18319) Thread 7 at 00:00:19:276, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: masks, centre: [65.6855, 78.7756, 8.11595], radius: 8.75 Thread 7 at 00:00:19:276, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:19:277, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=3 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:19:277, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:466--594, y:572--685, z:1--95 Thread 7 at 00:00:19:279, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): 89053 dots were removed (ID 3) Thread 7 at 00:00:19:279, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:19:279, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 with centre at (64.3537,79.662,8.11624) in microns Thread 7 at 00:00:19:279, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:19:279, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(60.5955,75.9411,4.3332) microns (including 2px frame) Thread 7 at 00:00:19:279, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.41362,7.51551,7.30454) microns (including 2px frame) Thread 7 at 00:00:19:279, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(489,613,35) pixels Thread 7 at 00:00:19:283, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.004283 seconds Thread 7 at 00:00:19:293, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00967799 seconds Thread 7 at 00:00:19:293, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000434011 seconds Thread 0 at 00:00:19:304, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 9 at 00:00:19:305, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 194326 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 7 at 00:00:19:309, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): 89605 dots were added (ID 3 ) Thread 7 at 00:00:19:316, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:19:316, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(21.7838,23.9396,3.21895) microns (including 2px frame) Thread 7 at 00:00:19:316, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.10575,7.18042,6.93313) microns (including 2px frame) Thread 7 at 00:00:19:316, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(175,193,26) pixels Thread 7 at 00:00:19:319, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.003861 seconds Thread 7 at 00:00:19:328, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00839101 seconds Thread 7 at 00:00:19:328, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000385001 seconds Thread 7 at 00:00:19:328, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:19:328, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.9044,25.94,4.47826) microns (including 2px frame) Thread 7 at 00:00:19:328, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.83912,1.71834,1.36186) microns (including 2px frame) Thread 7 at 00:00:19:328, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(201,209,36) pixels Thread 7 at 00:00:19:328, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000117004 seconds Thread 7 at 00:00:19:329, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000253007 seconds Thread 7 at 00:00:19:329, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 9.99868e-06 seconds Thread 7 at 00:00:19:329, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:19:329, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.2622,27.6631,6.16727) microns (including 2px frame) Thread 7 at 00:00:19:329, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.69111,1.7728,1.36186) microns (including 2px frame) Thread 7 at 00:00:19:329, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(212,223,49) pixels Thread 7 at 00:00:19:329, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000125006 seconds Thread 7 at 00:00:19:329, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000287995 seconds Thread 7 at 00:00:19:329, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.1012e-05 seconds Thread 9 at 00:00:19:329, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (53.2865,32.3486,8.5487) Thread 9 at 00:00:19:329, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 171687 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:19:351, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (53.2827,32.3572,8.54509) Thread 9 at 00:00:19:351, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5438 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:19:352, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (52.2134,32.8026,7.80836) Thread 9 at 00:00:19:352, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5512 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:19:352, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (52.6189,30.8369,9.29154) Thread 9 at 00:00:19:352, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: masks, centre: [54.287, 32.3327, 8.54858], radius: 8.75 Thread 9 at 00:00:19:352, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:19:352, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=5 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:19:352, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:374--502, y:197--325, z:5--95 Thread 9 at 00:00:19:355, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): 67965 dots were removed (ID 5) Thread 9 at 00:00:19:355, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:19:355, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 with centre at (53.2865,32.3486,8.5487) in microns Thread 9 at 00:00:19:355, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:19:355, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(49.6178,28.7177,5.44746) microns (including 2px frame) Thread 9 at 00:00:19:355, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.57572,7.10061,6.06649) microns (including 2px frame) Thread 9 at 00:00:19:355, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(400,231,44) pixels Thread 9 at 00:00:19:360, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00470001 seconds Thread 9 at 00:00:19:370, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.010237 seconds Thread 9 at 00:00:19:370, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000400007 seconds Thread 10 at 00:00:19:376, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 9 at 00:00:19:388, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): 68002 dots were added (ID 5 ) Thread 9 at 00:00:19:395, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:19:396, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.1137,25.3749,2.84753) microns (including 2px frame) Thread 9 at 00:00:19:396, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.0806,6.72176,5.81887) microns (including 2px frame) Thread 9 at 00:00:19:396, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(194,204,23) pixels Thread 0 at 00:00:19:396, Cell ID: 4, cellChr.cpp::ChrUpdateStats(): operation took 0.057663 seconds, percentil is 0.9 Thread 0 at 00:00:19:396, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: phantoms, centre: [8.90473, 40.3604, 8.69831], radius: 8.75 Thread 0 at 00:00:19:396, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:19:396, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 230184 'chr' points, ID=4 Thread 9 at 00:00:19:400, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00447401 seconds Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00877601 seconds Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000342995 seconds Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(25.6376,28.3756,4.36745) microns (including 2px frame) Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.62175,1.62175,1.48567) microns (including 2px frame) Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(207,229,35) pixels Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000147998 seconds Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000376999 seconds Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.60038e-05 seconds Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.0789,26.4235,5.75474) microns (including 2px frame) Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.60924,1.62675,1.60948) microns (including 2px frame) Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(210,213,46) pixels Thread 9 at 00:00:19:409, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 9 at 00:00:19:410, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000153005 seconds Thread 9 at 00:00:19:410, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000353009 seconds Thread 9 at 00:00:19:410, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.5974e-05 seconds Thread 7 at 00:00:19:412, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 77404 pixels Thread 10 at 00:00:19:449, Cell ID: 1, cellChr.cpp::ChrUpdateStats(): operation took 0.047362 seconds, percentil is 0.9 Thread 10 at 00:00:19:449, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: phantoms, centre: [13.6127, 20.8712, 9.42653], radius: 8.75 Thread 10 at 00:00:19:449, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:19:449, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 162656 'chr' points, ID=1 Thread 9 at 00:00:19:519, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 57362 pixels Thread 0 at 00:00:19:524, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.127671 seconds Thread 0 at 00:00:19:525, Cell ID: 4, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=4, doing G2-phase at timePoint=1 with sync Thread 10 at 00:00:19:585, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.135104 seconds Thread 10 at 00:00:19:585, Cell ID: 1, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=1, doing G2-phase at timePoint=1 with sync Thread 0 at 00:00:19:604, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: masks, centre: [8.90473, 40.3604, 8.69831], radius: 8.75 Thread 0 at 00:00:19:604, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:19:604, Cell ID: 4, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 0 at 00:00:19:606, Cell ID: 4, flowfields.cpp::DescribeTranslation(): adding vector (1.13417,0.391993,0) to the flow field Thread 0 at 00:00:19:631, Cell ID: 4, flowfields.cpp::DescribeRotation(): adding rotation by -22.8992deg clockwise around (8.90473,40.3604,8.69831) in microns Thread 10 at 00:00:19:659, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: masks, centre: [13.6127, 20.8712, 9.42653], radius: 8.75 Thread 10 at 00:00:19:659, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:19:659, Cell ID: 1, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 10 at 00:00:19:660, Cell ID: 1, flowfields.cpp::DescribeTranslation(): adding vector (-0.692059,0.575373,0) to the flow field Thread 10 at 00:00:19:688, Cell ID: 1, flowfields.cpp::DescribeRotation(): adding rotation by 10.392deg clockwise around (13.6127,20.8712,9.42653) in microns Thread 0 at 00:00:19:701, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 194515 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:19:721, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.0389,40.7524,8.69831) Thread 0 at 00:00:19:721, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 171382 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:19:738, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.0349,40.7451,8.69302) Thread 0 at 00:00:19:738, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 4739 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:19:738, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.4328,39.2266,9.05408) Thread 0 at 00:00:19:738, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 2480 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:19:739, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.2974,41.559,7.42575) Thread 0 at 00:00:19:739, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: masks, centre: [7.10498, 39.2767, 8.69833], radius: 8.75 Thread 0 at 00:00:19:739, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:19:739, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=4 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:19:739, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--121, y:253--381, z:6--95 Thread 0 at 00:00:19:741, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): 67660 dots were removed (ID 4) Thread 0 at 00:00:19:741, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:19:741, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 with centre at (10.0389,40.7524,8.69831) in microns Thread 0 at 00:00:19:741, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:19:742, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(5.75594,37.2717,5.69507) microns (including 2px frame) Thread 0 at 00:00:19:742, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(8.58483,6.98318,5.94268) microns (including 2px frame) Thread 0 at 00:00:19:742, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(46,301,46) pixels Thread 0 at 00:00:19:745, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00392604 seconds Thread 0 at 00:00:19:754, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00904197 seconds Thread 0 at 00:00:19:755, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000337005 seconds Thread 0 at 00:00:19:770, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): 68495 dots were added (ID 4 ) Thread 0 at 00:00:19:775, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:19:775, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(22.7012,21.4084,2.59992) microns (including 2px frame) Thread 0 at 00:00:19:775, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(8.1219,6.54803,5.69507) microns (including 2px frame) Thread 0 at 00:00:19:775, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(183,172,21) pixels Thread 0 at 00:00:19:775, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 0 at 00:00:19:778, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00342697 seconds Thread 10 at 00:00:19:780, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 162620 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00759602 seconds Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000289977 seconds Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.3132,22.2435,5.23491) microns (including 2px frame) Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.71272,1.80068,1.23806) microns (including 2px frame) Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(212,179,42) pixels Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000115991 seconds Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000254989 seconds Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.20401e-05 seconds Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.232,24.6334,3.74727) microns (including 2px frame) Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.58543,1.59699,0.990447) microns (including 2px frame) Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(211,198,30) pixels Thread 0 at 00:00:19:786, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 0 at 00:00:19:787, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 7.20024e-05 seconds Thread 0 at 00:00:19:787, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000184 seconds Thread 0 at 00:00:19:787, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.00136e-05 seconds Thread 10 at 00:00:19:801, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (12.9206,21.4465,9.42653) Thread 10 at 00:00:19:801, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 139637 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:19:818, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (12.9058,21.4517,9.43379) Thread 10 at 00:00:19:818, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 5023 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:19:819, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (12.8289,22.3431,9.79304) Thread 10 at 00:00:19:819, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 4639 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:19:819, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (13.6644,20.095,10.1458) Thread 10 at 00:00:19:819, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: masks, centre: [15.5124, 20.9451, 9.42636], radius: 8.75 Thread 10 at 00:00:19:819, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:19:819, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=1 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:19:819, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:61--189, y:105--233, z:12--95 Thread 10 at 00:00:19:822, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): 49412 dots were removed (ID 1) Thread 10 at 00:00:19:822, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:19:822, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 with centre at (12.9206,21.4465,9.42653) in microns Thread 10 at 00:00:19:822, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:19:822, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(8.92383,17.7172,7.30454) microns (including 2px frame) Thread 10 at 00:00:19:822, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.95384,7.43465,4.3332) microns (including 2px frame) Thread 10 at 00:00:19:822, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(72,143,59) pixels Thread 10 at 00:00:19:826, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00393301 seconds Thread 10 at 00:00:19:834, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.008376 seconds Thread 10 at 00:00:19:834, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000310004 seconds Thread 7 at 00:00:19:836, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 0 at 00:00:19:841, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 58186 pixels Thread 10 at 00:00:19:855, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): 49968 dots were added (ID 1 ) Thread 10 at 00:00:19:860, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:19:860, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(19.7224,23.0258,2.72373) microns (including 2px frame) Thread 10 at 00:00:19:860, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.40365,6.96969,4.08559) microns (including 2px frame) Thread 10 at 00:00:19:860, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(159,185,22) pixels Thread 10 at 00:00:19:863, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00352502 seconds Thread 10 at 00:00:19:870, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00660199 seconds Thread 10 at 00:00:19:870, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000253022 seconds Thread 10 at 00:00:19:870, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:19:870, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(22.4761,26.5552,4.39634) microns (including 2px frame) Thread 10 at 00:00:19:870, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.75447,1.78547,1.36186) microns (including 2px frame) Thread 10 at 00:00:19:870, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(181,214,35) pixels Thread 10 at 00:00:19:870, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000171006 seconds Thread 10 at 00:00:19:871, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000362992 seconds Thread 10 at 00:00:19:871, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.29938e-05 seconds Thread 10 at 00:00:19:871, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:19:871, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(23.3915,24.3548,4.50232) microns (including 2px frame) Thread 10 at 00:00:19:871, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.63823,1.63823,1.73328) microns (including 2px frame) Thread 10 at 00:00:19:871, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(188,196,36) pixels Thread 10 at 00:00:19:871, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000149965 seconds Thread 10 at 00:00:19:871, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00039202 seconds Thread 10 at 00:00:19:871, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.69873e-05 seconds Thread 10 at 00:00:19:938, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 41065 pixels Thread 7 at 00:00:19:949, Cell ID: 3, cellChr.cpp::ChrUpdateStats(): operation took 0.071859 seconds, percentil is 0.9 Thread 7 at 00:00:19:949, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: phantoms, centre: [64.3537, 79.662, 8.11624], radius: 8.75 Thread 7 at 00:00:19:949, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:19:949, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 307832 'chr' points, ID=3 Thread 9 at 00:00:20:043, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 7 at 00:00:20:066, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.116893 seconds Thread 7 at 00:00:20:067, Cell ID: 3, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=3, doing G2-phase at timePoint=1 with sync Thread 0 at 00:00:20:111, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 9 at 00:00:20:127, Cell ID: 5, cellChr.cpp::ChrUpdateStats(): operation took 0.052184 seconds, percentil is 0.9 Thread 9 at 00:00:20:127, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: phantoms, centre: [53.2865, 32.3486, 8.5487], radius: 8.75 Thread 9 at 00:00:20:127, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:20:127, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 229448 'chr' points, ID=5 Thread 7 at 00:00:20:173, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: masks, centre: [64.3537, 79.662, 8.11624], radius: 8.75 Thread 7 at 00:00:20:173, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:20:173, Cell ID: 3, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 7 at 00:00:20:175, Cell ID: 3, flowfields.cpp::DescribeTranslation(): adding vector (1.26454,0.301575,0) to the flow field Thread 0 at 00:00:20:190, Cell ID: 4, cellChr.cpp::ChrUpdateStats(): operation took 0.053366 seconds, percentil is 0.9 Thread 0 at 00:00:20:190, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: phantoms, centre: [10.0389, 40.7524, 8.69831], radius: 8.75 Thread 0 at 00:00:20:190, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:20:190, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 230184 'chr' points, ID=4 Thread 7 at 00:00:20:208, Cell ID: 3, flowfields.cpp::DescribeRotation(): adding rotation by -11.5871deg clockwise around (64.3537,79.662,8.11624) in microns Thread 10 at 00:00:20:217, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 9 at 00:00:20:244, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.117073 seconds Thread 9 at 00:00:20:245, Cell ID: 5, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=5, doing G2-phase at timePoint=1 with sync Thread 10 at 00:00:20:290, Cell ID: 1, cellChr.cpp::ChrUpdateStats(): operation took 0.046864 seconds, percentil is 0.9 Thread 10 at 00:00:20:290, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: phantoms, centre: [12.9206, 21.4465, 9.42653], radius: 8.75 Thread 10 at 00:00:20:290, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:20:290, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 162656 'chr' points, ID=1 Thread 0 at 00:00:20:307, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.117651 seconds Thread 0 at 00:00:20:309, Cell ID: 4, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=4, doing G2-phase at timePoint=2 with sync Thread 7 at 00:00:20:322, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 227771 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 9 at 00:00:20:338, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: masks, centre: [53.2865, 32.3486, 8.5487], radius: 8.75 Thread 9 at 00:00:20:338, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:20:338, Cell ID: 5, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 9 at 00:00:20:339, Cell ID: 5, flowfields.cpp::DescribeTranslation(): adding vector (1.92054,0.558146,0) to the flow field Thread 7 at 00:00:20:348, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (65.6182,79.9636,8.11624) Thread 7 at 00:00:20:348, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 203775 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:20:372, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (65.6207,79.9546,8.1271) Thread 7 at 00:00:20:372, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5005 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:20:372, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (65.9399,79.1636,6.56623) Thread 7 at 00:00:20:372, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5400 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:20:373, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (67.535,80.5892,8.18319) Thread 7 at 00:00:20:373, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: masks, centre: [65.6855, 78.7756, 8.11595], radius: 8.75 Thread 7 at 00:00:20:373, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:20:373, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=3 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:20:373, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:466--594, y:572--685, z:1--95 Thread 7 at 00:00:20:375, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): 89053 dots were removed (ID 3) Thread 7 at 00:00:20:375, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:20:375, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 with centre at (65.6182,79.9636,8.11624) in microns Thread 7 at 00:00:20:375, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:20:376, Cell ID: 5, flowfields.cpp::DescribeRotation(): adding rotation by 15.4242deg clockwise around (53.2865,32.3486,8.5487) in microns Thread 7 at 00:00:20:376, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(61.9439,76.2115,4.3332) microns (including 2px frame) Thread 7 at 00:00:20:376, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.32257,7.67458,7.30454) microns (including 2px frame) Thread 7 at 00:00:20:376, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(500,615,35) pixels Thread 7 at 00:00:20:376, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 7 at 00:00:20:380, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00454099 seconds Thread 0 at 00:00:20:388, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: masks, centre: [10.0389, 40.7524, 8.69831], radius: 8.75 Thread 0 at 00:00:20:388, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:20:388, Cell ID: 4, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 0 at 00:00:20:389, Cell ID: 4, flowfields.cpp::DescribeTranslation(): adding vector (0.663099,1.56534,0) to the flow field Thread 7 at 00:00:20:391, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.010752 seconds Thread 7 at 00:00:20:391, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000421003 seconds Thread 7 at 00:00:20:408, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): 89115 dots were added (ID 3 ) Thread 0 at 00:00:20:411, Cell ID: 4, flowfields.cpp::DescribeRotation(): adding rotation by -4.58201deg clockwise around (10.0389,40.7524,8.69831) in microns Thread 7 at 00:00:20:414, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 10 at 00:00:20:415, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.12498 seconds Thread 7 at 00:00:20:415, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(23.1878,24.213,3.21895) microns (including 2px frame) Thread 7 at 00:00:20:415, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(6.84677,7.30568,6.93313) microns (including 2px frame) Thread 7 at 00:00:20:415, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(187,195,26) pixels Thread 10 at 00:00:20:415, Cell ID: 1, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=1, doing G2-phase at timePoint=2 with sync Thread 7 at 00:00:20:418, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00395298 seconds Thread 7 at 00:00:20:427, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00877303 seconds Thread 7 at 00:00:20:427, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000392973 seconds Thread 7 at 00:00:20:427, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:20:427, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.0846,26.2176,4.47826) microns (including 2px frame) Thread 7 at 00:00:20:427, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.74513,1.62135,1.36186) microns (including 2px frame) Thread 7 at 00:00:20:427, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(210,211,36) pixels Thread 7 at 00:00:20:428, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000118017 seconds Thread 7 at 00:00:20:428, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000252008 seconds Thread 7 at 00:00:20:428, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.09971e-05 seconds Thread 7 at 00:00:20:428, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:20:428, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(27.7476,27.6869,6.16727) microns (including 2px frame) Thread 7 at 00:00:20:428, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.61893,1.62617,1.36186) microns (including 2px frame) Thread 7 at 00:00:20:428, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(224,223,49) pixels Thread 7 at 00:00:20:428, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000123978 seconds Thread 7 at 00:00:20:428, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000269026 seconds Thread 7 at 00:00:20:428, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.5974e-05 seconds Thread 10 at 00:00:20:482, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: masks, centre: [12.9206, 21.4465, 9.42653], radius: 8.75 Thread 10 at 00:00:20:482, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:20:482, Cell ID: 1, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 10 at 00:00:20:482, Cell ID: 1, cellScm.cpp::ScmUniversalMovement(): MITOCHECK MODE: trying 3x longer step ala Mitocheck. Thread 10 at 00:00:20:483, Cell ID: 1, flowfields.cpp::DescribeTranslation(): adding vector (-4.67993,3.75476,0) to the flow field Thread 9 at 00:00:20:487, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 194326 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 0 at 00:00:20:487, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 194515 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 10 at 00:00:20:507, Cell ID: 1, flowfields.cpp::DescribeRotation(): adding rotation by 5.00174deg clockwise around (12.9206,21.4465,9.42653) in microns Thread 9 at 00:00:20:508, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (55.207,32.9067,8.5487) Thread 9 at 00:00:20:508, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 171687 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 0 at 00:00:20:508, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.702,42.3177,8.69831) Thread 0 at 00:00:20:508, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 171382 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 7 at 00:00:20:510, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 77008 pixels Thread 0 at 00:00:20:526, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.6974,42.3108,8.69302) Thread 0 at 00:00:20:526, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 4739 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 9 at 00:00:20:527, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (55.2011,32.914,8.54509) Thread 9 at 00:00:20:527, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5438 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 0 at 00:00:20:527, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.9728,40.7654,9.05408) Thread 0 at 00:00:20:527, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 2480 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:20:527, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (11.0242,43.1011,7.42575) Thread 0 at 00:00:20:527, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: masks, centre: [7.10498, 39.2767, 8.69833], radius: 8.75 Thread 0 at 00:00:20:527, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:20:527, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=4 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:20:527, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--121, y:253--381, z:6--95 Thread 9 at 00:00:20:527, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (54.0518,33.059,7.80836) Thread 9 at 00:00:20:527, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5512 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:20:528, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (54.9656,31.2719,9.29154) Thread 9 at 00:00:20:528, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: masks, centre: [54.287, 32.3327, 8.54858], radius: 8.75 Thread 9 at 00:00:20:528, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:20:528, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=5 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:20:528, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:374--502, y:197--325, z:5--95 Thread 0 at 00:00:20:530, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): 67660 dots were removed (ID 4) Thread 0 at 00:00:20:530, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:20:530, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 with centre at (10.702,42.3177,8.69831) in microns Thread 0 at 00:00:20:530, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:20:530, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(6.54126,38.7593,5.69507) microns (including 2px frame) Thread 0 at 00:00:20:530, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(8.36629,7.15695,5.94268) microns (including 2px frame) Thread 0 at 00:00:20:530, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(52,313,46) pixels Thread 9 at 00:00:20:530, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): 67965 dots were removed (ID 5) Thread 9 at 00:00:20:530, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:20:530, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 with centre at (55.207,32.9067,8.5487) in microns Thread 9 at 00:00:20:530, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:20:531, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(51.4217,29.1366,5.44746) microns (including 2px frame) Thread 9 at 00:00:20:531, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.612,7.42003,6.06649) microns (including 2px frame) Thread 9 at 00:00:20:531, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(415,235,44) pixels Thread 0 at 00:00:20:534, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00396702 seconds Thread 9 at 00:00:20:534, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00395 seconds Thread 0 at 00:00:20:543, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00907898 seconds Thread 9 at 00:00:20:543, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00861701 seconds Thread 0 at 00:00:20:543, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000367999 seconds Thread 9 at 00:00:20:543, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000346005 seconds Thread 9 at 00:00:20:559, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): 68607 dots were added (ID 5 ) Thread 0 at 00:00:20:562, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): 68606 dots were added (ID 4 ) Thread 9 at 00:00:20:566, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:20:566, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(25.9075,25.7836,2.84753) microns (including 2px frame) Thread 9 at 00:00:20:566, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.13737,6.95806,5.81887) microns (including 2px frame) Thread 9 at 00:00:20:566, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(209,208,23) pixels Thread 0 at 00:00:20:566, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:20:567, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(23.4787,22.8882,2.59992) microns (including 2px frame) Thread 0 at 00:00:20:567, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.9189,6.71525,5.69507) microns (including 2px frame) Thread 0 at 00:00:20:567, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(189,184,21) pixels Thread 0 at 00:00:20:567, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 9 at 00:00:20:569, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.003425 seconds Thread 0 at 00:00:20:570, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00350899 seconds Thread 9 at 00:00:20:577, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.007395 seconds Thread 9 at 00:00:20:577, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000313997 seconds Thread 9 at 00:00:20:577, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:20:577, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(27.4251,28.6033,4.36745) microns (including 2px frame) Thread 9 at 00:00:20:577, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.73979,1.73979,1.48567) microns (including 2px frame) Thread 9 at 00:00:20:577, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(221,231,35) pixels Thread 9 at 00:00:20:577, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000131994 seconds Thread 9 at 00:00:20:578, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000326008 seconds Thread 9 at 00:00:20:578, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.49906e-05 seconds Thread 9 at 00:00:20:578, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:20:578, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(28.4341,26.7717,5.75474) microns (including 2px frame) Thread 9 at 00:00:20:578, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.56314,1.81046,1.60948) microns (including 2px frame) Thread 9 at 00:00:20:578, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(229,216,46) pixels Thread 9 at 00:00:20:578, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000137985 seconds Thread 0 at 00:00:20:578, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00801399 seconds Thread 9 at 00:00:20:578, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000311017 seconds Thread 9 at 00:00:20:578, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.29938e-05 seconds Thread 0 at 00:00:20:578, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000299007 seconds Thread 0 at 00:00:20:578, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:20:578, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.8562,23.7769,5.23491) microns (including 2px frame) Thread 0 at 00:00:20:578, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.71419,1.82036,1.23806) microns (including 2px frame) Thread 0 at 00:00:20:578, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(216,192,42) pixels Thread 0 at 00:00:20:578, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 0 at 00:00:20:578, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000128001 seconds Thread 0 at 00:00:20:579, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000249982 seconds Thread 0 at 00:00:20:579, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.20103e-05 seconds Thread 0 at 00:00:20:579, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:20:579, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.9257,26.1608,3.74727) microns (including 2px frame) Thread 0 at 00:00:20:579, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.64407,1.60234,0.990447) microns (including 2px frame) Thread 0 at 00:00:20:579, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(217,211,30) pixels Thread 0 at 00:00:20:579, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 7.39992e-05 seconds Thread 0 at 00:00:20:579, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00019601 seconds Thread 0 at 00:00:20:579, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 9.0003e-06 seconds Thread 10 at 00:00:20:584, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 162620 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:20:601, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.24068,25.2013,9.42653) Thread 10 at 00:00:20:601, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 139637 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:20:615, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.22549,25.2052,9.43379) Thread 10 at 00:00:20:616, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 5023 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:20:616, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.07113,26.0865,9.79304) Thread 10 at 00:00:20:616, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 4639 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:20:617, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (9.09943,23.9197,10.1458) Thread 10 at 00:00:20:617, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: masks, centre: [15.5124, 20.9451, 9.42636], radius: 8.75 Thread 10 at 00:00:20:617, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:20:617, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=1 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:20:617, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:61--189, y:105--233, z:12--95 Thread 10 at 00:00:20:619, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): 49412 dots were removed (ID 1) Thread 10 at 00:00:20:619, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:20:619, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 with centre at (8.24068,25.2013,9.42653) in microns Thread 10 at 00:00:20:619, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:20:620, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(4.25364,21.4783,7.30454) microns (including 2px frame) Thread 10 at 00:00:20:620, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.97443,7.45972,4.3332) microns (including 2px frame) Thread 10 at 00:00:20:620, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(34,173,59) pixels Thread 10 at 00:00:20:623, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00326398 seconds Thread 10 at 00:00:20:629, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.006574 seconds Thread 10 at 00:00:20:630, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.00029102 seconds Thread 0 at 00:00:20:636, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 58341 pixels Thread 10 at 00:00:20:649, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): 50002 dots were added (ID 1 ) Thread 10 at 00:00:20:653, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:20:654, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(15.0539,26.7785,2.72373) microns (including 2px frame) Thread 10 at 00:00:20:654, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.42093,7.0114,4.08559) microns (including 2px frame) Thread 10 at 00:00:20:654, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(121,216,22) pixels Thread 10 at 00:00:20:654, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 10 at 00:00:20:656, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00282699 seconds Thread 9 at 00:00:20:660, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 57853 pixels Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00535196 seconds Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000241041 seconds Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(17.7147,30.3025,4.39634) microns (including 2px frame) Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.7669,1.7738,1.36186) microns (including 2px frame) Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(143,244,35) pixels Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000136018 seconds Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000303984 seconds Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.10269e-05 seconds Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(18.8174,28.1561,4.50232) microns (including 2px frame) Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.65482,1.65482,1.73328) microns (including 2px frame) Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(151,227,36) pixels Thread 10 at 00:00:20:662, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000119984 seconds Thread 10 at 00:00:20:663, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000313044 seconds Thread 10 at 00:00:20:663, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.09673e-05 seconds Thread 10 at 00:00:20:719, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 41176 pixels Thread 0 at 00:00:20:907, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 7 at 00:00:20:934, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 10 at 00:00:20:958, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 0 at 00:00:20:995, Cell ID: 4, cellChr.cpp::ChrUpdateStats(): operation took 0.056325 seconds, percentil is 0.9 Thread 0 at 00:00:20:995, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: phantoms, centre: [10.702, 42.3177, 8.69831], radius: 8.75 Thread 0 at 00:00:20:995, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:20:995, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 230184 'chr' points, ID=4 Thread 10 at 00:00:21:017, Cell ID: 1, cellChr.cpp::ChrUpdateStats(): operation took 0.039882 seconds, percentil is 0.9 Thread 7 at 00:00:21:036, Cell ID: 3, cellChr.cpp::ChrUpdateStats(): operation took 0.068609 seconds, percentil is 0.9 Thread 7 at 00:00:21:036, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: phantoms, centre: [65.6182, 79.9636, 8.11624], radius: 8.75 Thread 7 at 00:00:21:036, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:21:036, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 307832 'chr' points, ID=3 Thread 9 at 00:00:21:083, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 0 at 00:00:21:121, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.125842 seconds Thread 0 at 00:00:21:122, Cell ID: 4, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=4, doing G2-phase at timePoint=3 with sync Thread 10 at 00:00:21:122, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 104ms, timePoint: 3-3, sceneType: phantoms, centre: [8.24068, 25.2013, 9.42653], radius: 8.75 Thread 10 at 00:00:21:122, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:21:122, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 162656 'chr' points, ID=1 Thread 7 at 00:00:21:152, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.116281 seconds Thread 7 at 00:00:21:153, Cell ID: 3, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=3, doing G2-phase at timePoint=2 with sync Thread 9 at 00:00:21:161, Cell ID: 5, cellChr.cpp::ChrUpdateStats(): operation took 0.053009 seconds, percentil is 0.9 Thread 9 at 00:00:21:161, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: phantoms, centre: [55.207, 32.9067, 8.5487], radius: 8.75 Thread 9 at 00:00:21:161, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:21:161, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 229448 'chr' points, ID=5 Thread 0 at 00:00:21:203, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: masks, centre: [10.702, 42.3177, 8.69831], radius: 8.75 Thread 0 at 00:00:21:203, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:21:203, Cell ID: 4, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 0 at 00:00:21:204, Cell ID: 4, flowfields.cpp::DescribeTranslation(): adding vector (-0.618056,0.328643,0) to the flow field Thread 0 at 00:00:21:226, Cell ID: 4, flowfields.cpp::DescribeRotation(): adding rotation by -5.66537deg clockwise around (10.702,42.3177,8.69831) in microns Thread 7 at 00:00:21:264, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: masks, centre: [65.6182, 79.9636, 8.11624], radius: 8.75 Thread 7 at 00:00:21:264, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:21:264, Cell ID: 3, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 10 at 00:00:21:266, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.14387 seconds Thread 7 at 00:00:21:266, Cell ID: 3, flowfields.cpp::DescribeTranslation(): adding vector (-1.66106,0.693451,0) to the flow field Thread 10 at 00:00:21:266, Cell ID: 1, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=1, doing G2-phase at timePoint=3 with sync Thread 9 at 00:00:21:278, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.117025 seconds Thread 9 at 00:00:21:279, Cell ID: 5, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=5, doing G2-phase at timePoint=2 with sync Thread 7 at 00:00:21:299, Cell ID: 3, flowfields.cpp::DescribeRotation(): adding rotation by 3.96182deg clockwise around (65.6182,79.9636,8.11624) in microns Thread 0 at 00:00:21:299, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 194515 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:21:319, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.0839,42.6464,8.69831) Thread 0 at 00:00:21:319, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 171382 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:21:336, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.0787,42.6399,8.69302) Thread 0 at 00:00:21:336, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 4739 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:21:337, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.2002,41.0749,9.05408) Thread 0 at 00:00:21:337, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 2480 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:21:337, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.4819,43.3941,7.42575) Thread 0 at 00:00:21:337, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: masks, centre: [7.10498, 39.2767, 8.69833], radius: 8.75 Thread 0 at 00:00:21:337, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:21:337, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=4 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:21:337, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--121, y:253--381, z:6--95 Thread 0 at 00:00:21:339, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): 67660 dots were removed (ID 4) Thread 0 at 00:00:21:340, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:21:340, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 with centre at (10.0839,42.6464,8.69831) in microns Thread 0 at 00:00:21:340, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:21:340, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(6.06431,38.9777,5.69507) microns (including 2px frame) Thread 0 at 00:00:21:340, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(8.09287,7.42121,5.94268) microns (including 2px frame) Thread 0 at 00:00:21:340, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(48,314,46) pixels Thread 0 at 00:00:21:340, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 0 at 00:00:21:343, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00388001 seconds Thread 0 at 00:00:21:353, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.009427 seconds Thread 0 at 00:00:21:353, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000376999 seconds Thread 0 at 00:00:21:368, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): 68596 dots were added (ID 4 ) Thread 10 at 00:00:21:368, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 27ms, timePoint: 4-4, sceneType: masks, centre: [8.24068, 25.2013, 9.42653], radius: 8.75 Thread 10 at 00:00:21:368, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:21:368, Cell ID: 1, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 10 at 00:00:21:369, Cell ID: 1, flowfields.cpp::DescribeTranslation(): adding vector (2.25986,1.06912,0) to the flow field Thread 9 at 00:00:21:372, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: masks, centre: [55.207, 32.9067, 8.5487], radius: 8.75 Thread 9 at 00:00:21:372, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:21:372, Cell ID: 5, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 0 at 00:00:21:372, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 9 at 00:00:21:372, Cell ID: 5, cellScm.cpp::ScmUniversalMovement(): MITOCHECK MODE: trying 3x longer step ala Mitocheck. Thread 0 at 00:00:21:373, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(22.9902,23.095,2.59992) microns (including 2px frame) Thread 0 at 00:00:21:373, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.66863,6.99697,5.69507) microns (including 2px frame) Thread 0 at 00:00:21:373, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(185,186,21) pixels Thread 0 at 00:00:21:373, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 9 at 00:00:21:373, Cell ID: 5, flowfields.cpp::DescribeTranslation(): adding vector (-7.8788,-8.23921,0) to the flow field Thread 0 at 00:00:21:376, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.003545 seconds Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.007781 seconds Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000291005 seconds Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.0708,24.0638,5.23491) microns (including 2px frame) Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.74858,1.85464,1.23806) microns (including 2px frame) Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(210,194,42) pixels Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000124991 seconds Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000273004 seconds Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.09971e-05 seconds Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.3475,26.441,3.74727) microns (including 2px frame) Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.70639,1.62085,0.990447) microns (including 2px frame) Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(212,213,30) pixels Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 0 at 00:00:21:384, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 6.40005e-05 seconds Thread 0 at 00:00:21:385, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000204012 seconds Thread 0 at 00:00:21:385, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.09971e-05 seconds Thread 10 at 00:00:21:401, Cell ID: 1, flowfields.cpp::DescribeRotation(): adding rotation by -7.54688deg clockwise around (8.24068,25.2013,9.42653) in microns Thread 9 at 00:00:21:410, Cell ID: 5, flowfields.cpp::DescribeRotation(): adding rotation by -5.34483deg clockwise around (55.207,32.9067,8.5487) in microns Thread 7 at 00:00:21:412, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 227771 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:21:435, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (63.9572,80.6571,8.11624) Thread 7 at 00:00:21:435, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 203775 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 0 at 00:00:21:438, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 58322 pixels Thread 7 at 00:00:21:456, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (63.9602,80.6483,8.1271) Thread 7 at 00:00:21:456, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5005 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:21:457, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (64.3333,79.8812,6.56623) Thread 7 at 00:00:21:457, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5400 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:21:458, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (65.8262,81.4136,8.18319) Thread 7 at 00:00:21:458, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: masks, centre: [65.6855, 78.7756, 8.11595], radius: 8.75 Thread 7 at 00:00:21:458, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:21:458, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=3 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:21:458, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:466--594, y:572--685, z:1--95 Thread 7 at 00:00:21:460, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): 89053 dots were removed (ID 3) Thread 7 at 00:00:21:460, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:21:460, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 with centre at (63.9572,80.6571,8.11624) in microns Thread 7 at 00:00:21:460, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:21:461, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(60.2381,76.9048,4.3332) microns (including 2px frame) Thread 7 at 00:00:21:461, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.36549,7.64775,7.30454) microns (including 2px frame) Thread 7 at 00:00:21:461, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(486,621,35) pixels Thread 7 at 00:00:21:465, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00447997 seconds Thread 7 at 00:00:21:475, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.010392 seconds Thread 7 at 00:00:21:475, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000425011 seconds Thread 7 at 00:00:21:491, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): 89346 dots were added (ID 3 ) Thread 7 at 00:00:21:497, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:21:498, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(21.464,24.9058,3.21895) microns (including 2px frame) Thread 7 at 00:00:21:498, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(6.95991,7.28878,6.93313) microns (including 2px frame) Thread 7 at 00:00:21:498, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(173,201,26) pixels Thread 7 at 00:00:21:501, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00398999 seconds Thread 7 at 00:00:21:510, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00896999 seconds Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000355005 seconds Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.4512,26.9129,4.47826) microns (including 2px frame) Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.78324,1.65992,1.36186) microns (including 2px frame) Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(197,217,36) pixels Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000117987 seconds Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000256002 seconds Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.10269e-05 seconds Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.0169,28.4763,6.16727) microns (including 2px frame) Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.64895,1.68184,1.36186) microns (including 2px frame) Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(210,230,49) pixels Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000124991 seconds Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000299007 seconds Thread 7 at 00:00:21:511, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.19805e-05 seconds Thread 10 at 00:00:21:520, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 162620 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 9 at 00:00:21:522, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 194326 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 10 at 00:00:21:541, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.5005,26.2704,9.42653) Thread 10 at 00:00:21:541, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 139637 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 9 at 00:00:21:542, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (47.3282,24.6675,8.5487) Thread 9 at 00:00:21:542, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 171687 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 10 at 00:00:21:558, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.486,26.2762,9.43379) Thread 10 at 00:00:21:558, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 5023 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:21:559, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.4487,27.1702,9.79304) Thread 10 at 00:00:21:559, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 4639 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:21:559, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (11.1835,24.8871,10.1458) Thread 10 at 00:00:21:559, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: masks, centre: [15.5124, 20.9451, 9.42636], radius: 8.75 Thread 10 at 00:00:21:559, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:21:559, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=1 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:21:559, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:61--189, y:105--233, z:12--95 Thread 9 at 00:00:21:560, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (47.323,24.6754,8.54509) Thread 9 at 00:00:21:560, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5438 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:21:561, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (46.1922,24.9267,7.80836) Thread 9 at 00:00:21:561, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5512 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:21:561, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (46.9355,23.0623,9.29154) Thread 9 at 00:00:21:561, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: masks, centre: [54.287, 32.3327, 8.54858], radius: 8.75 Thread 9 at 00:00:21:561, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:21:561, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=5 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:21:561, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:374--502, y:197--325, z:5--95 Thread 10 at 00:00:21:562, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): 49412 dots were removed (ID 1) Thread 10 at 00:00:21:562, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:21:562, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 with centre at (10.5005,26.2704,9.42653) in microns Thread 10 at 00:00:21:562, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:21:563, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(6.50977,22.5481,7.30454) microns (including 2px frame) Thread 10 at 00:00:21:563, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.92153,7.42359,4.3332) microns (including 2px frame) Thread 10 at 00:00:21:563, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(52,182,59) pixels Thread 10 at 00:00:21:563, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 9 at 00:00:21:564, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): 67965 dots were removed (ID 5) Thread 9 at 00:00:21:564, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:21:564, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 with centre at (47.3282,24.6675,8.5487) in microns Thread 9 at 00:00:21:564, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:21:564, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(43.5545,20.9171,5.44746) microns (including 2px frame) Thread 9 at 00:00:21:564, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.65813,7.36541,6.06649) microns (including 2px frame) Thread 9 at 00:00:21:564, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(351,168,44) pixels Thread 9 at 00:00:21:564, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 10 at 00:00:21:566, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00403601 seconds Thread 9 at 00:00:21:568, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00392601 seconds Thread 10 at 00:00:21:574, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00804499 seconds Thread 10 at 00:00:21:574, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.00030902 seconds Thread 9 at 00:00:21:576, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.008753 seconds Thread 9 at 00:00:21:577, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000323981 seconds Thread 9 at 00:00:21:592, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): 68514 dots were added (ID 5 ) Thread 7 at 00:00:21:595, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 77184 pixels Thread 10 at 00:00:21:596, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): 49870 dots were added (ID 1 ) Thread 9 at 00:00:21:599, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:21:599, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(18.0458,17.5696,2.84753) microns (including 2px frame) Thread 9 at 00:00:21:599, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.1724,6.92873,5.81887) microns (including 2px frame) Thread 9 at 00:00:21:599, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(145,141,23) pixels Thread 9 at 00:00:21:599, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 10 at 00:00:21:601, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:21:601, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(17.3067,27.8602,2.72373) microns (including 2px frame) Thread 10 at 00:00:21:601, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.37463,6.95153,4.08559) microns (including 2px frame) Thread 10 at 00:00:21:601, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(139,225,22) pixels Thread 9 at 00:00:21:602, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00346202 seconds Thread 10 at 00:00:21:604, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00343302 seconds Thread 9 at 00:00:21:610, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00742 seconds Thread 9 at 00:00:21:610, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000279009 seconds Thread 9 at 00:00:21:610, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:21:610, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(19.5781,20.476,4.36745) microns (including 2px frame) Thread 9 at 00:00:21:610, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.70874,1.70874,1.48567) microns (including 2px frame) Thread 9 at 00:00:21:610, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(158,165,35) pixels Thread 9 at 00:00:21:610, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000128984 seconds Thread 9 at 00:00:21:610, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000283003 seconds Thread 9 at 00:00:21:610, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.20103e-05 seconds Thread 9 at 00:00:21:610, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:21:610, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(20.3967,18.5871,5.75474) microns (including 2px frame) Thread 9 at 00:00:21:610, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.58811,1.75699,1.60948) microns (including 2px frame) Thread 9 at 00:00:21:610, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(164,150,46) pixels Thread 9 at 00:00:21:611, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 9 at 00:00:21:611, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000135988 seconds Thread 10 at 00:00:21:611, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00664398 seconds Thread 9 at 00:00:21:611, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00029999 seconds Thread 9 at 00:00:21:611, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.50204e-05 seconds Thread 10 at 00:00:21:611, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000274003 seconds Thread 10 at 00:00:21:611, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:21:611, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(20.0996,31.382,4.39634) microns (including 2px frame) Thread 10 at 00:00:21:611, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.74445,1.78764,1.36186) microns (including 2px frame) Thread 10 at 00:00:21:611, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(162,253,35) pixels Thread 10 at 00:00:21:611, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000156999 seconds Thread 10 at 00:00:21:612, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000366986 seconds Thread 10 at 00:00:21:612, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.30236e-05 seconds Thread 10 at 00:00:21:612, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:21:612, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(20.9169,29.1605,4.50232) microns (including 2px frame) Thread 10 at 00:00:21:612, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.62643,1.62643,1.73328) microns (including 2px frame) Thread 10 at 00:00:21:612, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(168,235,36) pixels Thread 10 at 00:00:21:612, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000140995 seconds Thread 10 at 00:00:21:612, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000378013 seconds Thread 10 at 00:00:21:612, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.29938e-05 seconds Thread 10 at 00:00:21:679, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 41019 pixels Thread 9 at 00:00:21:695, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 57727 pixels Thread 0 at 00:00:21:702, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 0 at 00:00:21:780, Cell ID: 4, cellChr.cpp::ChrUpdateStats(): operation took 0.053031 seconds, percentil is 0.9 Thread 0 at 00:00:21:780, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: phantoms, centre: [10.0839, 42.6464, 8.69831], radius: 8.75 Thread 0 at 00:00:21:780, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:21:780, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 230184 'chr' points, ID=4 Thread 0 at 00:00:21:897, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.117182 seconds Thread 0 at 00:00:21:898, Cell ID: 4, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=4, doing G2-phase at timePoint=4 with sync Thread 10 at 00:00:21:954, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 0 at 00:00:21:976, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: masks, centre: [10.0839, 42.6464, 8.69831], radius: 8.75 Thread 0 at 00:00:21:976, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:21:976, Cell ID: 4, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 0 at 00:00:21:977, Cell ID: 4, flowfields.cpp::DescribeTranslation(): adding vector (-1.40949,0.513159,0) to the flow field Thread 0 at 00:00:21:999, Cell ID: 4, flowfields.cpp::DescribeRotation(): adding rotation by -5.36934deg clockwise around (10.0839,42.6464,8.69831) in microns Thread 7 at 00:00:22:021, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 10 at 00:00:22:021, Cell ID: 1, cellChr.cpp::ChrUpdateStats(): operation took 0.046393 seconds, percentil is 0.9 Thread 10 at 00:00:22:021, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: phantoms, centre: [10.5005, 26.2704, 9.42653], radius: 8.75 Thread 10 at 00:00:22:021, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:22:021, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 162656 'chr' points, ID=1 Thread 0 at 00:00:22:069, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 194515 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:22:088, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.67445,43.1595,8.69831) Thread 0 at 00:00:22:088, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 171382 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:22:105, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.66862,43.1536,8.69302) Thread 0 at 00:00:22:105, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 4739 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:22:105, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.64311,41.5841,9.05408) Thread 0 at 00:00:22:105, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 2480 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:22:106, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (9.14058,43.8667,7.42575) Thread 0 at 00:00:22:106, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: masks, centre: [7.10498, 39.2767, 8.69833], radius: 8.75 Thread 0 at 00:00:22:106, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:22:106, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=4 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:22:106, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--121, y:253--381, z:6--95 Thread 0 at 00:00:22:108, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): 67660 dots were removed (ID 4) Thread 0 at 00:00:22:108, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:22:108, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 with centre at (8.67445,43.1595,8.69831) in microns Thread 0 at 00:00:22:108, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:22:108, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(4.74535,39.3638,5.69507) microns (including 2px frame) Thread 0 at 00:00:22:108, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.84779,7.70005,5.94268) microns (including 2px frame) Thread 0 at 00:00:22:108, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(38,317,46) pixels Thread 9 at 00:00:22:110, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 0 at 00:00:22:112, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00382698 seconds Thread 0 at 00:00:22:121, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00923699 seconds Thread 0 at 00:00:22:121, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000371993 seconds Thread 7 at 00:00:22:126, Cell ID: 3, cellChr.cpp::ChrUpdateStats(): operation took 0.071752 seconds, percentil is 0.9 Thread 7 at 00:00:22:126, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: phantoms, centre: [63.9572, 80.6571, 8.11624], radius: 8.75 Thread 7 at 00:00:22:126, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:22:126, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 307832 'chr' points, ID=3 Thread 0 at 00:00:22:136, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): 68647 dots were added (ID 4 ) Thread 0 at 00:00:22:140, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:22:141, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(21.6584,23.4683,2.59992) microns (including 2px frame) Thread 0 at 00:00:22:141, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.44932,7.30157,5.69507) microns (including 2px frame) Thread 0 at 00:00:22:141, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(174,189,21) pixels Thread 0 at 00:00:22:141, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 0 at 00:00:22:144, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00334102 seconds Thread 10 at 00:00:22:145, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.123117 seconds Thread 10 at 00:00:22:146, Cell ID: 1, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=1, doing G2-phase at timePoint=4 with sync Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00798196 seconds Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.00030005 seconds Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.5016,24.5523,5.23491) microns (including 2px frame) Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.78065,1.88026,1.23806) microns (including 2px frame) Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(197,198,42) pixels Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000105 seconds Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000267 seconds Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.20001e-05 seconds Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.9777,26.907,3.74727) microns (including 2px frame) Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.75454,1.63362,0.990447) microns (including 2px frame) Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(201,217,30) pixels Thread 0 at 00:00:22:152, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 6.2e-05 seconds Thread 0 at 00:00:22:153, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000199 seconds Thread 0 at 00:00:22:153, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.09999e-05 seconds Thread 9 at 00:00:22:191, Cell ID: 5, cellChr.cpp::ChrUpdateStats(): operation took 0.055976 seconds, percentil is 0.9 Thread 9 at 00:00:22:191, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: phantoms, centre: [47.3282, 24.6675, 8.5487], radius: 8.75 Thread 9 at 00:00:22:191, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:22:191, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 229448 'chr' points, ID=5 Thread 0 at 00:00:22:207, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 58369 pixels Thread 7 at 00:00:22:249, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.122323 seconds Thread 7 at 00:00:22:249, Cell ID: 3, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=3, doing G2-phase at timePoint=3 with sync Thread 10 at 00:00:22:252, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: masks, centre: [10.5005, 26.2704, 9.42653], radius: 8.75 Thread 10 at 00:00:22:252, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:22:252, Cell ID: 1, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 10 at 00:00:22:253, Cell ID: 1, flowfields.cpp::DescribeTranslation(): adding vector (1.54957,-1.69965,0) to the flow field Thread 10 at 00:00:22:278, Cell ID: 1, flowfields.cpp::DescribeRotation(): adding rotation by -2.96197deg clockwise around (10.5005,26.2704,9.42653) in microns Thread 9 at 00:00:22:308, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.11638 seconds Thread 9 at 00:00:22:308, Cell ID: 5, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=5, doing G2-phase at timePoint=3 with sync Thread 7 at 00:00:22:361, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: masks, centre: [63.9572, 80.6571, 8.11624], radius: 8.75 Thread 7 at 00:00:22:361, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:22:361, Cell ID: 3, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 7 at 00:00:22:363, Cell ID: 3, flowfields.cpp::DescribeTranslation(): adding vector (-2.09646,-0.121892,0) to the flow field Thread 10 at 00:00:22:372, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 162620 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:22:393, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (12.0501,24.5707,9.42653) Thread 10 at 00:00:22:393, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 139637 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 7 at 00:00:22:397, Cell ID: 3, flowfields.cpp::DescribeRotation(): adding rotation by 14.0769deg clockwise around (63.9572,80.6571,8.11624) in microns Thread 9 at 00:00:22:402, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: masks, centre: [47.3282, 24.6675, 8.5487], radius: 8.75 Thread 9 at 00:00:22:402, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:22:402, Cell ID: 5, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 9 at 00:00:22:403, Cell ID: 5, flowfields.cpp::DescribeTranslation(): adding vector (1.38711,-2.19908,0) to the flow field Thread 10 at 00:00:22:411, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (12.0359,24.5773,9.43379) Thread 10 at 00:00:22:411, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 5023 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:22:412, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (12.0449,25.472,9.79304) Thread 10 at 00:00:22:412, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 4639 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:22:413, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (12.6607,23.154,10.1458) Thread 10 at 00:00:22:413, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: masks, centre: [15.5124, 20.9451, 9.42636], radius: 8.75 Thread 10 at 00:00:22:413, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:22:413, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=1 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:22:413, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:61--189, y:105--233, z:12--95 Thread 10 at 00:00:22:415, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): 49412 dots were removed (ID 1) Thread 10 at 00:00:22:415, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:22:415, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 with centre at (12.0501,24.5707,9.42653) in microns Thread 10 at 00:00:22:415, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:22:416, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(8.07563,20.8652,7.30454) microns (including 2px frame) Thread 10 at 00:00:22:416, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.86548,7.40703,4.3332) microns (including 2px frame) Thread 10 at 00:00:22:416, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(65,168,59) pixels Thread 10 at 00:00:22:419, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00391099 seconds Thread 10 at 00:00:22:428, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00823802 seconds Thread 10 at 00:00:22:428, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000322998 seconds Thread 4 at 00:00:22:435, Cell ID: 2, cellScm.cpp::ScmSuggestTranslationsTowardsEmpty_SS(): trouble ahead: colliding even for no movement Thread 9 at 00:00:22:439, Cell ID: 5, flowfields.cpp::DescribeRotation(): adding rotation by 4.70391deg clockwise around (47.3282,24.6675,8.5487) in microns Thread 10 at 00:00:22:445, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): 49828 dots were added (ID 1 ) Thread 10 at 00:00:22:450, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:22:450, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(18.87,26.1808,2.72373) microns (including 2px frame) Thread 10 at 00:00:22:450, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.32378,6.92787,4.08559) microns (including 2px frame) Thread 10 at 00:00:22:450, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(152,211,22) pixels Thread 10 at 00:00:22:453, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.003335 seconds Thread 10 at 00:00:22:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00655401 seconds Thread 10 at 00:00:22:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000248998 seconds Thread 10 at 00:00:22:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:22:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(21.7016,29.6851,4.39634) microns (including 2px frame) Thread 10 at 00:00:22:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.72969,1.78695,1.36186) microns (including 2px frame) Thread 10 at 00:00:22:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(175,239,35) pixels Thread 10 at 00:00:22:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000142008 seconds Thread 10 at 00:00:22:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000346988 seconds Thread 10 at 00:00:22:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.20103e-05 seconds Thread 10 at 00:00:22:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:22:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(22.4027,27.4446,4.50232) microns (including 2px frame) Thread 10 at 00:00:22:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.6099,1.60989,1.73328) microns (including 2px frame) Thread 10 at 00:00:22:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(180,221,36) pixels Thread 10 at 00:00:22:461, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000127017 seconds Thread 10 at 00:00:22:461, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000377983 seconds Thread 10 at 00:00:22:461, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.40071e-05 seconds Thread 0 at 00:00:22:476, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 7 at 00:00:22:509, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 227771 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 10 at 00:00:22:527, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 41000 pixels Thread 7 at 00:00:22:533, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (61.8607,80.5352,8.11624) Thread 7 at 00:00:22:533, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 203775 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 9 at 00:00:22:551, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 194326 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 7 at 00:00:22:556, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (61.8658,80.5274,8.1271) Thread 7 at 00:00:22:556, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5005 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:22:556, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (62.4143,79.8741,6.56623) Thread 7 at 00:00:22:556, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5400 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:22:557, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (63.4896,81.7235,8.18319) Thread 7 at 00:00:22:557, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: masks, centre: [65.6855, 78.7756, 8.11595], radius: 8.75 Thread 7 at 00:00:22:557, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:22:557, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=3 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:22:557, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:466--594, y:572--685, z:1--95 Thread 7 at 00:00:22:559, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): 89053 dots were removed (ID 3) Thread 7 at 00:00:22:559, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:22:559, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 with centre at (61.8607,80.5352,8.11624) in microns Thread 7 at 00:00:22:559, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:22:560, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(58.1179,76.8258,4.3332) microns (including 2px frame) Thread 7 at 00:00:22:560, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.51598,7.36944,7.30454) microns (including 2px frame) Thread 7 at 00:00:22:560, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(469,620,35) pixels Thread 0 at 00:00:22:560, Cell ID: 4, cellChr.cpp::ChrUpdateStats(): operation took 0.053547 seconds, percentil is 0.9 Thread 0 at 00:00:22:560, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: phantoms, centre: [8.67445, 43.1595, 8.69831], radius: 8.75 Thread 0 at 00:00:22:560, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:22:560, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 230184 'chr' points, ID=4 Thread 7 at 00:00:22:564, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00454101 seconds Thread 9 at 00:00:22:571, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (48.7153,22.4684,8.5487) Thread 9 at 00:00:22:571, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 171687 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 7 at 00:00:22:574, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.010338 seconds Thread 7 at 00:00:22:574, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000416011 seconds Thread 9 at 00:00:22:589, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (48.7094,22.4758,8.54509) Thread 9 at 00:00:22:589, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5438 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:22:589, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (47.5619,22.6336,7.80836) Thread 9 at 00:00:22:589, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5512 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:22:590, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (48.4556,20.8365,9.29154) Thread 9 at 00:00:22:590, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: masks, centre: [54.287, 32.3327, 8.54858], radius: 8.75 Thread 9 at 00:00:22:590, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:22:590, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=5 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:22:590, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:374--502, y:197--325, z:5--95 Thread 7 at 00:00:22:590, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): 89997 dots were added (ID 3 ) Thread 9 at 00:00:22:593, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): 67965 dots were removed (ID 5) Thread 9 at 00:00:22:593, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:22:593, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 with centre at (48.7153,22.4684,8.5487) in microns Thread 9 at 00:00:22:593, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:22:593, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(44.9298,18.6991,5.44746) microns (including 2px frame) Thread 9 at 00:00:22:593, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.62081,7.41666,6.06649) microns (including 2px frame) Thread 9 at 00:00:22:593, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(362,151,44) pixels Thread 7 at 00:00:22:597, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 9 at 00:00:22:597, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00400299 seconds Thread 7 at 00:00:22:597, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(19.2668,24.8255,3.21895) microns (including 2px frame) Thread 7 at 00:00:22:597, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.20084,7.09985,6.93313) microns (including 2px frame) Thread 7 at 00:00:22:597, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(155,200,26) pixels Thread 7 at 00:00:22:601, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00401902 seconds Thread 9 at 00:00:22:605, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00878301 seconds Thread 9 at 00:00:22:606, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000339001 seconds Thread 7 at 00:00:22:610, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00910699 seconds Thread 7 at 00:00:22:610, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000364989 seconds Thread 7 at 00:00:22:610, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:22:610, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(22.4622,26.8505,4.47826) microns (including 2px frame) Thread 7 at 00:00:22:610, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.86787,1.75092,1.36186) microns (including 2px frame) Thread 7 at 00:00:22:610, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(181,216,36) pixels Thread 7 at 00:00:22:610, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000117987 seconds Thread 7 at 00:00:22:610, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000283003 seconds Thread 7 at 00:00:22:610, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.09971e-05 seconds Thread 7 at 00:00:22:610, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:22:610, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(23.6253,28.6851,6.16727) microns (including 2px frame) Thread 7 at 00:00:22:610, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.71028,1.83217,1.36186) microns (including 2px frame) Thread 7 at 00:00:22:610, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(190,231,49) pixels Thread 7 at 00:00:22:611, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 7 at 00:00:22:611, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000127017 seconds Thread 7 at 00:00:22:611, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00027898 seconds Thread 7 at 00:00:22:611, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.09971e-05 seconds Thread 9 at 00:00:22:622, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): 68621 dots were added (ID 5 ) Thread 9 at 00:00:22:629, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:22:629, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(19.4163,15.3468,2.84753) microns (including 2px frame) Thread 9 at 00:00:22:629, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.14463,6.95751,5.81887) microns (including 2px frame) Thread 9 at 00:00:22:629, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(156,123,23) pixels Thread 9 at 00:00:22:629, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 9 at 00:00:22:632, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00346801 seconds Thread 9 at 00:00:22:640, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00759599 seconds Thread 9 at 00:00:22:640, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000290006 seconds Thread 9 at 00:00:22:640, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:22:640, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(20.9364,18.1782,4.36745) microns (including 2px frame) Thread 9 at 00:00:22:640, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.73663,1.73663,1.48567) microns (including 2px frame) Thread 9 at 00:00:22:640, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(169,146,35) pixels Thread 9 at 00:00:22:640, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000128984 seconds Thread 9 at 00:00:22:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000321001 seconds Thread 9 at 00:00:22:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.20103e-05 seconds Thread 9 at 00:00:22:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:22:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(21.923,16.3389,5.75474) microns (including 2px frame) Thread 9 at 00:00:22:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.56663,1.80464,1.60948) microns (including 2px frame) Thread 9 at 00:00:22:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(177,131,46) pixels Thread 9 at 00:00:22:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 9 at 00:00:22:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000130981 seconds Thread 9 at 00:00:22:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000313014 seconds Thread 9 at 00:00:22:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.09971e-05 seconds Thread 0 at 00:00:22:689, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.128325 seconds Thread 0 at 00:00:22:689, Cell ID: 4, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=4, doing G2-phase at timePoint=5 with sync Thread 7 at 00:00:22:696, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 77725 pixels Thread 9 at 00:00:22:726, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 57919 pixels Thread 0 at 00:00:22:770, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: masks, centre: [8.67445, 43.1595, 8.69831], radius: 8.75 Thread 0 at 00:00:22:770, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:22:770, Cell ID: 4, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 0 at 00:00:22:771, Cell ID: 4, flowfields.cpp::DescribeTranslation(): adding vector (0.64858,1.78587,0) to the flow field Thread 0 at 00:00:22:793, Cell ID: 4, flowfields.cpp::DescribeRotation(): adding rotation by -12.2171deg clockwise around (8.67445,43.1595,8.69831) in microns Thread 10 at 00:00:22:808, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 0 at 00:00:22:865, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 194515 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 10 at 00:00:22:875, Cell ID: 1, cellChr.cpp::ChrUpdateStats(): operation took 0.046392 seconds, percentil is 0.9 Thread 10 at 00:00:22:875, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: phantoms, centre: [12.0501, 24.5707, 9.42653], radius: 8.75 Thread 10 at 00:00:22:875, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:22:875, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 162656 'chr' points, ID=1 Thread 0 at 00:00:22:884, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (9.32303,44.9454,8.69831) Thread 0 at 00:00:22:884, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 171382 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:22:901, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (9.31608,44.9408,8.69302) Thread 0 at 00:00:22:901, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 4739 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:22:902, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.95901,43.4122,9.05408) Thread 0 at 00:00:22:902, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 2480 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:22:902, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (9.92827,45.538,7.42575) Thread 0 at 00:00:22:902, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: masks, centre: [7.10498, 39.2767, 8.69833], radius: 8.75 Thread 0 at 00:00:22:902, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:22:902, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=4 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:22:902, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--121, y:253--381, z:6--95 Thread 0 at 00:00:22:905, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): 67660 dots were removed (ID 4) Thread 0 at 00:00:22:905, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:22:905, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 with centre at (9.32303,44.9454,8.69831) in microns Thread 0 at 00:00:22:905, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:22:905, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(5.69634,40.8519,5.69507) microns (including 2px frame) Thread 0 at 00:00:22:905, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.1653,8.32414,5.94268) microns (including 2px frame) Thread 0 at 00:00:22:905, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(46,329,46) pixels Thread 0 at 00:00:22:909, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00381601 seconds Thread 0 at 00:00:22:918, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00907701 seconds Thread 0 at 00:00:22:918, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.00037396 seconds Thread 0 at 00:00:22:936, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): 68636 dots were added (ID 4 ) Thread 0 at 00:00:22:940, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:22:941, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(22.596,24.943,2.59992) microns (including 2px frame) Thread 0 at 00:00:22:941, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(6.79359,7.94131,5.69507) microns (including 2px frame) Thread 0 at 00:00:22:941, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(182,201,21) pixels Thread 0 at 00:00:22:944, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00365001 seconds Thread 0 at 00:00:22:952, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00803101 seconds Thread 0 at 00:00:22:952, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000326991 seconds Thread 0 at 00:00:22:952, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:22:952, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.7987,26.356,5.23491) microns (including 2px frame) Thread 0 at 00:00:22:952, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.82241,1.90422,1.23806) microns (including 2px frame) Thread 0 at 00:00:22:952, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(200,212,42) pixels Thread 0 at 00:00:22:953, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000129998 seconds Thread 0 at 00:00:22:953, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000291049 seconds Thread 0 at 00:00:22:953, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.09673e-05 seconds Thread 0 at 00:00:22:953, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:22:953, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(25.7212,28.5833,3.74727) microns (including 2px frame) Thread 0 at 00:00:22:953, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.82241,1.62544,0.990447) microns (including 2px frame) Thread 0 at 00:00:22:953, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(207,230,30) pixels Thread 0 at 00:00:22:953, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 7.20024e-05 seconds Thread 0 at 00:00:22:953, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00020498 seconds Thread 0 at 00:00:22:953, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.00136e-05 seconds Thread 10 at 00:00:22:991, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.116027 seconds Thread 10 at 00:00:22:992, Cell ID: 1, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=1, doing G2-phase at timePoint=5 with sync Thread 0 at 00:00:23:007, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 58343 pixels Thread 10 at 00:00:23:065, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: masks, centre: [12.0501, 24.5707, 9.42653], radius: 8.75 Thread 10 at 00:00:23:065, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:23:065, Cell ID: 1, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 10 at 00:00:23:066, Cell ID: 1, flowfields.cpp::DescribeTranslation(): adding vector (0.139328,1.39305,0) to the flow field Thread 10 at 00:00:23:096, Cell ID: 1, flowfields.cpp::DescribeRotation(): adding rotation by -0.047114deg clockwise around (12.0501,24.5707,9.42653) in microns Thread 7 at 00:00:23:126, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 9 at 00:00:23:155, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 10 at 00:00:23:207, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 162620 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:23:227, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (12.1894,25.9638,9.42653) Thread 10 at 00:00:23:227, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 139637 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 7 at 00:00:23:231, Cell ID: 3, cellChr.cpp::ChrUpdateStats(): operation took 0.07215 seconds, percentil is 0.9 Thread 7 at 00:00:23:231, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: phantoms, centre: [61.8607, 80.5352, 8.11624], radius: 8.75 Thread 7 at 00:00:23:231, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:23:231, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 307832 'chr' points, ID=3 Thread 9 at 00:00:23:234, Cell ID: 5, cellChr.cpp::ChrUpdateStats(): operation took 0.053602 seconds, percentil is 0.9 Thread 9 at 00:00:23:234, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: phantoms, centre: [48.7153, 22.4684, 8.5487], radius: 8.75 Thread 9 at 00:00:23:234, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:23:234, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 229448 'chr' points, ID=5 Thread 10 at 00:00:23:245, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (12.1752,25.9704,9.43379) Thread 10 at 00:00:23:245, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 5023 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:23:245, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (12.1849,26.8651,9.79304) Thread 10 at 00:00:23:245, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 4639 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:23:246, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (12.7989,24.5466,10.1458) Thread 10 at 00:00:23:246, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: masks, centre: [15.5124, 20.9451, 9.42636], radius: 8.75 Thread 10 at 00:00:23:246, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:23:246, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=1 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:23:246, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:61--189, y:105--233, z:12--95 Thread 10 at 00:00:23:249, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): 49412 dots were removed (ID 1) Thread 10 at 00:00:23:249, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:23:249, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 with centre at (12.1894,25.9638,9.42653) in microns Thread 10 at 00:00:23:249, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:23:249, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(8.2153,22.2586,7.30454) microns (including 2px frame) Thread 10 at 00:00:23:249, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.86443,7.40662,4.3332) microns (including 2px frame) Thread 10 at 00:00:23:249, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(66,179,59) pixels Thread 10 at 00:00:23:249, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 10 at 00:00:23:253, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.003973 seconds Thread 10 at 00:00:23:261, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00827301 seconds Thread 10 at 00:00:23:261, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000328995 seconds Thread 10 at 00:00:23:279, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): 49865 dots were added (ID 1 ) Thread 0 at 00:00:23:281, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 10 at 00:00:23:284, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:23:285, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(19.0096,27.5743,2.72373) microns (including 2px frame) Thread 10 at 00:00:23:285, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.32282,6.92735,4.08559) microns (including 2px frame) Thread 10 at 00:00:23:285, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(153,222,22) pixels Thread 10 at 00:00:23:285, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 10 at 00:00:23:288, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00336599 seconds Thread 10 at 00:00:23:294, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.006631 seconds Thread 10 at 00:00:23:294, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000273004 seconds Thread 10 at 00:00:23:294, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:23:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(21.8418,31.0782,4.39634) microns (including 2px frame) Thread 10 at 00:00:23:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.72943,1.78691,1.36186) microns (including 2px frame) Thread 10 at 00:00:23:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(176,251,35) pixels Thread 10 at 00:00:23:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000142008 seconds Thread 10 at 00:00:23:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000346988 seconds Thread 10 at 00:00:23:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.30087e-05 seconds Thread 10 at 00:00:23:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:23:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(22.541,28.8374,4.50232) microns (including 2px frame) Thread 10 at 00:00:23:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.60961,1.60961,1.73328) microns (including 2px frame) Thread 10 at 00:00:23:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(182,232,36) pixels Thread 10 at 00:00:23:295, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000144005 seconds Thread 10 at 00:00:23:296, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000387996 seconds Thread 10 at 00:00:23:296, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 2.2009e-05 seconds Thread 7 at 00:00:23:351, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.120447 seconds Thread 7 at 00:00:23:352, Cell ID: 3, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=3, doing G2-phase at timePoint=4 with sync Thread 9 at 00:00:23:354, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.120474 seconds Thread 9 at 00:00:23:355, Cell ID: 5, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=5, doing G2-phase at timePoint=4 with sync Thread 10 at 00:00:23:362, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 40997 pixels Thread 0 at 00:00:23:367, Cell ID: 4, cellChr.cpp::ChrUpdateStats(): operation took 0.05505 seconds, percentil is 0.9 Thread 0 at 00:00:23:367, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: phantoms, centre: [9.32303, 44.9454, 8.69831], radius: 8.75 Thread 0 at 00:00:23:367, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:23:367, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 230184 'chr' points, ID=4 Thread 9 at 00:00:23:451, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: masks, centre: [48.7153, 22.4684, 8.5487], radius: 8.75 Thread 9 at 00:00:23:451, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:23:451, Cell ID: 5, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 9 at 00:00:23:452, Cell ID: 5, flowfields.cpp::DescribeTranslation(): adding vector (-2.04068,-1.44416,0) to the flow field Thread 7 at 00:00:23:464, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: masks, centre: [61.8607, 80.5352, 8.11624], radius: 8.75 Thread 7 at 00:00:23:464, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:23:464, Cell ID: 3, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 7 at 00:00:23:465, Cell ID: 3, flowfields.cpp::DescribeTranslation(): adding vector (-3.19736,-0.129987,0) to the flow field Thread 9 at 00:00:23:490, Cell ID: 5, flowfields.cpp::DescribeRotation(): adding rotation by 8.47253deg clockwise around (48.7153,22.4684,8.5487) in microns Thread 0 at 00:00:23:498, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.130661 seconds Thread 0 at 00:00:23:498, Cell ID: 4, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=4, doing G2-phase at timePoint=6 with sync Thread 7 at 00:00:23:499, Cell ID: 3, flowfields.cpp::DescribeRotation(): adding rotation by -8.28104deg clockwise around (61.8607,80.5352,8.11624) in microns Thread 0 at 00:00:23:581, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 7-7, sceneType: masks, centre: [9.32303, 44.9454, 8.69831], radius: 8.75 Thread 0 at 00:00:23:581, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:23:581, Cell ID: 4, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 0 at 00:00:23:582, Cell ID: 4, flowfields.cpp::DescribeTranslation(): adding vector (-0.824814,2.03953,0) to the flow field Thread 9 at 00:00:23:602, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 194326 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 0 at 00:00:23:605, Cell ID: 4, flowfields.cpp::DescribeRotation(): adding rotation by 23.1934deg clockwise around (9.32303,44.9454,8.69831) in microns Thread 7 at 00:00:23:608, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 227771 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 9 at 00:00:23:620, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (46.6746,21.0243,8.5487) Thread 9 at 00:00:23:620, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 171687 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 7 at 00:00:23:629, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (58.6634,80.4052,8.11624) Thread 7 at 00:00:23:629, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 203775 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 9 at 00:00:23:636, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (46.6677,21.0307,8.54509) Thread 9 at 00:00:23:636, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5438 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:23:637, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (45.5095,21.0177,7.80836) Thread 9 at 00:00:23:637, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5512 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:23:638, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (46.6582,19.3718,9.29154) Thread 9 at 00:00:23:638, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: masks, centre: [54.287, 32.3327, 8.54858], radius: 8.75 Thread 9 at 00:00:23:638, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:23:638, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=5 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:23:638, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:374--502, y:197--325, z:5--95 Thread 9 at 00:00:23:640, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): 67965 dots were removed (ID 5) Thread 9 at 00:00:23:640, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:23:641, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 with centre at (46.6746,21.0243,8.5487) in microns Thread 9 at 00:00:23:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:23:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(42.8872,17.2399,5.44746) microns (including 2px frame) Thread 9 at 00:00:23:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.51444,7.43209,6.06649) microns (including 2px frame) Thread 9 at 00:00:23:641, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(346,139,44) pixels Thread 9 at 00:00:23:644, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00364599 seconds Thread 7 at 00:00:23:648, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (58.6673,80.3967,8.1271) Thread 7 at 00:00:23:648, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5005 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:23:649, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (59.1159,79.6712,6.56623) Thread 7 at 00:00:23:649, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5400 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:23:649, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (60.4464,81.3466,8.18319) Thread 7 at 00:00:23:649, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: masks, centre: [65.6855, 78.7756, 8.11595], radius: 8.75 Thread 7 at 00:00:23:650, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:23:650, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=3 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:23:650, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:466--594, y:572--685, z:1--95 Thread 10 at 00:00:23:651, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 7 at 00:00:23:652, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): 89053 dots were removed (ID 3) Thread 7 at 00:00:23:652, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:23:652, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 with centre at (58.6634,80.4052,8.11624) in microns Thread 7 at 00:00:23:652, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:23:653, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(54.9089,76.6828,4.3332) microns (including 2px frame) Thread 7 at 00:00:23:653, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.38768,7.54697,7.30454) microns (including 2px frame) Thread 7 at 00:00:23:653, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(443,619,35) pixels Thread 9 at 00:00:23:653, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00929698 seconds Thread 9 at 00:00:23:654, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000469029 seconds Thread 7 at 00:00:23:657, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00454098 seconds Thread 7 at 00:00:23:666, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00986403 seconds Thread 7 at 00:00:23:667, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000431955 seconds Thread 9 at 00:00:23:671, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): 68863 dots were added (ID 5 ) Thread 9 at 00:00:23:678, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 0 at 00:00:23:679, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 194515 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 9 at 00:00:23:679, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(17.361,13.875,2.84753) microns (including 2px frame) Thread 9 at 00:00:23:679, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.06349,6.98115,5.81887) microns (including 2px frame) Thread 9 at 00:00:23:679, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(140,112,23) pixels Thread 7 at 00:00:23:682, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): 89658 dots were added (ID 3 ) Thread 9 at 00:00:23:683, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00410002 seconds Thread 7 at 00:00:23:689, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:23:689, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(16.1065,24.6821,3.21895) microns (including 2px frame) Thread 7 at 00:00:23:689, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.06967,7.20562,6.93313) microns (including 2px frame) Thread 7 at 00:00:23:690, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(130,199,26) pixels Thread 9 at 00:00:23:692, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.009345 seconds Thread 9 at 00:00:23:692, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000375986 seconds Thread 9 at 00:00:23:692, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:23:692, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(18.874,16.5645,4.36745) microns (including 2px frame) Thread 9 at 00:00:23:692, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.7657,1.7657,1.48567) microns (including 2px frame) Thread 9 at 00:00:23:692, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(152,133,35) pixels Thread 9 at 00:00:23:692, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000149965 seconds Thread 9 at 00:00:23:693, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000418007 seconds Thread 9 at 00:00:23:693, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.80006e-05 seconds Thread 9 at 00:00:23:693, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:23:693, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(20.1459,14.8455,5.75474) microns (including 2px frame) Thread 9 at 00:00:23:693, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.55062,1.86804,1.60948) microns (including 2px frame) Thread 9 at 00:00:23:693, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(162,119,46) pixels Thread 7 at 00:00:23:693, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00403303 seconds Thread 9 at 00:00:23:693, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000159979 seconds Thread 9 at 00:00:23:694, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00041604 seconds Thread 9 at 00:00:23:694, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.99676e-05 seconds Thread 0 at 00:00:23:699, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.49821,46.9849,8.69831) Thread 0 at 00:00:23:699, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 171382 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 7 at 00:00:23:702, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00869399 seconds Thread 7 at 00:00:23:702, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.00039196 seconds Thread 7 at 00:00:23:702, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:23:702, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(19.2001,26.6756,4.47826) microns (including 2px frame) Thread 7 at 00:00:23:702, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.82785,1.70628,1.36186) microns (including 2px frame) Thread 7 at 00:00:23:702, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(155,215,36) pixels Thread 7 at 00:00:23:702, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000114977 seconds Thread 7 at 00:00:23:702, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000254989 seconds Thread 7 at 00:00:23:702, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.10269e-05 seconds Thread 7 at 00:00:23:702, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:23:703, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(20.6101,28.3631,6.16727) microns (including 2px frame) Thread 7 at 00:00:23:703, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.6829,1.75299,1.36186) microns (including 2px frame) Thread 7 at 00:00:23:703, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(166,229,49) pixels Thread 7 at 00:00:23:703, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000122011 seconds Thread 7 at 00:00:23:703, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00028497 seconds Thread 7 at 00:00:23:703, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.10269e-05 seconds Thread 10 at 00:00:23:706, Cell ID: 1, cellChr.cpp::ChrUpdateStats(): operation took 0.037371 seconds, percentil is 0.9 Thread 10 at 00:00:23:706, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: phantoms, centre: [12.1894, 25.9638, 9.42653], radius: 8.75 Thread 10 at 00:00:23:706, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:23:706, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 162656 'chr' points, ID=1 Thread 0 at 00:00:23:717, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.49362,46.978,8.69302) Thread 0 at 00:00:23:718, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 4739 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:23:718, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.76743,45.4323,9.05408) Thread 0 at 00:00:23:718, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): moving 2480 dots with flow field at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:23:718, Cell ID: 4, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.82117,47.768,7.42575) Thread 0 at 00:00:23:718, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 7-7, sceneType: masks, centre: [7.10498, 39.2767, 8.69833], radius: 8.75 Thread 0 at 00:00:23:718, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:23:718, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=4 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:23:718, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--121, y:253--381, z:6--95 Thread 0 at 00:00:23:721, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): 67660 dots were removed (ID 4) Thread 0 at 00:00:23:721, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:23:721, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=4 with centre at (8.49821,46.9849,8.69831) in microns Thread 0 at 00:00:23:721, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:23:721, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(4.33919,43.4256,5.69507) microns (including 2px frame) Thread 0 at 00:00:23:721, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(8.36318,7.1589,5.94268) microns (including 2px frame) Thread 0 at 00:00:23:721, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(35,350,46) pixels Thread 0 at 00:00:23:721, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 0 at 00:00:23:725, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00403196 seconds Thread 0 at 00:00:23:734, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00915903 seconds Thread 0 at 00:00:23:734, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000365973 seconds Thread 0 at 00:00:23:749, Cell ID: 4, cellScm.cpp::ScmRenderCellIntoMask(): 68641 dots were added (ID 4 ) Thread 0 at 00:00:23:754, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:23:755, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(21.2766,27.5544,2.59992) microns (including 2px frame) Thread 0 at 00:00:23:755, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.916,6.71713,5.69507) microns (including 2px frame) Thread 0 at 00:00:23:755, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(171,222,21) pixels Thread 0 at 00:00:23:755, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 0 at 00:00:23:758, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.003425 seconds Thread 0 at 00:00:23:765, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00797296 seconds Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000290036 seconds Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.6509,28.4438,5.23491) microns (including 2px frame) Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.71415,1.82056,1.23806) microns (including 2px frame) Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(199,229,42) pixels Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000111997 seconds Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000262976 seconds Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.19805e-05 seconds Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.7223,30.8275,3.74727) microns (including 2px frame) Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.64477,1.60237,0.990447) microns (including 2px frame) Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(199,248,30) pixels Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 6.80089e-05 seconds Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000194013 seconds Thread 0 at 00:00:23:766, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 9.95398e-06 seconds Thread 7 at 00:00:23:790, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 77431 pixels Thread 9 at 00:00:23:795, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 57976 pixels Thread 0 at 00:00:23:821, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 58183 pixels Thread 10 at 00:00:23:831, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.124646 seconds Thread 10 at 00:00:23:832, Cell ID: 1, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=1, doing G2-phase at timePoint=6 with sync Thread 10 at 00:00:23:897, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 7-7, sceneType: masks, centre: [12.1894, 25.9638, 9.42653], radius: 8.75 Thread 10 at 00:00:23:897, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:23:897, Cell ID: 1, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 10 at 00:00:23:898, Cell ID: 1, flowfields.cpp::DescribeTranslation(): adding vector (-1.51694,1.72884,0) to the flow field Thread 10 at 00:00:23:921, Cell ID: 1, flowfields.cpp::DescribeRotation(): adding rotation by 8.14554deg clockwise around (12.1894,25.9638,9.42653) in microns Thread 10 at 00:00:23:999, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 162620 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:24:015, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.6725,27.6926,9.42653) Thread 10 at 00:00:24:015, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 139637 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:24:030, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.6575,27.6972,9.43379) Thread 10 at 00:00:24:030, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 5023 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:24:030, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.5403,28.5842,9.79304) Thread 10 at 00:00:24:030, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 4639 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:24:031, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (11.4766,26.3761,10.1458) Thread 10 at 00:00:24:031, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 7-7, sceneType: masks, centre: [15.5124, 20.9451, 9.42636], radius: 8.75 Thread 10 at 00:00:24:031, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:24:031, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=1 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:24:031, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:61--189, y:105--233, z:12--95 Thread 10 at 00:00:24:034, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): 49412 dots were removed (ID 1) Thread 10 at 00:00:24:034, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:24:034, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 with centre at (10.6725,27.6926,9.42653) in microns Thread 10 at 00:00:24:034, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:24:034, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(6.67721,23.9633,7.30454) microns (including 2px frame) Thread 10 at 00:00:24:034, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.97162,7.43772,4.3332) microns (including 2px frame) Thread 10 at 00:00:24:034, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(53,193,59) pixels Thread 10 at 00:00:24:037, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00355697 seconds Thread 10 at 00:00:24:044, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00697702 seconds Thread 10 at 00:00:24:044, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000256002 seconds Thread 10 at 00:00:24:064, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): 49969 dots were added (ID 1 ) Thread 10 at 00:00:24:069, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:24:069, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(17.4769,29.2677,2.72373) microns (including 2px frame) Thread 10 at 00:00:24:069, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.41919,6.98095,4.08559) microns (including 2px frame) Thread 10 at 00:00:24:069, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(141,236,22) pixels Thread 10 at 00:00:24:072, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00308597 seconds Thread 10 at 00:00:24:077, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00550801 seconds Thread 10 at 00:00:24:077, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000209987 seconds Thread 10 at 00:00:24:077, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:24:077, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(20.185,32.7977,4.39634) microns (including 2px frame) Thread 10 at 00:00:24:077, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.76212,1.78065,1.36186) microns (including 2px frame) Thread 10 at 00:00:24:077, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(163,264,35) pixels Thread 10 at 00:00:24:078, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000144005 seconds Thread 10 at 00:00:24:078, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000301003 seconds Thread 10 at 00:00:24:078, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.10269e-05 seconds Thread 10 at 00:00:24:078, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:24:078, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(21.1985,30.6232,4.50232) microns (including 2px frame) Thread 10 at 00:00:24:078, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.64792,1.64792,1.73328) microns (including 2px frame) Thread 10 at 00:00:24:078, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(171,247,36) pixels Thread 10 at 00:00:24:078, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000129044 seconds Thread 10 at 00:00:24:078, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000316978 seconds Thread 10 at 00:00:24:078, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.09673e-05 seconds Thread 10 at 00:00:24:135, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 41091 pixels Thread 0 at 00:00:24:169, Cell ID: 4, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 9 at 00:00:24:241, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 0 at 00:00:24:274, Cell ID: 4, cellChr.cpp::ChrUpdateStats(): operation took 0.066068 seconds, percentil is 0.9 Thread 0 at 00:00:24:274, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 7-7, sceneType: phantoms, centre: [8.49821, 46.9849, 8.69831], radius: 8.75 Thread 0 at 00:00:24:274, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:24:274, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 230184 'chr' points, ID=4 Thread 7 at 00:00:24:286, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 9 at 00:00:24:323, Cell ID: 5, cellChr.cpp::ChrUpdateStats(): operation took 0.055846 seconds, percentil is 0.9 Thread 9 at 00:00:24:323, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: phantoms, centre: [46.6746, 21.0243, 8.5487], radius: 8.75 Thread 9 at 00:00:24:323, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:24:323, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 229448 'chr' points, ID=5 Thread 10 at 00:00:24:371, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 0 at 00:00:24:404, Cell ID: 4, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.129867 seconds Thread 0 at 00:00:24:406, Cell ID: 4, bp_lists.cpp::AllocateAndZeroNewMask(): points span x=4.58681 to 12.4548; y=43.6732 to 50.3369; z=5.94268 to 11.3901 Thread 0 at 00:00:24:406, Cell ID: 4, bp_lists.cpp::AllocateAndZeroNewMask(): new image at (2.59992,41.3511,4.70462) of size (11.6377,11.1425,7.79977) in microns Thread 0 at 00:00:24:406, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): source image at (2.59992,41.3511,4.70462) of size (11.6377,11.1425,7.79977) in microns Thread 0 at 00:00:24:406, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(1.73927,2.07446,0.990447) microns (including 2px frame) Thread 0 at 00:00:24:406, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(8.36318,7.1589,5.94268) microns (including 2px frame) Thread 0 at 00:00:24:406, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(14,16,8) pixels Thread 0 at 00:00:24:406, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 0 at 00:00:24:410, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.003842 seconds Thread 7 at 00:00:24:415, Cell ID: 3, cellChr.cpp::ChrUpdateStats(): operation took 0.083528 seconds, percentil is 0.9 Thread 7 at 00:00:24:415, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: phantoms, centre: [58.6634, 80.4052, 8.11624], radius: 8.75 Thread 7 at 00:00:24:415, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:24:415, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 307832 'chr' points, ID=3 Thread 0 at 00:00:24:419, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00922799 seconds Thread 0 at 00:00:24:419, Cell ID: 4, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000384003 seconds Thread 0 at 00:00:24:419, Cell ID: 4, cell.cpp::GenerateCentrosomes(): Generating centrosomes Thread 0 at 00:00:24:419, Cell ID: 4, cell.cpp::GetCellPolarityAndCentreVector(): Computing principal axes Thread 0 at 00:00:24:424, Cell ID: 4, cell.cpp::GetCellPolarityAndCentreVector(): axis1: (-0.847535,0.530456,-0.0173336) Thread 0 at 00:00:24:424, Cell ID: 4, cell.cpp::GetCellPolarityAndCentreVector(): axis2: (-0.258726,-0.384422,0.886161) Thread 0 at 00:00:24:424, Cell ID: 4, cell.cpp::GetCellPolarityAndCentreVector(): axis3: (0.463406,0.755537,0.463054) Thread 0 at 00:00:24:424, Cell ID: 4, cell.cpp::GetCellPolarityAndCentreVector(): val1: 1.72668e+07 Thread 0 at 00:00:24:424, Cell ID: 4, cell.cpp::GetCellPolarityAndCentreVector(): val2: 6.49724e+06 Thread 0 at 00:00:24:424, Cell ID: 4, cell.cpp::GetCellPolarityAndCentreVector(): val3: 6.3501e+06 Thread 0 at 00:00:24:424, Cell ID: 4, cell.cpp::GetCellPolarityAndCentreVector(): polarity vector is: (-0.847535,0.530456,-0.0173336) Thread 0 at 00:00:24:424, Cell ID: 4, cell.cpp::GetCellPolarityAndCentreVector(): centroid (in microns): (8.4188,46.9224,8.66641) Thread 0 at 00:00:24:426, Cell ID: 4, cell.cpp::GenerateCentrosomes(): Doing distance transform Thread 10 at 00:00:24:433, Cell ID: 1, cellChr.cpp::ChrUpdateStats(): operation took 0.040007 seconds, percentil is 0.9 Thread 10 at 00:00:24:433, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 7-7, sceneType: phantoms, centre: [10.6725, 27.6926, 9.42653], radius: 8.75 Thread 10 at 00:00:24:433, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:24:433, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 162656 'chr' points, ID=1 Thread 0 at 00:00:24:453, Cell ID: 4, cell.cpp::GenerateCentrosomes(): max dist: 6.14648 Thread 0 at 00:00:24:455, Cell ID: 4, cell.cpp::GenerateCentrosomes(): centrosome A: (5.87619,48.5138,8.61441) Thread 0 at 00:00:24:455, Cell ID: 4, cell.cpp::GenerateCentrosomes(): centrosome B: (11.8089,44.8006,8.73574) Thread 0 at 00:00:24:455, Cell ID: 4, cell.cpp::GenerateCentrosomes(): centrosomes generated. Thread 0 at 00:00:24:455, Cell ID: 4, regionlock.h::printLockInfo(): TIME lock, waiting time: 0ms, timePoint: 7-7, sceneType: masks Thread 0 at 00:00:24:455, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 0 at 00:00:24:455, Cell ID: 4, bp_lists.cpp::ResetBoundaryPoints(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:24:464, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.140795 seconds Thread 9 at 00:00:24:465, Cell ID: 5, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=5, doing G2-phase at timePoint=5 with sync Thread 10 at 00:00:24:550, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.116714 seconds Thread 10 at 00:00:24:550, Cell ID: 1, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=1, doing G2-phase at timePoint=7 with sync Thread 7 at 00:00:24:557, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.141767 seconds Thread 7 at 00:00:24:558, Cell ID: 3, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=3, doing G2-phase at timePoint=5 with sync Thread 9 at 00:00:24:563, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: masks, centre: [46.6746, 21.0243, 8.5487], radius: 8.75 Thread 9 at 00:00:24:563, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:24:563, Cell ID: 5, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 9 at 00:00:24:564, Cell ID: 5, flowfields.cpp::DescribeTranslation(): adding vector (-1.96573,0.987886,0) to the flow field Thread 9 at 00:00:24:602, Cell ID: 5, flowfields.cpp::DescribeRotation(): adding rotation by 18.2999deg clockwise around (46.6746,21.0243,8.5487) in microns Thread 10 at 00:00:24:617, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 8-8, sceneType: masks, centre: [10.6725, 27.6926, 9.42653], radius: 8.75 Thread 10 at 00:00:24:617, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:24:617, Cell ID: 1, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 10 at 00:00:24:626, Cell ID: 1, flowfields.cpp::DescribeTranslation(): adding vector (-1.79791,0.086633,0) to the flow field Thread 10 at 00:00:24:648, Cell ID: 1, flowfields.cpp::DescribeRotation(): adding rotation by 8.38968deg clockwise around (10.6725,27.6926,9.42653) in microns Thread 7 at 00:00:24:688, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: masks, centre: [58.6634, 80.4052, 8.11624], radius: 8.75 Thread 7 at 00:00:24:688, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:24:688, Cell ID: 3, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 7 at 00:00:24:690, Cell ID: 3, flowfields.cpp::DescribeTranslation(): adding vector (-1.46544,-0.320133,0) to the flow field Thread 10 at 00:00:24:718, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 162620 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 9 at 00:00:24:718, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 194326 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 7 at 00:00:24:725, Cell ID: 3, flowfields.cpp::DescribeRotation(): adding rotation by 9.90113deg clockwise around (58.6634,80.4052,8.11624) in microns Thread 10 at 00:00:24:735, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.87459,27.7793,9.42653) Thread 10 at 00:00:24:735, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 139637 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 9 at 00:00:24:738, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (44.7089,22.0122,8.5487) Thread 9 at 00:00:24:738, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 171687 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 10 at 00:00:24:749, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.85908,27.7815,9.43379) Thread 10 at 00:00:24:749, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 5023 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:24:749, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.61376,28.642,9.79304) Thread 10 at 00:00:24:749, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 4639 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:24:750, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (9.86217,26.5941,10.1458) Thread 10 at 00:00:24:750, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 8-8, sceneType: masks, centre: [15.5124, 20.9451, 9.42636], radius: 8.75 Thread 10 at 00:00:24:750, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:24:750, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=1 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:24:750, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:61--189, y:105--233, z:12--95 Thread 9 at 00:00:24:756, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (44.7003,22.0161,8.54509) Thread 9 at 00:00:24:756, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5438 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:24:757, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (43.6047,21.64,7.80836) Thread 9 at 00:00:24:757, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5512 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:24:758, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (45.2121,20.4381,9.29154) Thread 9 at 00:00:24:758, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: masks, centre: [54.287, 32.3327, 8.54858], radius: 8.75 Thread 9 at 00:00:24:758, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:24:758, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=5 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:24:758, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:374--502, y:197--325, z:5--95 Thread 9 at 00:00:24:760, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): 67965 dots were removed (ID 5) Thread 9 at 00:00:24:760, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:24:760, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 with centre at (44.7089,22.0122,8.5487) in microns Thread 9 at 00:00:24:760, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:24:761, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(41.0652,18.3646,5.44746) microns (including 2px frame) Thread 9 at 00:00:24:761, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.17121,7.23423,6.06649) microns (including 2px frame) Thread 9 at 00:00:24:761, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(331,148,44) pixels Thread 9 at 00:00:24:761, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 10 at 00:00:24:763, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): 49412 dots were removed (ID 1) Thread 10 at 00:00:24:763, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:24:763, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 with centre at (8.87459,27.7793,9.42653) in microns Thread 10 at 00:00:24:763, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:24:763, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(4.91457,24.0765,7.30454) microns (including 2px frame) Thread 10 at 00:00:24:763, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.94629,7.50228,4.3332) microns (including 2px frame) Thread 10 at 00:00:24:763, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(39,194,59) pixels Thread 9 at 00:00:24:764, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00397199 seconds Thread 10 at 00:00:24:766, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00323999 seconds Thread 9 at 00:00:24:772, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00823301 seconds Thread 9 at 00:00:24:773, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000348032 seconds Thread 10 at 00:00:24:773, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00696099 seconds Thread 10 at 00:00:24:773, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000259042 seconds Thread 9 at 00:00:24:788, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): 68975 dots were added (ID 5 ) Thread 10 at 00:00:24:793, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): 50085 dots were added (ID 1 ) Thread 9 at 00:00:24:795, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:24:795, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(15.4956,15.0122,2.84753) microns (including 2px frame) Thread 9 at 00:00:24:795, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(6.77226,6.81433,5.81887) microns (including 2px frame) Thread 9 at 00:00:24:795, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(125,121,23) pixels Thread 10 at 00:00:24:798, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:24:798, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(15.714,29.3646,2.72373) microns (including 2px frame) Thread 10 at 00:00:24:798, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.39436,7.07831,4.08559) microns (including 2px frame) Thread 10 at 00:00:24:798, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(126,237,22) pixels Thread 10 at 00:00:24:798, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 9 at 00:00:24:798, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00355399 seconds Thread 10 at 00:00:24:800, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00279099 seconds Thread 9 at 00:00:24:806, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00736398 seconds Thread 9 at 00:00:24:806, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000317991 seconds Thread 9 at 00:00:24:806, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:24:806, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(16.995,17.1598,4.36745) microns (including 2px frame) Thread 9 at 00:00:24:806, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.73383,1.81082,1.48567) microns (including 2px frame) Thread 9 at 00:00:24:806, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(137,138,35) pixels Thread 10 at 00:00:24:806, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00562501 seconds Thread 9 at 00:00:24:806, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000144005 seconds Thread 10 at 00:00:24:806, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000212014 seconds Thread 10 at 00:00:24:806, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:24:806, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(18.2592,32.8469,4.39634) microns (including 2px frame) Thread 10 at 00:00:24:806, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.76906,1.76906,1.36186) microns (including 2px frame) Thread 10 at 00:00:24:806, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(147,265,35) pixels Thread 10 at 00:00:24:806, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000124991 seconds Thread 9 at 00:00:24:807, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000367999 seconds Thread 9 at 00:00:24:807, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 2.19941e-05 seconds Thread 9 at 00:00:24:807, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:24:807, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(18.704,15.9013,5.75474) microns (including 2px frame) Thread 9 at 00:00:24:807, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.5519,1.90179,1.60948) microns (including 2px frame) Thread 9 at 00:00:24:807, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(151,128,46) pixels Thread 10 at 00:00:24:807, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00031203 seconds Thread 9 at 00:00:24:807, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000182986 seconds Thread 10 at 00:00:24:807, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.40071e-05 seconds Thread 10 at 00:00:24:807, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:24:807, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(19.5748,30.8085,4.50232) microns (including 2px frame) Thread 10 at 00:00:24:807, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.66306,1.66306,1.73328) microns (including 2px frame) Thread 10 at 00:00:24:807, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(158,248,36) pixels Thread 10 at 00:00:24:807, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000114977 seconds Thread 10 at 00:00:24:807, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000340998 seconds Thread 10 at 00:00:24:807, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 2.10404e-05 seconds Thread 9 at 00:00:24:807, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000528991 seconds Thread 9 at 00:00:24:807, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.90139e-05 seconds Thread 7 at 00:00:24:843, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 227771 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 10 at 00:00:24:865, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 41142 pixels Thread 7 at 00:00:24:866, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (57.1979,80.085,8.11624) Thread 7 at 00:00:24:866, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 203775 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 9 at 00:00:24:894, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 58155 pixels Thread 7 at 00:00:24:914, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (57.2032,80.0774,8.1271) Thread 7 at 00:00:24:914, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5005 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:24:915, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (57.7699,79.4399,6.56623) Thread 7 at 00:00:24:915, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5400 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:24:916, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (58.7925,81.319,8.18319) Thread 7 at 00:00:24:916, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: masks, centre: [65.6855, 78.7756, 8.11595], radius: 8.75 Thread 7 at 00:00:24:916, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:24:916, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=3 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:24:916, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:466--594, y:572--685, z:1--95 Thread 7 at 00:00:24:919, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): 89053 dots were removed (ID 3) Thread 7 at 00:00:24:919, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:24:919, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 with centre at (57.1979,80.085,8.11624) in microns Thread 7 at 00:00:24:919, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:24:920, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(53.4659,76.3757,4.3332) microns (including 2px frame) Thread 7 at 00:00:24:920, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.54056,7.34888,7.30454) microns (including 2px frame) Thread 7 at 00:00:24:920, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(431,616,35) pixels Thread 7 at 00:00:24:921, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 7 at 00:00:24:928, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00833702 seconds Thread 7 at 00:00:24:945, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.017419 seconds Thread 7 at 00:00:24:946, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000657022 seconds Thread 7 at 00:00:24:970, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): 89987 dots were added (ID 3 ) Thread 7 at 00:00:24:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:24:978, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(14.5947,24.3852,3.21895) microns (including 2px frame) Thread 7 at 00:00:24:978, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.22123,7.0694,6.93313) microns (including 2px frame) Thread 7 at 00:00:24:978, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(117,196,26) pixels Thread 7 at 00:00:24:982, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00561702 seconds Thread 7 at 00:00:24:995, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.0124 seconds Thread 7 at 00:00:24:995, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000497997 seconds Thread 7 at 00:00:24:995, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:24:995, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(17.8124,26.4124,4.47826) microns (including 2px frame) Thread 7 at 00:00:24:995, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.87236,1.75661,1.36186) microns (including 2px frame) Thread 7 at 00:00:24:995, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(143,213,36) pixels Thread 7 at 00:00:24:996, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000155032 seconds Thread 7 at 00:00:24:996, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000366986 seconds Thread 7 at 00:00:24:996, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.50204e-05 seconds Thread 7 at 00:00:24:996, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:24:996, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(18.9242,28.2714,6.16727) microns (including 2px frame) Thread 7 at 00:00:24:996, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.71268,1.84444,1.36186) microns (including 2px frame) Thread 7 at 00:00:24:996, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(152,228,49) pixels Thread 7 at 00:00:24:996, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 7 at 00:00:24:996, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000167012 seconds Thread 7 at 00:00:24:996, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000360012 seconds Thread 7 at 00:00:24:996, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.39475e-05 seconds Thread 10 at 00:00:25:082, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 7 at 00:00:25:096, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 77713 pixels Thread 10 at 00:00:25:132, Cell ID: 1, cellChr.cpp::ChrUpdateStats(): operation took 0.03369 seconds, percentil is 0.9 Thread 10 at 00:00:25:132, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 8-8, sceneType: phantoms, centre: [8.87459, 27.7793, 9.42653], radius: 8.75 Thread 10 at 00:00:25:132, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:25:132, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 162656 'chr' points, ID=1 Thread 10 at 00:00:25:250, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.118664 seconds Thread 10 at 00:00:25:251, Cell ID: 1, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=1, doing G2-phase at timePoint=8 with sync Thread 10 at 00:00:25:315, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 9-9, sceneType: masks, centre: [8.87459, 27.7793, 9.42653], radius: 8.75 Thread 10 at 00:00:25:315, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:25:315, Cell ID: 1, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 10 at 00:00:25:316, Cell ID: 1, flowfields.cpp::DescribeTranslation(): adding vector (2.00992,-0.608469,0) to the flow field Thread 10 at 00:00:25:339, Cell ID: 1, flowfields.cpp::DescribeRotation(): adding rotation by -8.48561deg clockwise around (8.87459,27.7793,9.42653) in microns Thread 9 at 00:00:25:391, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 10 at 00:00:25:415, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 162620 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:25:432, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.8845,27.1708,9.42653) Thread 10 at 00:00:25:432, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 139637 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:25:446, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.8695,27.1753,9.43379) Thread 10 at 00:00:25:446, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 5023 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:25:447, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (10.7538,28.0626,9.79304) Thread 10 at 00:00:25:447, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): moving 4639 dots with flow field at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:25:447, Cell ID: 1, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (11.6864,25.8529,10.1458) Thread 10 at 00:00:25:447, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 9-9, sceneType: masks, centre: [15.5124, 20.9451, 9.42636], radius: 8.75 Thread 10 at 00:00:25:447, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:25:447, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=1 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:25:447, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:61--189, y:105--233, z:12--95 Thread 10 at 00:00:25:449, Cell ID: 1, cellScm.cpp::ScmRemoveCellFromMask(): 49412 dots were removed (ID 1) Thread 10 at 00:00:25:449, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:25:449, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=1 with centre at (10.8845,27.1708,9.42653) in microns Thread 10 at 00:00:25:449, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 10 at 00:00:25:450, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(6.88902,23.4413,7.30454) microns (including 2px frame) Thread 10 at 00:00:25:450, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.97124,7.43786,4.3332) microns (including 2px frame) Thread 10 at 00:00:25:450, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(55,189,59) pixels Thread 10 at 00:00:25:452, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00322601 seconds Thread 10 at 00:00:25:459, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.006946 seconds Thread 10 at 00:00:25:460, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000256002 seconds Thread 10 at 00:00:25:474, Cell ID: 1, cellScm.cpp::ScmRenderCellIntoMask(): 50055 dots were added (ID 1 ) Thread 10 at 00:00:25:479, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:25:479, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(17.6887,28.7459,2.72373) microns (including 2px frame) Thread 10 at 00:00:25:479, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.41886,6.98077,4.08559) microns (including 2px frame) Thread 10 at 00:00:25:479, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(142,232,22) pixels Thread 10 at 00:00:25:479, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 10 at 00:00:25:481, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.002776 seconds Thread 10 at 00:00:25:487, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00546601 seconds Thread 10 at 00:00:25:487, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000209004 seconds Thread 10 at 00:00:25:487, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:25:487, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(20.3986,32.276,4.39634) microns (including 2px frame) Thread 10 at 00:00:25:487, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.76188,1.78087,1.36186) microns (including 2px frame) Thread 10 at 00:00:25:487, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(164,260,35) pixels Thread 10 at 00:00:25:487, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000140995 seconds Thread 10 at 00:00:25:487, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000299007 seconds Thread 10 at 00:00:25:487, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.20103e-05 seconds Thread 10 at 00:00:25:487, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 10 at 00:00:25:488, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(21.4084,30.1005,4.50232) microns (including 2px frame) Thread 10 at 00:00:25:488, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.64761,1.6476,1.73328) microns (including 2px frame) Thread 10 at 00:00:25:488, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(172,243,36) pixels Thread 10 at 00:00:25:488, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000108004 seconds Thread 10 at 00:00:25:488, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000312984 seconds Thread 10 at 00:00:25:488, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.20103e-05 seconds Thread 9 at 00:00:25:493, Cell ID: 5, cellChr.cpp::ChrUpdateStats(): operation took 0.066439 seconds, percentil is 0.9 Thread 9 at 00:00:25:493, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: phantoms, centre: [44.7089, 22.0122, 8.5487], radius: 8.75 Thread 9 at 00:00:25:493, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 9 at 00:00:25:493, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 229448 'chr' points, ID=5 Thread 10 at 00:00:25:545, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 41141 pixels Thread 7 at 00:00:25:607, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 9 at 00:00:25:620, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.127034 seconds Thread 9 at 00:00:25:621, Cell ID: 5, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=5, doing G2-phase at timePoint=6 with sync Thread 7 at 00:00:25:737, Cell ID: 3, cellChr.cpp::ChrUpdateStats(): operation took 0.089467 seconds, percentil is 0.9 Thread 7 at 00:00:25:737, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: phantoms, centre: [57.1979, 80.085, 8.11624], radius: 8.75 Thread 7 at 00:00:25:737, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 7 at 00:00:25:737, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 307832 'chr' points, ID=3 Thread 4 at 00:00:25:744, Cell ID: 2, cellScm.cpp::ScmSuggestTranslationsTowardsEmpty_SS(): discovered 2940 available translations before DT Thread 4 at 00:00:25:744, Cell ID: 2, cellScm.cpp::ScmSuggestTranslationsTowardsEmpty_SS(): Collision detections took 6.73576 seconds Thread 4 at 00:00:25:745, Cell ID: 2, cellScm.cpp::ScmSuggestTranslationsTowardsEmpty_SS(): Distance transform took 0.000855446 seconds Thread 4 at 00:00:25:745, Cell ID: 2, cellScm.cpp::ScmSuggestTranslationsTowardsEmpty_SS(): Complete processing took 6.73662 seconds Thread 4 at 00:00:25:745, Cell ID: 2, cellScm.cpp::ScmSuggestTranslationVector(): Got to follow MovsMask, its initial sum is 110.405 Thread 4 at 00:00:25:746, Cell ID: 2, cell_movement.cpp::ReadVectorFromPreferenceMap(): returning with vector (0,-0.495223,-0.247612) Thread 4 at 00:00:25:747, Cell ID: 2, flowfields.cpp::DescribeTranslation(): adding vector (0,-0.495223,-0.247612) to the flow field Thread 4 at 00:00:25:776, Cell ID: 2, flowfields.cpp::DescribeRotation(): adding rotation by -17.5187deg clockwise around (4.2114,12.6927,8.51112) in microns Thread 10 at 00:00:25:777, Cell ID: 1, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 10 at 00:00:25:834, Cell ID: 1, cellChr.cpp::ChrUpdateStats(): operation took 0.039474 seconds, percentil is 0.9 Thread 10 at 00:00:25:834, Cell ID: 1, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 9-9, sceneType: phantoms, centre: [10.8845, 27.1708, 9.42653], radius: 8.75 Thread 10 at 00:00:25:834, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:25:834, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 162656 'chr' points, ID=1 Thread 4 at 00:00:25:860, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 206114 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 7 at 00:00:25:864, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.127584 seconds Thread 7 at 00:00:25:865, Cell ID: 3, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=3, doing G2-phase at timePoint=6 with sync Thread 4 at 00:00:25:882, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (4.2104,12.1974,8.26368) Thread 4 at 00:00:25:882, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 181701 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:25:900, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (4.20142,12.1956,8.27027) Thread 4 at 00:00:25:900, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4947 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:25:901, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (5.5127,13.2849,7.53786) Thread 4 at 00:00:25:901, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4811 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:25:901, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (4.89947,10.7475,7.54938) Thread 4 at 00:00:25:901, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: masks, centre: [4.2114, 12.6927, 8.51112], radius: 8.75 Thread 4 at 00:00:25:901, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 4 at 00:00:25:901, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=2 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:25:901, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--98, y:38--166, z:4--95 Thread 4 at 00:00:25:904, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): 74945 dots were removed (ID 2) Thread 4 at 00:00:25:904, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:25:904, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 with centre at (4.2104,12.1974,8.26368) in microns Thread 4 at 00:00:25:904, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:25:905, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(0.313785,8.42785,5.19984) microns (including 2px frame) Thread 4 at 00:00:25:905, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.67802,7.6971,6.3141) microns (including 2px frame) Thread 4 at 00:00:25:905, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(2,68,42) pixels Thread 4 at 00:00:25:908, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00409603 seconds Thread 4 at 00:00:25:918, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00949299 seconds Thread 4 at 00:00:25:918, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000387967 seconds Thread 4 at 00:00:25:936, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): 75778 dots were added (ID 2 ) Thread 4 at 00:00:25:943, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:25:944, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(20.8541,20.6359,2.59992) microns (including 2px frame) Thread 4 at 00:00:25:944, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.20577,7.25585,6.06648) microns (including 2px frame) Thread 4 at 00:00:25:944, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(168,166,21) pixels Thread 4 at 00:00:25:947, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00375098 seconds Thread 4 at 00:00:25:955, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00805998 seconds Thread 4 at 00:00:25:955, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000359058 seconds Thread 4 at 00:00:25:955, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:25:955, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.8713,24.4395,4.16267) microns (including 2px frame) Thread 4 at 00:00:25:955, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.83119,1.74413,1.23806) microns (including 2px frame) Thread 4 at 00:00:25:955, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(200,197,33) pixels Thread 4 at 00:00:25:955, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:25:956, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000131011 seconds Thread 4 at 00:00:25:956, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000234962 seconds Thread 4 at 00:00:25:956, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.10269e-05 seconds Thread 4 at 00:00:25:956, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:25:956, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.3429,21.8723,4.14234) microns (including 2px frame) Thread 4 at 00:00:25:956, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.74413,1.74413,1.36186) microns (including 2px frame) Thread 4 at 00:00:25:956, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(196,176,33) pixels Thread 4 at 00:00:25:956, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000127017 seconds Thread 4 at 00:00:25:956, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000274003 seconds Thread 4 at 00:00:25:956, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.09673e-05 seconds Thread 10 at 00:00:25:957, Cell ID: 1, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.122132 seconds Thread 10 at 00:00:25:958, Cell ID: 1, bp_lists.cpp::AllocateAndZeroNewMask(): points span x=7.13663 to 14.6126; y=23.689 to 30.6316; z=7.55216 to 11.3901 Thread 10 at 00:00:25:958, Cell ID: 1, bp_lists.cpp::AllocateAndZeroNewMask(): new image at (5.32365,21.666,6.68551) of size (11.0187,10.8949,5.57126) in microns Thread 10 at 00:00:25:958, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): source image at (5.32365,21.666,6.68551) of size (11.0187,10.8949,5.57126) in microns Thread 10 at 00:00:25:959, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(1.56537,1.77533,0.619029) microns (including 2px frame) Thread 10 at 00:00:25:959, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.97124,7.43786,4.3332) microns (including 2px frame) Thread 10 at 00:00:25:959, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(12,14,4) pixels Thread 10 at 00:00:25:962, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00337505 seconds Thread 10 at 00:00:25:970, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00876796 seconds Thread 10 at 00:00:25:971, Cell ID: 1, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000292003 seconds Thread 10 at 00:00:25:971, Cell ID: 1, cell.cpp::GenerateCentrosomes(): Generating centrosomes Thread 10 at 00:00:25:971, Cell ID: 1, cell.cpp::GetCellPolarityAndCentreVector(): Computing principal axes Thread 10 at 00:00:25:975, Cell ID: 1, cell.cpp::GetCellPolarityAndCentreVector(): axis1: (-0.921786,-0.377828,0.086932) Thread 10 at 00:00:25:975, Cell ID: 1, cell.cpp::GetCellPolarityAndCentreVector(): axis2: (-0.382463,0.922911,-0.044254) Thread 10 at 00:00:25:975, Cell ID: 1, cell.cpp::GetCellPolarityAndCentreVector(): axis3: (0.06351,0.074041,0.995231) Thread 10 at 00:00:25:975, Cell ID: 1, cell.cpp::GetCellPolarityAndCentreVector(): val1: 8.53897e+06 Thread 10 at 00:00:25:975, Cell ID: 1, cell.cpp::GetCellPolarityAndCentreVector(): val2: 7.6849e+06 Thread 10 at 00:00:25:975, Cell ID: 1, cell.cpp::GetCellPolarityAndCentreVector(): val3: 2.26088e+06 Thread 10 at 00:00:25:975, Cell ID: 1, cell.cpp::GetCellPolarityAndCentreVector(): polarity vector is: (-0.921786,-0.377828,0.086932) Thread 10 at 00:00:25:975, Cell ID: 1, cell.cpp::GetCellPolarityAndCentreVector(): centroid (in microns): (10.7711,27.1135,9.40924) Thread 10 at 00:00:25:976, Cell ID: 1, cell.cpp::GenerateCentrosomes(): Doing distance transform Thread 10 at 00:00:25:994, Cell ID: 1, cell.cpp::GenerateCentrosomes(): max dist: 3.51008 Thread 10 at 00:00:25:995, Cell ID: 1, cell.cpp::GenerateCentrosomes(): centrosome A: (8.00575,25.98,9.67004) Thread 10 at 00:00:25:995, Cell ID: 1, cell.cpp::GenerateCentrosomes(): centrosome B: (13.5365,28.247,9.14845) Thread 10 at 00:00:25:995, Cell ID: 1, cell.cpp::GenerateCentrosomes(): centrosomes generated. Thread 10 at 00:00:25:995, Cell ID: 1, regionlock.h::printLockInfo(): TIME lock, waiting time: 0ms, timePoint: 9-9, sceneType: masks Thread 10 at 00:00:25:995, Cell ID: 1, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 10 at 00:00:25:995, Cell ID: 1, bp_lists.cpp::ResetBoundaryPoints(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:26:022, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 64643 pixels Thread 4 at 00:00:26:374, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 4 at 00:00:26:469, Cell ID: 2, cellChr.cpp::ChrUpdateStats(): operation took 0.062138 seconds, percentil is 0.9 Thread 4 at 00:00:26:469, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 1-1, sceneType: phantoms, centre: [4.2104, 12.1974, 8.26368], radius: 8.75 Thread 4 at 00:00:26:469, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 0s Thread 4 at 00:00:26:469, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 255944 'chr' points, ID=2 Thread 4 at 00:00:26:585, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.115713 seconds Thread 4 at 00:00:26:586, Cell ID: 2, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=2, doing G2-phase at timePoint=1 with sync Thread 0 at 00:00:26:641, Cell ID: 4, bp_lists.cpp::ResetBoundaryPoints(): new list contains 199775 points (12653 outer) with centre at (8.49456,46.9822,8.69454) Thread 9 at 00:00:26:641, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 917ms, timePoint: 7-7, sceneType: masks, centre: [44.7089, 22.0122, 8.5487], radius: 8.75 Thread 9 at 00:00:26:641, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 0 at 00:00:26:641, Cell ID: 4, scheduler.cpp::PnGetMeNonrigidHints(): points span x=4.58082 to 12.5044; y=43.7035 to 50.2652; z=5.94268 to 11.3901 Thread 0 at 00:00:26:641, Cell ID: 4, scheduler.cpp::PnGetMeNonrigidHints(): span in pixels is 64; 54; 45 Thread 0 at 00:00:26:641, Cell ID: 4, scheduler.cpp::PnGetMeNonrigidHints(): since pnArray has size 197,197,197, will use offset 117,59,14 Thread 9 at 00:00:26:641, Cell ID: 5, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 7 at 00:00:26:641, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 647ms, timePoint: 7-7, sceneType: masks, centre: [57.1979, 80.085, 8.11624], radius: 8.75 Thread 7 at 00:00:26:642, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 7 at 00:00:26:642, Cell ID: 3, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 9 at 00:00:26:643, Cell ID: 5, flowfields.cpp::DescribeTranslation(): adding vector (1.69188,-0.165934,0) to the flow field Thread 7 at 00:00:26:644, Cell ID: 3, flowfields.cpp::DescribeTranslation(): adding vector (-2.34444,-0.868113,0) to the flow field Thread 0 at 00:00:26:649, Cell ID: 4, bp_lists.cpp::ResetBoundaryPoints(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 4 at 00:00:26:675, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: masks, centre: [4.2104, 12.1974, 8.26368], radius: 8.75 Thread 4 at 00:00:26:675, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:26:675, Cell ID: 2, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 4 at 00:00:26:678, Cell ID: 2, flowfields.cpp::DescribeTranslation(): adding vector (0.571629,-0.182321,0) to the flow field Thread 7 at 00:00:26:686, Cell ID: 3, flowfields.cpp::DescribeRotation(): adding rotation by 5.47241deg clockwise around (57.1979,80.085,8.11624) in microns Thread 4 at 00:00:26:713, Cell ID: 2, flowfields.cpp::DescribeRotation(): adding rotation by -17.7685deg clockwise around (4.2104,12.1974,8.26368) in microns Thread 9 at 00:00:26:714, Cell ID: 5, flowfields.cpp::DescribeRotation(): adding rotation by 9.56874deg clockwise around (44.7089,22.0122,8.5487) in microns Thread 7 at 00:00:26:797, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 227771 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:26:821, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (54.8535,79.2169,8.11624) Thread 7 at 00:00:26:821, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 203775 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 4 at 00:00:26:831, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 206114 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 7 at 00:00:26:842, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (54.8595,79.2098,8.1271) Thread 7 at 00:00:26:842, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5005 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:26:842, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (55.4844,78.6292,6.56623) Thread 7 at 00:00:26:842, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5400 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:26:843, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (56.3232,80.5973,8.18319) Thread 7 at 00:00:26:843, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 7-7, sceneType: masks, centre: [65.6855, 78.7756, 8.11595], radius: 8.75 Thread 7 at 00:00:26:843, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 7 at 00:00:26:843, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=3 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:26:843, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:466--594, y:572--685, z:1--95 Thread 7 at 00:00:26:845, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): 89053 dots were removed (ID 3) Thread 7 at 00:00:26:845, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:26:845, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 with centre at (54.8535,79.2169,8.11624) in microns Thread 7 at 00:00:26:845, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:26:846, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(51.025,75.528,4.3332) microns (including 2px frame) Thread 7 at 00:00:26:846, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.73545,7.3096,7.30454) microns (including 2px frame) Thread 7 at 00:00:26:846, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(412,610,35) pixels Thread 7 at 00:00:26:850, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00447899 seconds Thread 4 at 00:00:26:856, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (4.78203,12.0151,8.26368) Thread 4 at 00:00:26:856, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 181701 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 7 at 00:00:26:860, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.010279 seconds Thread 7 at 00:00:26:860, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000429988 seconds Thread 9 at 00:00:26:861, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 194326 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 7 at 00:00:26:876, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): 90119 dots were added (ID 3 ) Thread 4 at 00:00:26:879, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (4.77293,12.0161,8.27027) Thread 4 at 00:00:26:879, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4947 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:26:880, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (6.35406,12.6532,7.53786) Thread 4 at 00:00:26:880, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4811 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:26:880, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (4.99575,10.4241,7.54938) Thread 4 at 00:00:26:880, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: masks, centre: [4.2114, 12.6927, 8.51112], radius: 8.75 Thread 4 at 00:00:26:880, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:26:880, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=2 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:26:880, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--98, y:38--166, z:4--95 Thread 7 at 00:00:26:882, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 4 at 00:00:26:883, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): 74945 dots were removed (ID 2) Thread 4 at 00:00:26:883, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:26:883, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 with centre at (4.78203,12.0151,8.26368) in microns Thread 4 at 00:00:26:883, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:26:883, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(12.2391,23.57,3.21895) microns (including 2px frame) Thread 7 at 00:00:26:883, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.30199,6.97955,6.93313) microns (including 2px frame) Thread 7 at 00:00:26:883, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(98,190,26) pixels Thread 7 at 00:00:26:883, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:26:884, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(0.729299,8.4321,5.19984) microns (including 2px frame) Thread 4 at 00:00:26:884, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.95806,7.0625,6.3141) microns (including 2px frame) Thread 4 at 00:00:26:884, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(5,68,42) pixels Thread 9 at 00:00:26:885, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (46.4008,21.8462,8.5487) Thread 9 at 00:00:26:885, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 171687 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 7 at 00:00:26:886, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00391996 seconds Thread 4 at 00:00:26:888, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00506103 seconds Thread 7 at 00:00:26:895, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00866503 seconds Thread 7 at 00:00:26:895, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000371993 seconds Thread 7 at 00:00:26:895, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(15.5129,25.5926,4.47826) microns (including 2px frame) Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.8794,1.76836,1.36186) microns (including 2px frame) Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(125,206,36) pixels Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000126004 seconds Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000289977 seconds Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.30534e-05 seconds Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(16.445,27.5228,6.16727) microns (including 2px frame) Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.71359,1.87788,1.36186) microns (including 2px frame) Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(132,222,49) pixels Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000135005 seconds Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000294983 seconds Thread 7 at 00:00:26:896, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.29938e-05 seconds Thread 4 at 00:00:26:899, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.011082 seconds Thread 4 at 00:00:26:900, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000446022 seconds Thread 9 at 00:00:26:906, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (46.3917,21.8487,8.54509) Thread 9 at 00:00:26:906, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5438 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:26:906, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (45.3738,21.2957,7.80836) Thread 9 at 00:00:26:906, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5512 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:26:907, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (47.1587,20.3778,9.29154) Thread 9 at 00:00:26:907, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 7-7, sceneType: masks, centre: [54.287, 32.3327, 8.54858], radius: 8.75 Thread 9 at 00:00:26:907, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 9 at 00:00:26:907, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=5 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:26:907, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:374--502, y:197--325, z:5--95 Thread 9 at 00:00:26:909, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): 67965 dots were removed (ID 5) Thread 9 at 00:00:26:909, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:26:909, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 with centre at (46.4008,21.8462,8.5487) in microns Thread 9 at 00:00:26:909, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:26:910, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(42.8197,18.1378,5.44746) microns (including 2px frame) Thread 9 at 00:00:26:910, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.17451,7.42779,6.06649) microns (including 2px frame) Thread 9 at 00:00:26:910, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(345,146,44) pixels Thread 9 at 00:00:26:910, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 9 at 00:00:26:914, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00473601 seconds Thread 4 at 00:00:26:919, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): 75979 dots were added (ID 2 ) Thread 9 at 00:00:26:924, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.009893 seconds Thread 4 at 00:00:26:924, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 9 at 00:00:26:924, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000395 seconds Thread 4 at 00:00:26:925, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(21.2356,20.6434,2.59992) microns (including 2px frame) Thread 4 at 00:00:26:925, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.55383,6.70491,6.06648) microns (including 2px frame) Thread 4 at 00:00:26:925, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(171,166,21) pixels Thread 4 at 00:00:26:929, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00450903 seconds Thread 4 at 00:00:26:938, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00954896 seconds Thread 4 at 00:00:26:939, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000395 seconds Thread 4 at 00:00:26:939, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:26:939, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(25.7539,23.765,4.16267) microns (including 2px frame) Thread 4 at 00:00:26:939, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.76235,1.80433,1.23806) microns (including 2px frame) Thread 4 at 00:00:26:939, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(208,191,33) pixels Thread 4 at 00:00:26:939, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:26:939, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000156999 seconds Thread 4 at 00:00:26:939, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000319958 seconds Thread 4 at 00:00:26:939, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.20401e-05 seconds Thread 4 at 00:00:26:939, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:26:939, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.4257,21.5369,4.14234) microns (including 2px frame) Thread 4 at 00:00:26:939, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.80433,1.76235,1.36186) microns (including 2px frame) Thread 4 at 00:00:26:939, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(197,173,33) pixels Thread 4 at 00:00:26:940, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000149012 seconds Thread 4 at 00:00:26:940, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000326037 seconds Thread 4 at 00:00:26:940, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.19805e-05 seconds Thread 9 at 00:00:26:941, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): 68949 dots were added (ID 5 ) Thread 9 at 00:00:26:951, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:26:952, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(17.2548,14.8412,2.84753) microns (including 2px frame) Thread 9 at 00:00:26:952, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(6.71619,6.91593,5.81887) microns (including 2px frame) Thread 9 at 00:00:26:952, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(139,119,23) pixels Thread 9 at 00:00:26:952, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 9 at 00:00:26:955, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00410599 seconds Thread 9 at 00:00:26:964, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00858104 seconds Thread 9 at 00:00:26:964, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000339985 seconds Thread 9 at 00:00:26:964, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:26:964, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(18.7582,16.8219,4.36745) microns (including 2px frame) Thread 9 at 00:00:26:964, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.73314,1.78669,1.48567) microns (including 2px frame) Thread 9 at 00:00:26:964, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(151,135,35) pixels Thread 9 at 00:00:26:964, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 9 at 00:00:26:964, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000160992 seconds Thread 9 at 00:00:26:965, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000362039 seconds Thread 9 at 00:00:26:965, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.49608e-05 seconds Thread 9 at 00:00:26:965, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:26:965, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(20.6458,15.8637,5.75474) microns (including 2px frame) Thread 9 at 00:00:26:965, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.58167,1.86243,1.60948) microns (including 2px frame) Thread 9 at 00:00:26:965, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(166,128,46) pixels Thread 9 at 00:00:26:965, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 9 at 00:00:26:965, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000155985 seconds Thread 9 at 00:00:26:965, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000384986 seconds Thread 9 at 00:00:26:965, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.40071e-05 seconds Thread 7 at 00:00:26:978, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 77847 pixels Thread 4 at 00:00:27:016, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 64875 pixels Thread 9 at 00:00:27:064, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 58126 pixels Thread 0 at 00:00:27:280, Cell ID: 4, bp_lists.cpp::ResetBoundaryPoints(): new list contains 177105 points (11223 outer) with centre at (8.48457,46.9849,8.69302) Thread 0 at 00:00:27:280, Cell ID: 4, bp_lists.cpp::ResetBoundaryPoints(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 7 at 00:00:27:390, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 4 at 00:00:27:415, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 7 at 00:00:27:498, Cell ID: 3, cellChr.cpp::ChrUpdateStats(): operation took 0.074074 seconds, percentil is 0.9 Thread 7 at 00:00:27:498, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 7-7, sceneType: phantoms, centre: [54.8535, 79.2169, 8.11624], radius: 8.75 Thread 7 at 00:00:27:498, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 7 at 00:00:27:498, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 307832 'chr' points, ID=3 Thread 4 at 00:00:27:508, Cell ID: 2, cellChr.cpp::ChrUpdateStats(): operation took 0.059618 seconds, percentil is 0.9 Thread 4 at 00:00:27:508, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 2-2, sceneType: phantoms, centre: [4.78203, 12.0151, 8.26368], radius: 8.75 Thread 4 at 00:00:27:508, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:27:508, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 255944 'chr' points, ID=2 Thread 9 at 00:00:27:557, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 7 at 00:00:27:615, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.117542 seconds Thread 7 at 00:00:27:616, Cell ID: 3, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=3, doing G2-phase at timePoint=7 with sync Thread 4 at 00:00:27:623, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.114529 seconds Thread 4 at 00:00:27:623, Cell ID: 2, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=2, doing G2-phase at timePoint=2 with sync Thread 9 at 00:00:27:644, Cell ID: 5, cellChr.cpp::ChrUpdateStats(): operation took 0.057307 seconds, percentil is 0.9 Thread 9 at 00:00:27:644, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 7-7, sceneType: phantoms, centre: [46.4008, 21.8462, 8.5487], radius: 8.75 Thread 9 at 00:00:27:644, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 9 at 00:00:27:644, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 229448 'chr' points, ID=5 Thread 4 at 00:00:27:711, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: masks, centre: [4.78203, 12.0151, 8.26368], radius: 8.75 Thread 4 at 00:00:27:711, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:27:711, Cell ID: 2, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 4 at 00:00:27:712, Cell ID: 2, flowfields.cpp::DescribeTranslation(): adding vector (1.18861,1.4823,0) to the flow field Thread 7 at 00:00:27:728, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 8-8, sceneType: masks, centre: [54.8535, 79.2169, 8.11624], radius: 8.75 Thread 7 at 00:00:27:728, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 7 at 00:00:27:728, Cell ID: 3, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 7 at 00:00:27:729, Cell ID: 3, flowfields.cpp::DescribeTranslation(): adding vector (0.404024,-1.85655,0) to the flow field Thread 4 at 00:00:27:738, Cell ID: 2, flowfields.cpp::DescribeRotation(): adding rotation by -0.0902022deg clockwise around (4.78203,12.0151,8.26368) in microns Thread 9 at 00:00:27:761, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.116881 seconds Thread 9 at 00:00:27:762, Cell ID: 5, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=5, doing G2-phase at timePoint=7 with sync Thread 7 at 00:00:27:763, Cell ID: 3, flowfields.cpp::DescribeRotation(): adding rotation by 3.94475deg clockwise around (54.8535,79.2169,8.11624) in microns Thread 4 at 00:00:27:822, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 206114 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:27:843, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (5.97064,13.4974,8.26368) Thread 4 at 00:00:27:843, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 181701 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 9 at 00:00:27:858, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 8-8, sceneType: masks, centre: [46.4008, 21.8462, 8.5487], radius: 8.75 Thread 9 at 00:00:27:858, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 9 at 00:00:27:858, Cell ID: 5, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 9 at 00:00:27:859, Cell ID: 5, flowfields.cpp::DescribeTranslation(): adding vector (-1.42093,0.480575,0) to the flow field Thread 4 at 00:00:27:861, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (5.96154,13.4985,8.27027) Thread 4 at 00:00:27:861, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4947 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:27:862, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (7.54367,14.1331,7.53786) Thread 4 at 00:00:27:862, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4811 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:27:862, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (6.18186,11.906,7.54938) Thread 4 at 00:00:27:862, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: masks, centre: [4.2114, 12.6927, 8.51112], radius: 8.75 Thread 4 at 00:00:27:862, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:27:862, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=2 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:27:862, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--98, y:38--166, z:4--95 Thread 4 at 00:00:27:865, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): 74945 dots were removed (ID 2) Thread 4 at 00:00:27:865, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:27:865, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 with centre at (5.97064,13.4974,8.26368) in microns Thread 4 at 00:00:27:865, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:27:865, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(1.91654,9.91526,5.19984) microns (including 2px frame) Thread 4 at 00:00:27:865, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.96049,7.06091,6.3141) microns (including 2px frame) Thread 4 at 00:00:27:865, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(15,80,42) pixels Thread 4 at 00:00:27:869, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00416297 seconds Thread 7 at 00:00:27:876, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 227771 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 4 at 00:00:27:878, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00929999 seconds Thread 4 at 00:00:27:878, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000382006 seconds Thread 4 at 00:00:27:894, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): 75972 dots were added (ID 2 ) Thread 9 at 00:00:27:899, Cell ID: 5, flowfields.cpp::DescribeRotation(): adding rotation by -2.55217deg clockwise around (46.4008,21.8462,8.5487) in microns Thread 4 at 00:00:27:899, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:27:899, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(22.4226,22.1263,2.59992) microns (including 2px frame) Thread 4 at 00:00:27:899, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.5567,6.70252,6.06648) microns (including 2px frame) Thread 4 at 00:00:27:899, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(181,178,21) pixels Thread 7 at 00:00:27:902, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (55.2575,77.3604,8.11624) Thread 7 at 00:00:27:902, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 203775 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 4 at 00:00:27:902, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00361705 seconds Thread 0 at 00:00:27:909, Cell ID: 4, bp_lists.cpp::ResetBoundaryPoints(): new list contains 4845 points (327 outer) with centre at (8.77507,45.4318,9.01511) Thread 0 at 00:00:27:909, Cell ID: 4, bp_lists.cpp::ResetBoundaryPoints(): source image at (-16.7138,16.0948,3.21895) of size (47.5414,46.3034,10.7711) in microns Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00806296 seconds Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000358999 seconds Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.9436,25.2446,4.16267) microns (including 2px frame) Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.76213,1.80454,1.23806) microns (including 2px frame) Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(217,203,33) pixels Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000119984 seconds Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000280023 seconds Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.09673e-05 seconds Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(25.6119,23.019,4.14234) microns (including 2px frame) Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.80454,1.76213,1.36186) microns (including 2px frame) Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(206,185,33) pixels Thread 4 at 00:00:27:911, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000113964 seconds Thread 4 at 00:00:27:912, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000268996 seconds Thread 4 at 00:00:27:912, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.20401e-05 seconds Thread 7 at 00:00:27:924, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (55.264,77.3537,8.1271) Thread 7 at 00:00:27:924, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5005 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:27:924, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (55.9274,76.8175,6.56623) Thread 7 at 00:00:27:924, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): moving 5400 dots with flow field at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:27:925, Cell ID: 3, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (56.6287,78.8386,8.18319) Thread 7 at 00:00:27:925, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 8-8, sceneType: masks, centre: [65.6855, 78.7756, 8.11595], radius: 8.75 Thread 7 at 00:00:27:925, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 7 at 00:00:27:925, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=3 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:27:925, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:466--594, y:572--685, z:1--95 Thread 7 at 00:00:27:927, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): 89053 dots were removed (ID 3) Thread 7 at 00:00:27:927, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:27:927, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=3 with centre at (55.2575,77.3604,8.11624) in microns Thread 7 at 00:00:27:927, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:27:928, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(51.3337,73.6706,4.3332) microns (including 2px frame) Thread 7 at 00:00:27:928, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.91607,7.31282,7.30454) microns (including 2px frame) Thread 7 at 00:00:27:928, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(414,595,35) pixels Thread 7 at 00:00:27:928, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 7 at 00:00:27:932, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00455397 seconds Thread 7 at 00:00:27:942, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.01034 seconds Thread 7 at 00:00:27:942, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000434995 seconds Thread 7 at 00:00:27:957, Cell ID: 3, cellScm.cpp::ScmRenderCellIntoMask(): 90118 dots were added (ID 3 ) Thread 7 at 00:00:27:964, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:27:964, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(12.6015,21.7351,3.21895) microns (including 2px frame) Thread 7 at 00:00:27:964, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.41795,6.93924,6.93313) microns (including 2px frame) Thread 7 at 00:00:27:964, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(101,175,26) pixels Thread 7 at 00:00:27:964, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 7 at 00:00:27:968, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00396001 seconds Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00875103 seconds Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.00037998 seconds Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(15.9499,23.7779,4.47826) microns (including 2px frame) Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.89416,1.76964,1.36186) microns (including 2px frame) Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(128,192,36) pixels Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000120997 seconds Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000275016 seconds Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.19805e-05 seconds Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(16.7471,25.7487,6.16727) microns (including 2px frame) Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.72488,1.89417,1.36186) microns (including 2px frame) Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(135,207,49) pixels Thread 7 at 00:00:27:977, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000124991 seconds Thread 7 at 00:00:27:978, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000306964 seconds Thread 7 at 00:00:27:978, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.10269e-05 seconds Thread 4 at 00:00:27:979, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 64800 pixels Thread 9 at 00:00:28:011, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 194326 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:28:031, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (44.9799,22.3268,8.5487) Thread 9 at 00:00:28:031, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 171687 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:28:049, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (44.9709,22.3297,8.54509) Thread 9 at 00:00:28:049, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5438 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:28:050, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (43.9294,21.8226,7.80836) Thread 9 at 00:00:28:050, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): moving 5512 dots with flow field at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:28:051, Cell ID: 5, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (45.6716,20.826,9.29154) Thread 9 at 00:00:28:051, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 8-8, sceneType: masks, centre: [54.287, 32.3327, 8.54858], radius: 8.75 Thread 9 at 00:00:28:051, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 9 at 00:00:28:051, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=5 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:28:051, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:374--502, y:197--325, z:5--95 Thread 9 at 00:00:28:053, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): 67965 dots were removed (ID 5) Thread 9 at 00:00:28:053, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:28:053, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=5 with centre at (44.9799,22.3268,8.5487) in microns Thread 9 at 00:00:28:053, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:28:053, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(41.416,18.6701,5.44746) microns (including 2px frame) Thread 9 at 00:00:28:053, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.14694,7.34246,6.06649) microns (including 2px frame) Thread 9 at 00:00:28:053, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(334,150,44) pixels Thread 10 at 00:00:28:054, Cell ID: 1, bp_lists.cpp::ResetBoundaryPoints(): new list contains 166275 points (10539 outer) with centre at (10.8823,27.1675,9.42712) Thread 10 at 00:00:28:055, Cell ID: 1, scheduler.cpp::PnGetMeNonrigidHints(): points span x=7.18074 to 14.6091; y=23.6469 to 30.58; z=7.55216 to 11.3901 Thread 10 at 00:00:28:055, Cell ID: 1, scheduler.cpp::PnGetMeNonrigidHints(): span in pixels is 61; 57; 32 Thread 10 at 00:00:28:055, Cell ID: 1, scheduler.cpp::PnGetMeNonrigidHints(): since pnArray has size 197,197,197, will use offset 103,43,0 Thread 9 at 00:00:28:057, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00407195 seconds Thread 7 at 00:00:28:061, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 77908 pixels Thread 9 at 00:00:28:065, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00820202 seconds Thread 9 at 00:00:28:066, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000348032 seconds Thread 10 at 00:00:28:071, Cell ID: 1, bp_lists.cpp::ResetBoundaryPoints(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 9 at 00:00:28:080, Cell ID: 5, cellScm.cpp::ScmRenderCellIntoMask(): 68934 dots were added (ID 5 ) Thread 9 at 00:00:28:087, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:28:088, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(15.8166,15.3409,2.84753) microns (including 2px frame) Thread 9 at 00:00:28:088, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(6.72577,6.87798,5.81887) microns (including 2px frame) Thread 9 at 00:00:28:088, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(127,123,23) pixels Thread 9 at 00:00:28:091, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00334799 seconds Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.006953 seconds Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.00029099 seconds Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(17.3175,17.3453,4.36745) microns (including 2px frame) Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.7311,1.79669,1.48567) microns (including 2px frame) Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(139,140,35) pixels Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000132024 seconds Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00029099 seconds Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.19805e-05 seconds Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(19.1605,16.304,5.75474) microns (including 2px frame) Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.57105,1.87671,1.60948) microns (including 2px frame) Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(154,131,46) pixels Thread 9 at 00:00:28:098, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000132978 seconds Thread 9 at 00:00:28:099, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000320971 seconds Thread 9 at 00:00:28:099, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.20401e-05 seconds Thread 9 at 00:00:28:184, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 58113 pixels Thread 4 at 00:00:28:331, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 4 at 00:00:28:422, Cell ID: 2, cellChr.cpp::ChrUpdateStats(): operation took 0.061664 seconds, percentil is 0.9 Thread 4 at 00:00:28:422, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 3-3, sceneType: phantoms, centre: [5.97064, 13.4974, 8.26368], radius: 8.75 Thread 4 at 00:00:28:422, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:28:422, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 255944 'chr' points, ID=2 Thread 4 at 00:00:28:537, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.114171 seconds Thread 4 at 00:00:28:537, Cell ID: 2, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=2, doing G2-phase at timePoint=3 with sync Thread 0 at 00:00:28:539, Cell ID: 4, bp_lists.cpp::ResetBoundaryPoints(): new list contains 2601 points (183 outer) with centre at (8.82133,47.7437,7.39385) Thread 0 at 00:00:28:540, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 8-8, sceneType: masks, centre: [7.10498, 39.2767, 8.69833], radius: 8.75 Thread 0 at 00:00:28:540, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 0 at 00:00:28:540, Cell ID: 4, cell.cpp::DoNextPhase(): updating reservation in sceneMask # 8 Thread 0 at 00:00:28:540, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=4 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:28:540, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--121, y:253--381, z:6--95 Thread 0 at 00:00:28:543, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): 67660 dots were removed (ID 4) Thread 0 at 00:00:28:543, Cell ID: 4, bp_lists.cpp::SoftRenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:28:543, Cell ID: 4, bp_lists.cpp::SoftRenderBPListIntoMask(): pixelShift=(28,344,39) Thread 0 at 00:00:28:547, Cell ID: 4, bp_lists.cpp::SoftRenderBPListIntoMask(): rendering (dilated) object took 0.00425202 seconds Thread 7 at 00:00:28:561, Cell ID: 3, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 0 at 00:00:28:564, Cell ID: 4, bp_lists.cpp::SoftRenderBPListIntoMask(): flooding outside of (dilated) object took 0.017399 seconds Thread 0 at 00:00:28:565, Cell ID: 4, bp_lists.cpp::SoftRenderBPListIntoMask(): finishing (eroding) object took 0.000667989 seconds Thread 0 at 00:00:28:565, Cell ID: 4, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 9-9, sceneType: masks, centre: [7.10498, 39.2767, 8.69833], radius: 8.75 Thread 0 at 00:00:28:565, Cell ID: 4, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 0 at 00:00:28:565, Cell ID: 4, cell.cpp::DoNextPhase(): updating reservation in sceneMask # 9 Thread 0 at 00:00:28:565, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=4 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:28:565, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--121, y:253--381, z:6--95 Thread 0 at 00:00:28:567, Cell ID: 4, cellScm.cpp::ScmRemoveCellFromMask(): 67660 dots were removed (ID 4) Thread 0 at 00:00:28:567, Cell ID: 4, bp_lists.cpp::SoftRenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 0 at 00:00:28:568, Cell ID: 4, bp_lists.cpp::SoftRenderBPListIntoMask(): pixelShift=(28,344,39) Thread 11 at 00:00:28:570, scheduler.cpp::ReleaseOldScenes(): scene #0 saved Thread 0 at 00:00:28:571, Cell ID: 4, bp_lists.cpp::SoftRenderBPListIntoMask(): rendering (dilated) object took 0.004031 seconds Thread 0 at 00:00:28:589, Cell ID: 4, bp_lists.cpp::SoftRenderBPListIntoMask(): flooding outside of (dilated) object took 0.017858 seconds Thread 0 at 00:00:28:590, Cell ID: 4, bp_lists.cpp::SoftRenderBPListIntoMask(): finishing (eroding) object took 0.000705987 seconds Thread 0 at 00:00:28:590, Cell ID: 4, cell.cpp::DoNextPhase(): changed reservations in 2 sceneMasks Thread 0 at 00:00:28:590, scheduler.cpp::GetCellCometsLeavingFactor(): there are 5 'living' and 0 'cut away' cells, ratio=inf Thread 4 at 00:00:28:628, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: masks, centre: [5.97064, 13.4974, 8.26368], radius: 8.75 Thread 4 at 00:00:28:628, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:28:628, Cell ID: 2, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 4 at 00:00:28:629, Cell ID: 2, flowfields.cpp::DescribeTranslation(): adding vector (1.50071,0.554853,0) to the flow field Thread 4 at 00:00:28:655, Cell ID: 2, flowfields.cpp::DescribeRotation(): adding rotation by -9.19658deg clockwise around (5.97064,13.4974,8.26368) in microns Thread 7 at 00:00:28:697, Cell ID: 3, cellChr.cpp::ChrUpdateStats(): operation took 0.093059 seconds, percentil is 0.9 Thread 7 at 00:00:28:697, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 8-8, sceneType: phantoms, centre: [55.2575, 77.3604, 8.11624], radius: 8.75 Thread 7 at 00:00:28:697, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 7 at 00:00:28:697, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 307832 'chr' points, ID=3 Thread 9 at 00:00:28:709, Cell ID: 5, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 10 at 00:00:28:720, Cell ID: 1, bp_lists.cpp::ResetBoundaryPoints(): new list contains 143835 points (9123 outer) with centre at (10.8667,27.1691,9.43303) Thread 10 at 00:00:28:721, Cell ID: 1, bp_lists.cpp::ResetBoundaryPoints(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 4 at 00:00:28:742, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 206114 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:28:764, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (7.47135,14.0523,8.26368) Thread 4 at 00:00:28:764, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 181701 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:28:784, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (7.46254,14.0547,8.27027) Thread 4 at 00:00:28:784, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4947 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:28:784, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (9.12576,14.4283,7.53786) Thread 4 at 00:00:28:784, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4811 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:28:785, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (7.42552,12.4476,7.54938) Thread 4 at 00:00:28:785, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: masks, centre: [4.2114, 12.6927, 8.51112], radius: 8.75 Thread 4 at 00:00:28:785, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:28:785, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=2 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:28:785, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--98, y:38--166, z:4--95 Thread 4 at 00:00:28:787, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): 74945 dots were removed (ID 2) Thread 4 at 00:00:28:787, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:28:787, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 with centre at (7.47135,14.0523,8.26368) in microns Thread 4 at 00:00:28:787, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:28:787, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(3.32742,10.6004,5.19984) microns (including 2px frame) Thread 4 at 00:00:28:787, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(8.10938,6.81383,6.3141) microns (including 2px frame) Thread 4 at 00:00:28:787, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(26,85,42) pixels Thread 4 at 00:00:28:791, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00399697 seconds Thread 4 at 00:00:28:800, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00868702 seconds Thread 4 at 00:00:28:800, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000365973 seconds Thread 4 at 00:00:28:815, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): 75991 dots were added (ID 2 ) Thread 9 at 00:00:28:815, Cell ID: 5, cellChr.cpp::ChrUpdateStats(): operation took 0.068887 seconds, percentil is 0.9 Thread 9 at 00:00:28:815, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 8-8, sceneType: phantoms, centre: [44.9799, 22.3268, 8.5487], radius: 8.75 Thread 9 at 00:00:28:815, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 9 at 00:00:28:815, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 229448 'chr' points, ID=5 Thread 4 at 00:00:28:820, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:28:820, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(23.808,22.7859,2.59992) microns (including 2px frame) Thread 4 at 00:00:28:821, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.75661,6.46236,6.06648) microns (including 2px frame) Thread 4 at 00:00:28:821, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(192,184,21) pixels Thread 4 at 00:00:28:824, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00359696 seconds Thread 7 at 00:00:28:826, Cell ID: 3, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.129072 seconds Thread 7 at 00:00:28:828, Cell ID: 3, bp_lists.cpp::AllocateAndZeroNewMask(): points span x=51.5814 to 59.0022; y=73.9182 to 80.7358; z=4.58082 to 11.3901 Thread 7 at 00:00:28:829, Cell ID: 3, bp_lists.cpp::AllocateAndZeroNewMask(): new image at (49.7699,71.8074,3.09515) of size (11.0187,10.8949,9.65685) in microns Thread 7 at 00:00:28:829, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): source image at (49.7699,71.8074,3.09515) of size (11.0187,10.8949,9.65685) in microns Thread 7 at 00:00:28:829, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(1.5638,1.86321,1.23806) microns (including 2px frame) Thread 7 at 00:00:28:829, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.91607,7.31282,7.30454) microns (including 2px frame) Thread 7 at 00:00:28:829, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(12,15,10) pixels Thread 7 at 00:00:28:830, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:28:831, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00771105 seconds Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000318944 seconds Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(28.5495,25.5194,4.16267) microns (including 2px frame) Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.72341,1.809,1.23806) microns (including 2px frame) Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(230,206,33) pixels Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000129998 seconds Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000227034 seconds Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 9.95398e-06 seconds Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.8724,23.579,4.14234) microns (including 2px frame) Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.809,1.72341,1.36186) microns (including 2px frame) Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(217,190,33) pixels Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000122964 seconds Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000258982 seconds Thread 4 at 00:00:28:832, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.10269e-05 seconds Thread 7 at 00:00:28:834, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00555396 seconds Thread 7 at 00:00:28:850, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.015908 seconds Thread 7 at 00:00:28:851, Cell ID: 3, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000541031 seconds Thread 7 at 00:00:28:851, Cell ID: 3, cell.cpp::GenerateCentrosomes(): Generating centrosomes Thread 7 at 00:00:28:851, Cell ID: 3, cell.cpp::GetCellPolarityAndCentreVector(): Computing principal axes Thread 7 at 00:00:28:859, Cell ID: 3, cell.cpp::GetCellPolarityAndCentreVector(): axis1: (-0.839569,0.531521,-0.112296) Thread 7 at 00:00:28:859, Cell ID: 3, cell.cpp::GetCellPolarityAndCentreVector(): axis2: (-0.289817,-0.263385,0.920128) Thread 7 at 00:00:28:859, Cell ID: 3, cell.cpp::GetCellPolarityAndCentreVector(): axis3: (0.45949,0.805056,0.375173) Thread 7 at 00:00:28:859, Cell ID: 3, cell.cpp::GetCellPolarityAndCentreVector(): val1: 1.70673e+07 Thread 7 at 00:00:28:859, Cell ID: 3, cell.cpp::GetCellPolarityAndCentreVector(): val2: 1.30449e+07 Thread 7 at 00:00:28:859, Cell ID: 3, cell.cpp::GetCellPolarityAndCentreVector(): val3: 1.24237e+07 Thread 7 at 00:00:28:859, Cell ID: 3, cell.cpp::GetCellPolarityAndCentreVector(): polarity vector is: (-0.839569,0.531521,-0.112296) Thread 7 at 00:00:28:859, Cell ID: 3, cell.cpp::GetCellPolarityAndCentreVector(): centroid (in microns): (55.2174,77.2548,8.04738) Thread 7 at 00:00:28:861, Cell ID: 3, cell.cpp::GenerateCentrosomes(): Doing distance transform Thread 7 at 00:00:28:898, Cell ID: 3, cell.cpp::GenerateCentrosomes(): max dist: 9.27337 Thread 7 at 00:00:28:900, Cell ID: 3, cell.cpp::GenerateCentrosomes(): centrosome A: (53.5383,78.3179,7.82279) Thread 7 at 00:00:28:900, Cell ID: 3, cell.cpp::GenerateCentrosomes(): centrosome B: (57.7361,75.6603,8.38427) Thread 7 at 00:00:28:900, Cell ID: 3, cell.cpp::GenerateCentrosomes(): centrosomes generated. Thread 7 at 00:00:28:900, Cell ID: 3, regionlock.h::printLockInfo(): TIME lock, waiting time: 0ms, timePoint: 8-8, sceneType: masks Thread 7 at 00:00:28:900, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 7 at 00:00:28:900, Cell ID: 3, bp_lists.cpp::ResetBoundaryPoints(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:28:900, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 64822 pixels Thread 9 at 00:00:28:952, Cell ID: 5, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.136153 seconds Thread 9 at 00:00:28:953, Cell ID: 5, bp_lists.cpp::AllocateAndZeroNewMask(): points span x=41.6636 to 48.3153; y=18.9178 to 25.765; z=5.69507 to 11.2663 Thread 9 at 00:00:28:954, Cell ID: 5, bp_lists.cpp::AllocateAndZeroNewMask(): new image at (39.7417,17.0852,4.45701) of size (10.2759,10.2759,7.92357) in microns Thread 9 at 00:00:28:954, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): source image at (39.7417,17.0852,4.45701) of size (10.2759,10.2759,7.92357) in microns Thread 9 at 00:00:28:954, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(1.67434,1.58494,0.990447) microns (including 2px frame) Thread 9 at 00:00:28:954, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.14694,7.34246,6.06649) microns (including 2px frame) Thread 9 at 00:00:28:954, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(13,12,8) pixels Thread 9 at 00:00:28:958, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.004659 seconds Thread 9 at 00:00:28:968, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00985801 seconds Thread 9 at 00:00:28:969, Cell ID: 5, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000383973 seconds Thread 9 at 00:00:28:969, Cell ID: 5, cell.cpp::GenerateCentrosomes(): Generating centrosomes Thread 9 at 00:00:28:969, Cell ID: 5, cell.cpp::GetCellPolarityAndCentreVector(): Computing principal axes Thread 9 at 00:00:28:974, Cell ID: 5, cell.cpp::GetCellPolarityAndCentreVector(): axis1: (-0.441152,-0.759408,0.47821) Thread 9 at 00:00:28:974, Cell ID: 5, cell.cpp::GetCellPolarityAndCentreVector(): axis2: (-0.883052,0.46233,-0.0804302) Thread 9 at 00:00:28:974, Cell ID: 5, cell.cpp::GetCellPolarityAndCentreVector(): axis3: (0.160012,0.457767,0.874555) Thread 9 at 00:00:28:974, Cell ID: 5, cell.cpp::GetCellPolarityAndCentreVector(): val1: 1.24292e+07 Thread 9 at 00:00:28:974, Cell ID: 5, cell.cpp::GetCellPolarityAndCentreVector(): val2: 9.9847e+06 Thread 9 at 00:00:28:974, Cell ID: 5, cell.cpp::GetCellPolarityAndCentreVector(): val3: 5.84386e+06 Thread 9 at 00:00:28:974, Cell ID: 5, cell.cpp::GetCellPolarityAndCentreVector(): polarity vector is: (-0.441152,-0.759408,0.47821) Thread 9 at 00:00:28:974, Cell ID: 5, cell.cpp::GetCellPolarityAndCentreVector(): centroid (in microns): (44.9415,22.285,8.5426) Thread 9 at 00:00:28:976, Cell ID: 5, cell.cpp::GenerateCentrosomes(): Doing distance transform Thread 9 at 00:00:29:003, Cell ID: 5, cell.cpp::GenerateCentrosomes(): max dist: 6.16181 Thread 9 at 00:00:29:004, Cell ID: 5, cell.cpp::GenerateCentrosomes(): centrosome A: (43.6181,20.0068,9.97723) Thread 9 at 00:00:29:004, Cell ID: 5, cell.cpp::GenerateCentrosomes(): centrosome B: (46.265,24.5633,7.10797) Thread 9 at 00:00:29:004, Cell ID: 5, cell.cpp::GenerateCentrosomes(): centrosomes generated. Thread 4 at 00:00:29:229, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 4 at 00:00:29:324, Cell ID: 2, cellChr.cpp::ChrUpdateStats(): operation took 0.061058 seconds, percentil is 0.9 Thread 4 at 00:00:29:324, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 4-4, sceneType: phantoms, centre: [7.47135, 14.0523, 8.26368], radius: 8.75 Thread 4 at 00:00:29:324, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:29:324, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 255944 'chr' points, ID=2 Thread 10 at 00:00:29:374, Cell ID: 1, bp_lists.cpp::ResetBoundaryPoints(): new list contains 5211 points (351 outer) with centre at (10.7577,28.0595,9.85438) Thread 10 at 00:00:29:375, Cell ID: 1, bp_lists.cpp::ResetBoundaryPoints(): source image at (-10.5235,-5.07604,4.70462) of size (51.9984,51.8746,9.40924) in microns Thread 4 at 00:00:29:449, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.125238 seconds Thread 4 at 00:00:29:450, Cell ID: 2, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=2, doing G2-phase at timePoint=4 with sync Thread 4 at 00:00:29:539, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: masks, centre: [7.47135, 14.0523, 8.26368], radius: 8.75 Thread 4 at 00:00:29:539, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:29:539, Cell ID: 2, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 4 at 00:00:29:540, Cell ID: 2, flowfields.cpp::DescribeTranslation(): adding vector (-0.741786,-1.30375,0) to the flow field Thread 4 at 00:00:29:566, Cell ID: 2, flowfields.cpp::DescribeRotation(): adding rotation by 15.9436deg clockwise around (7.47135,14.0523,8.26368) in microns Thread 0 at 00:00:29:634, scheduler.cpp::ReleaseOldScenes(): scene #1 saved Thread 4 at 00:00:29:651, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 206114 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:29:671, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (6.72956,12.7485,8.26368) Thread 4 at 00:00:29:671, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 181701 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:29:689, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (6.72041,12.7485,8.27027) Thread 4 at 00:00:29:689, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4947 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:29:689, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.21702,13.5646,7.53786) Thread 4 at 00:00:29:689, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4811 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:29:690, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (7.12628,11.193,7.54938) Thread 4 at 00:00:29:690, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: masks, centre: [4.2114, 12.6927, 8.51112], radius: 8.75 Thread 4 at 00:00:29:690, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:29:690, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=2 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:29:690, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--98, y:38--166, z:4--95 Thread 4 at 00:00:29:692, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): 74945 dots were removed (ID 2) Thread 4 at 00:00:29:692, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:29:692, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 with centre at (6.72956,12.7485,8.26368) in microns Thread 4 at 00:00:29:692, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:29:692, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(2.73507,9.1252,5.19984) microns (including 2px frame) Thread 4 at 00:00:29:692, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.83692,7.30248,6.3141) microns (including 2px frame) Thread 4 at 00:00:29:692, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(22,73,42) pixels Thread 4 at 00:00:29:693, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:29:696, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00393701 seconds Thread 4 at 00:00:29:705, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00893098 seconds Thread 4 at 00:00:29:705, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000406027 seconds Thread 4 at 00:00:29:720, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): 75924 dots were added (ID 2 ) Thread 4 at 00:00:29:725, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:29:725, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(23.2566,21.3123,2.59992) microns (including 2px frame) Thread 4 at 00:00:29:725, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.40225,6.90717,6.06648) microns (including 2px frame) Thread 4 at 00:00:29:725, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(187,172,21) pixels Thread 4 at 00:00:29:726, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:29:728, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00352204 seconds Thread 4 at 00:00:29:736, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00753295 seconds Thread 4 at 00:00:29:736, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000336051 seconds Thread 4 at 00:00:29:736, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:29:736, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(27.6102,24.7018,4.16267) microns (including 2px frame) Thread 4 at 00:00:29:736, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.76985,1.77982,1.23806) microns (including 2px frame) Thread 4 at 00:00:29:736, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(223,199,33) pixels Thread 4 at 00:00:29:736, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:29:736, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000123978 seconds Thread 4 at 00:00:29:737, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000249982 seconds Thread 4 at 00:00:29:737, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.00136e-05 seconds Thread 4 at 00:00:29:737, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:29:737, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.5542,22.303,4.14234) microns (including 2px frame) Thread 4 at 00:00:29:737, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.77982,1.76985,1.36186) microns (including 2px frame) Thread 4 at 00:00:29:737, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(214,180,33) pixels Thread 4 at 00:00:29:737, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000115991 seconds Thread 4 at 00:00:29:737, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000275016 seconds Thread 4 at 00:00:29:737, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.19805e-05 seconds Thread 4 at 00:00:29:801, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 64794 pixels Thread 10 at 00:00:30:001, Cell ID: 1, bp_lists.cpp::ResetBoundaryPoints(): new list contains 4910 points (332 outer) with centre at (11.6818,25.8523,10.0973) Thread 10 at 00:00:30:002, Cell ID: 1, cell.cpp::DoNextPhase(): changed reservations in 0 sceneMasks Thread 10 at 00:00:30:002, scheduler.cpp::GetCellCometsLeavingFactor(): there are 5 'living' and 0 'cut away' cells, ratio=inf Thread 4 at 00:00:30:144, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 4 at 00:00:30:233, Cell ID: 2, cellChr.cpp::ChrUpdateStats(): operation took 0.060509 seconds, percentil is 0.9 Thread 4 at 00:00:30:233, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 5-5, sceneType: phantoms, centre: [6.72956, 12.7485, 8.26368], radius: 8.75 Thread 4 at 00:00:30:233, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:30:233, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 255944 'chr' points, ID=2 Thread 4 at 00:00:30:352, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.119019 seconds Thread 4 at 00:00:30:352, Cell ID: 2, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=2, doing G2-phase at timePoint=5 with sync Thread 4 at 00:00:30:443, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: masks, centre: [6.72956, 12.7485, 8.26368], radius: 8.75 Thread 4 at 00:00:30:443, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:30:443, Cell ID: 2, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 4 at 00:00:30:444, Cell ID: 2, flowfields.cpp::DescribeTranslation(): adding vector (-0.345881,1.25314,0) to the flow field Thread 4 at 00:00:30:470, Cell ID: 2, flowfields.cpp::DescribeRotation(): adding rotation by -2.37344deg clockwise around (6.72956,12.7485,8.26368) in microns Thread 4 at 00:00:30:555, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 206114 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:30:576, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (6.38368,14.0017,8.26368) Thread 4 at 00:00:30:576, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 181701 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 0 at 00:00:30:583, scheduler.cpp::ReleaseOldScenes(): scene #2 saved Thread 4 at 00:00:30:594, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (6.37453,14.002,8.27027) Thread 4 at 00:00:30:594, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4947 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:30:594, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (7.90366,14.7554,7.53786) Thread 4 at 00:00:30:594, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4811 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:30:595, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (6.71564,12.431,7.54938) Thread 4 at 00:00:30:595, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: masks, centre: [4.2114, 12.6927, 8.51112], radius: 8.75 Thread 4 at 00:00:30:595, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 1s Thread 4 at 00:00:30:595, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=2 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:30:595, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--98, y:38--166, z:4--95 Thread 4 at 00:00:30:597, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): 74945 dots were removed (ID 2) Thread 4 at 00:00:30:597, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:30:597, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 with centre at (6.38368,14.0017,8.26368) in microns Thread 4 at 00:00:30:597, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:30:597, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(2.38595,10.3875,5.19984) microns (including 2px frame) Thread 4 at 00:00:30:597, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.86375,7.22452,6.3141) microns (including 2px frame) Thread 4 at 00:00:30:597, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(19,83,42) pixels Thread 4 at 00:00:30:601, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00396299 seconds Thread 4 at 00:00:30:610, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00898901 seconds Thread 4 at 00:00:30:610, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000396997 seconds Thread 4 at 00:00:30:625, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): 75976 dots were added (ID 2 ) Thread 4 at 00:00:30:630, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:30:630, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(22.9023,22.588,2.59992) microns (including 2px frame) Thread 4 at 00:00:30:630, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.43928,6.82148,6.06648) microns (including 2px frame) Thread 4 at 00:00:30:630, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(184,182,21) pixels Thread 4 at 00:00:30:633, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00367701 seconds Thread 4 at 00:00:30:641, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.007743 seconds Thread 4 at 00:00:30:641, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000351995 seconds Thread 4 at 00:00:30:641, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:30:641, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(27.2982,25.8826,4.16267) microns (including 2px frame) Thread 4 at 00:00:30:642, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.76915,1.79057,1.23806) microns (including 2px frame) Thread 4 at 00:00:30:642, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(220,209,33) pixels Thread 4 at 00:00:30:642, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:30:642, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000117987 seconds Thread 4 at 00:00:30:642, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000245005 seconds Thread 4 at 00:00:30:642, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.00136e-05 seconds Thread 4 at 00:00:30:642, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:30:642, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(26.1433,23.541,4.14234) microns (including 2px frame) Thread 4 at 00:00:30:642, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.79057,1.76914,1.36186) microns (including 2px frame) Thread 4 at 00:00:30:642, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(211,190,33) pixels Thread 4 at 00:00:30:642, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000129998 seconds Thread 4 at 00:00:30:642, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000274003 seconds Thread 4 at 00:00:30:642, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.20103e-05 seconds Thread 4 at 00:00:30:707, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 64773 pixels Thread 4 at 00:00:31:043, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 7 at 00:00:31:048, Cell ID: 3, bp_lists.cpp::ResetBoundaryPoints(): new list contains 230376 points (14598 outer) with centre at (55.2656,77.3489,8.11729) Thread 9 at 00:00:31:049, Cell ID: 5, regionlock.h::printLockInfo(): TIME lock, waiting time: 2044ms, timePoint: 8-8, sceneType: masks Thread 9 at 00:00:31:049, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 3s Thread 9 at 00:00:31:049, Cell ID: 5, bp_lists.cpp::ResetBoundaryPoints(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:31:049, Cell ID: 3, scheduler.cpp::PnGetMeNonrigidHints(): points span x=51.627 to 58.9316; y=73.9121 to 80.7214; z=4.58082 to 11.3901 Thread 7 at 00:00:31:049, Cell ID: 3, scheduler.cpp::PnGetMeNonrigidHints(): span in pixels is 60; 55; 56 Thread 7 at 00:00:31:049, Cell ID: 3, scheduler.cpp::PnGetMeNonrigidHints(): since pnArray has size 197,197,197, will use offset 93,23,66 Thread 7 at 00:00:31:065, Cell ID: 3, bp_lists.cpp::ResetBoundaryPoints(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 4 at 00:00:31:138, Cell ID: 2, cellChr.cpp::ChrUpdateStats(): operation took 0.065197 seconds, percentil is 0.9 Thread 4 at 00:00:31:138, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 6-6, sceneType: phantoms, centre: [6.38368, 14.0017, 8.26368], radius: 8.75 Thread 4 at 00:00:31:138, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 3s Thread 4 at 00:00:31:138, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 255944 'chr' points, ID=2 Thread 4 at 00:00:31:269, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.131585 seconds Thread 4 at 00:00:31:270, Cell ID: 2, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=2, doing G2-phase at timePoint=6 with sync Thread 4 at 00:00:31:366, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 7-7, sceneType: masks, centre: [6.38368, 14.0017, 8.26368], radius: 8.75 Thread 4 at 00:00:31:366, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 3s Thread 4 at 00:00:31:366, Cell ID: 2, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 4 at 00:00:31:367, Cell ID: 2, flowfields.cpp::DescribeTranslation(): adding vector (1.45589,-0.663611,0) to the flow field Thread 4 at 00:00:31:396, Cell ID: 2, flowfields.cpp::DescribeRotation(): adding rotation by -4.85037deg clockwise around (6.38368,14.0017,8.26368) in microns Thread 4 at 00:00:31:482, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 206114 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:31:503, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (7.83957,13.338,8.26368) Thread 4 at 00:00:31:503, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 181701 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:31:521, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (7.83049,13.3392,8.27027) Thread 4 at 00:00:31:521, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4947 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:31:522, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (9.41785,13.9606,7.53786) Thread 4 at 00:00:31:522, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4811 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:31:522, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.03755,11.745,7.54938) Thread 4 at 00:00:31:522, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 7-7, sceneType: masks, centre: [4.2114, 12.6927, 8.51112], radius: 8.75 Thread 4 at 00:00:31:522, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 3s Thread 4 at 00:00:31:522, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=2 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:31:522, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--98, y:38--166, z:4--95 Thread 4 at 00:00:31:524, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): 74945 dots were removed (ID 2) Thread 4 at 00:00:31:524, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:31:524, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 with centre at (7.83957,13.338,8.26368) in microns Thread 4 at 00:00:31:524, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:31:525, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(3.77838,9.76056,5.19984) microns (including 2px frame) Thread 4 at 00:00:31:525, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.97298,7.05221,6.3141) microns (including 2px frame) Thread 4 at 00:00:31:525, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(30,78,42) pixels Thread 4 at 00:00:31:525, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:31:528, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00400302 seconds Thread 4 at 00:00:31:537, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00862598 seconds Thread 4 at 00:00:31:538, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000376016 seconds Thread 4 at 00:00:31:552, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): 75965 dots were added (ID 2 ) Thread 4 at 00:00:31:557, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:31:557, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(24.2832,21.9704,2.59992) microns (including 2px frame) Thread 4 at 00:00:31:557, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.57159,6.68963,6.06648) microns (including 2px frame) Thread 4 at 00:00:31:557, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(196,177,21) pixels Thread 4 at 00:00:31:560, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.003546 seconds Thread 4 at 00:00:31:568, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.007774 seconds Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000337988 seconds Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(28.8186,25.0706,4.16267) microns (including 2px frame) Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.76092,1.8056,1.23806) microns (including 2px frame) Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(232,202,33) pixels Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000115991 seconds Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000243008 seconds Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 9.98378e-06 seconds Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(27.4681,22.8585,4.14234) microns (including 2px frame) Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.8056,1.76092,1.36186) microns (including 2px frame) Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(221,184,33) pixels Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00011301 seconds Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000259995 seconds Thread 4 at 00:00:31:569, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.09971e-05 seconds Thread 4 at 00:00:31:635, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 64800 pixels Thread 4 at 00:00:31:967, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 4 at 00:00:32:053, Cell ID: 2, cellChr.cpp::ChrUpdateStats(): operation took 0.059774 seconds, percentil is 0.9 Thread 4 at 00:00:32:053, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 7-7, sceneType: phantoms, centre: [7.83957, 13.338, 8.26368], radius: 8.75 Thread 4 at 00:00:32:053, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 3s Thread 4 at 00:00:32:053, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 255944 'chr' points, ID=2 Thread 7 at 00:00:32:098, Cell ID: 3, bp_lists.cpp::ResetBoundaryPoints(): new list contains 208096 points (13186 outer) with centre at (55.2717,77.3469,8.12831) Thread 7 at 00:00:32:098, Cell ID: 3, bp_lists.cpp::ResetBoundaryPoints(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 4 at 00:00:32:171, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.117799 seconds Thread 4 at 00:00:32:171, Cell ID: 2, cell_08_G2Phase.cpp::DoG2Phase(): ***** ***** cell ID=2, doing G2-phase at timePoint=7 with sync Thread 7 at 00:00:33:063, Cell ID: 3, bp_lists.cpp::ResetBoundaryPoints(): new list contains 5108 points (344 outer) with centre at (55.9278,76.8208,6.54227) Thread 7 at 00:00:33:063, Cell ID: 3, bp_lists.cpp::ResetBoundaryPoints(): source image at (38.9988,52.1222,1.36186) of size (53.2365,53.3603,13.1234) in microns Thread 9 at 00:00:33:451, Cell ID: 5, bp_lists.cpp::ResetBoundaryPoints(): new list contains 196603 points (12457 outer) with centre at (44.9849,22.3343,8.54906) Thread 4 at 00:00:33:452, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 1190ms, timePoint: 8-8, sceneType: masks, centre: [7.83957, 13.338, 8.26368], radius: 8.75 Thread 4 at 00:00:33:452, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 4s Thread 9 at 00:00:33:452, Cell ID: 5, scheduler.cpp::PnGetMeNonrigidHints(): points span x=41.7226 to 48.2843; y=18.9423 to 25.7516; z=5.69507 to 11.2663 Thread 9 at 00:00:33:452, Cell ID: 5, scheduler.cpp::PnGetMeNonrigidHints(): span in pixels is 54; 55; 45 Thread 9 at 00:00:33:452, Cell ID: 5, scheduler.cpp::PnGetMeNonrigidHints(): since pnArray has size 197,197,197, will use offset 93,80,6 Thread 4 at 00:00:33:452, Cell ID: 2, cellScm.cpp::ScmUniversalMovement(): Comet vector is (0,0,0), state is 0 (nHTF) Thread 4 at 00:00:33:454, Cell ID: 2, flowfields.cpp::DescribeTranslation(): adding vector (0.791573,-1.03122,0) to the flow field Thread 9 at 00:00:33:460, Cell ID: 5, bp_lists.cpp::ResetBoundaryPoints(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 4 at 00:00:33:492, Cell ID: 2, flowfields.cpp::DescribeRotation(): adding rotation by 24.9706deg clockwise around (7.83957,13.338,8.26368) in microns Thread 4 at 00:00:33:622, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 206114 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:33:647, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.63115,12.3068,8.26368) Thread 4 at 00:00:33:647, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 181701 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:33:669, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (8.62243,12.304,8.27027) Thread 4 at 00:00:33:670, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4947 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:33:670, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (9.79908,13.5374,7.53786) Thread 4 at 00:00:33:670, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): moving 4811 dots with flow field at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:33:671, Cell ID: 2, bp_lists.cpp::MoveBPListAndCentre(): new object mask centre is (9.48313,10.9462,7.54938) Thread 4 at 00:00:33:671, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 8-8, sceneType: masks, centre: [4.2114, 12.6927, 8.51112], radius: 8.75 Thread 4 at 00:00:33:671, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 4s Thread 4 at 00:00:33:671, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=2 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:33:671, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--98, y:38--166, z:4--95 Thread 4 at 00:00:33:674, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): 74945 dots were removed (ID 2) Thread 4 at 00:00:33:674, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 into source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:33:674, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): inserting ID=2 with centre at (8.63115,12.3068,8.26368) in microns Thread 4 at 00:00:33:674, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:33:675, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(4.85867,8.44255,5.19984) microns (including 2px frame) Thread 4 at 00:00:33:675, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.47186,7.91623,6.3141) microns (including 2px frame) Thread 4 at 00:00:33:675, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(39,68,42) pixels Thread 4 at 00:00:33:679, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00499201 seconds Thread 4 at 00:00:33:691, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.011773 seconds Thread 4 at 00:00:33:692, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000437975 seconds Thread 4 at 00:00:33:714, Cell ID: 2, cellScm.cpp::ScmRenderCellIntoMask(): 75525 dots were added (ID 2 ) Thread 4 at 00:00:33:720, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:33:721, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(25.4013,20.6481,2.59992) microns (including 2px frame) Thread 4 at 00:00:33:721, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.01832,7.42522,6.06648) microns (including 2px frame) Thread 4 at 00:00:33:721, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(205,166,21) pixels Thread 4 at 00:00:33:721, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:33:724, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00451303 seconds Thread 4 at 00:00:33:734, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.00991398 seconds Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000378013 seconds Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(29.1435,24.7074,4.16267) microns (including 2px frame) Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.85597,1.70631,1.23806) microns (including 2px frame) Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(235,199,33) pixels Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000181019 seconds Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000276983 seconds Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.00136e-05 seconds Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(28.9468,22.0913,4.14234) microns (including 2px frame) Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(1.70631,1.70631,1.36186) microns (including 2px frame) Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(233,178,33) pixels Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): Warning: Asked to render outside or at the boundary of the mask image. Thread 4 at 00:00:33:735, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.000153005 seconds Thread 4 at 00:00:33:736, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.000292003 seconds Thread 4 at 00:00:33:736, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 1.19805e-05 seconds Thread 4 at 00:00:33:812, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regenerating distance map, it contains 64432 pixels Thread 4 at 00:00:34:220, Cell ID: 2, cellChr.cpp::FindNearestMaskVoxel(): Regeneration finished. Thread 7 at 00:00:34:281, Cell ID: 3, bp_lists.cpp::ResetBoundaryPoints(): new list contains 5684 points (380 outer) with centre at (56.6252,78.8363,8.20214) Thread 7 at 00:00:34:282, Cell ID: 3, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 9-9, sceneType: masks, centre: [65.6855, 78.7756, 8.11595], radius: 8.75 Thread 7 at 00:00:34:282, Cell ID: 3, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 4s Thread 7 at 00:00:34:282, Cell ID: 3, cell.cpp::DoNextPhase(): updating reservation in sceneMask # 9 Thread 7 at 00:00:34:282, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=3 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:34:282, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:466--594, y:572--685, z:1--95 Thread 7 at 00:00:34:285, Cell ID: 3, cellScm.cpp::ScmRemoveCellFromMask(): 89053 dots were removed (ID 3) Thread 7 at 00:00:34:285, Cell ID: 3, bp_lists.cpp::SoftRenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:34:286, Cell ID: 3, bp_lists.cpp::SoftRenderBPListIntoMask(): pixelShift=(408,588,28) Thread 7 at 00:00:34:290, Cell ID: 3, bp_lists.cpp::SoftRenderBPListIntoMask(): rendering (dilated) object took 0.00589199 seconds Thread 7 at 00:00:34:312, Cell ID: 3, bp_lists.cpp::SoftRenderBPListIntoMask(): flooding outside of (dilated) object took 0.02193 seconds Thread 7 at 00:00:34:313, Cell ID: 3, bp_lists.cpp::SoftRenderBPListIntoMask(): finishing (eroding) object took 0.000776008 seconds Thread 7 at 00:00:34:313, Cell ID: 3, cell.cpp::DoNextPhase(): changed reservations in 1 sceneMasks Thread 7 at 00:00:34:313, scheduler.cpp::GetCellCometsLeavingFactor(): there are 5 'living' and 0 'cut away' cells, ratio=inf Thread 4 at 00:00:34:335, Cell ID: 2, cellChr.cpp::ChrUpdateStats(): operation took 0.077601 seconds, percentil is 0.9 Thread 4 at 00:00:34:335, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 8-8, sceneType: phantoms, centre: [8.63115, 12.3068, 8.26368], radius: 8.75 Thread 4 at 00:00:34:335, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 4s Thread 4 at 00:00:34:335, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): going to render 255944 'chr' points, ID=2 Thread 9 at 00:00:34:386, Cell ID: 5, bp_lists.cpp::ResetBoundaryPoints(): new list contains 174240 points (11040 outer) with centre at (44.9676,22.3236,8.55177) Thread 9 at 00:00:34:386, Cell ID: 5, bp_lists.cpp::ResetBoundaryPoints(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 4 at 00:00:34:477, Cell ID: 2, cellChr.cpp::ChrRenderIntoPhantoms(): direct rendering chr points took 0.142627 seconds Thread 4 at 00:00:34:479, Cell ID: 2, bp_lists.cpp::AllocateAndZeroNewMask(): points span x=5.10629 to 12.0829; y=8.69016 to 16.1112; z=5.44746 to 11.2663 Thread 4 at 00:00:34:480, Cell ID: 2, bp_lists.cpp::AllocateAndZeroNewMask(): new image at (3.09515,6.93313,4.2094) of size (10.7711,10.8949,8.29499) in microns Thread 4 at 00:00:34:480, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): source image at (3.09515,6.93313,4.2094) of size (10.7711,10.8949,8.29499) in microns Thread 4 at 00:00:34:481, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB offset =(1.76353,1.50942,0.990447) microns (including 2px frame) Thread 4 at 00:00:34:481, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): AABB diagonal=(7.47186,7.91623,6.3141) microns (including 2px frame) Thread 4 at 00:00:34:481, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): pixelShift=(14,12,8) pixels Thread 4 at 00:00:34:488, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): rendering (dilated) object took 0.00839099 seconds Thread 4 at 00:00:34:504, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): flooding outside of (dilated) object took 0.015705 seconds Thread 4 at 00:00:34:505, Cell ID: 2, bp_lists.cpp::RenderBPListIntoMask(): finishing (eroding) object took 0.000541985 seconds Thread 4 at 00:00:34:505, Cell ID: 2, cell.cpp::GenerateCentrosomes(): Generating centrosomes Thread 4 at 00:00:34:505, Cell ID: 2, cell.cpp::GetCellPolarityAndCentreVector(): Computing principal axes Thread 4 at 00:00:34:513, Cell ID: 2, cell.cpp::GetCellPolarityAndCentreVector(): axis1: (0.603373,0.797184,0.0209593) Thread 4 at 00:00:34:513, Cell ID: 2, cell.cpp::GetCellPolarityAndCentreVector(): axis2: (0.793217,-0.602663,0.0872074) Thread 4 at 00:00:34:513, Cell ID: 2, cell.cpp::GetCellPolarityAndCentreVector(): axis3: (-0.0821517,0.0359933,0.99597) Thread 4 at 00:00:34:513, Cell ID: 2, cell.cpp::GetCellPolarityAndCentreVector(): val1: 1.52972e+07 Thread 4 at 00:00:34:513, Cell ID: 2, cell.cpp::GetCellPolarityAndCentreVector(): val2: 9.13468e+06 Thread 4 at 00:00:34:513, Cell ID: 2, cell.cpp::GetCellPolarityAndCentreVector(): val3: 8.19474e+06 Thread 4 at 00:00:34:513, Cell ID: 2, cell.cpp::GetCellPolarityAndCentreVector(): polarity vector is: (0.603373,0.797184,0.0209593) Thread 4 at 00:00:34:513, Cell ID: 2, cell.cpp::GetCellPolarityAndCentreVector(): centroid (in microns): (8.5426,12.2568,8.17118) Thread 4 at 00:00:34:515, Cell ID: 2, cell.cpp::GenerateCentrosomes(): Doing distance transform Thread 4 at 00:00:34:549, Cell ID: 2, cell.cpp::GenerateCentrosomes(): max dist: 7.00484 Thread 4 at 00:00:34:551, Cell ID: 2, cell.cpp::GenerateCentrosomes(): centrosome A: (10.3527,14.6483,8.23406) Thread 4 at 00:00:34:551, Cell ID: 2, cell.cpp::GenerateCentrosomes(): centrosome B: (6.73248,9.86522,8.10831) Thread 4 at 00:00:34:551, Cell ID: 2, cell.cpp::GenerateCentrosomes(): centrosomes generated. Thread 4 at 00:00:34:551, Cell ID: 2, regionlock.h::printLockInfo(): TIME lock, waiting time: 0ms, timePoint: 8-8, sceneType: masks Thread 4 at 00:00:34:551, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 4s Thread 4 at 00:00:34:551, Cell ID: 2, bp_lists.cpp::ResetBoundaryPoints(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 7 at 00:00:35:184, scheduler.cpp::ReleaseOldScenes(): scene #3 saved Thread 9 at 00:00:35:514, Cell ID: 5, bp_lists.cpp::ResetBoundaryPoints(): new list contains 5522 points (368 outer) with centre at (43.9178,21.8177,7.78463) Thread 9 at 00:00:35:514, Cell ID: 5, bp_lists.cpp::ResetBoundaryPoints(): source image at (25.7516,3.59037,2.72373) of size (57.3221,57.1983,11.3901) in microns Thread 7 at 00:00:36:098, scheduler.cpp::ReleaseOldScenes(): scene #4 saved Thread 9 at 00:00:36:705, Cell ID: 5, bp_lists.cpp::ResetBoundaryPoints(): new list contains 5623 points (379 outer) with centre at (45.6824,20.8298,9.23611) Thread 9 at 00:00:36:706, Cell ID: 5, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 9-9, sceneType: masks, centre: [54.287, 32.3327, 8.54858], radius: 8.75 Thread 9 at 00:00:36:706, Cell ID: 5, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 4s Thread 9 at 00:00:36:706, Cell ID: 5, cell.cpp::DoNextPhase(): updating reservation in sceneMask # 9 Thread 9 at 00:00:36:706, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=5 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:36:706, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:374--502, y:197--325, z:5--95 Thread 9 at 00:00:36:709, Cell ID: 5, cellScm.cpp::ScmRemoveCellFromMask(): 67965 dots were removed (ID 5) Thread 9 at 00:00:36:709, Cell ID: 5, bp_lists.cpp::SoftRenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 9 at 00:00:36:709, Cell ID: 5, bp_lists.cpp::SoftRenderBPListIntoMask(): pixelShift=(328,144,37) Thread 9 at 00:00:36:714, Cell ID: 5, bp_lists.cpp::SoftRenderBPListIntoMask(): rendering (dilated) object took 0.00499499 seconds Thread 9 at 00:00:36:733, Cell ID: 5, bp_lists.cpp::SoftRenderBPListIntoMask(): flooding outside of (dilated) object took 0.019308 seconds Thread 9 at 00:00:36:734, Cell ID: 5, bp_lists.cpp::SoftRenderBPListIntoMask(): finishing (eroding) object took 0.000724018 seconds Thread 9 at 00:00:36:734, Cell ID: 5, cell.cpp::DoNextPhase(): changed reservations in 1 sceneMasks Thread 9 at 00:00:36:734, scheduler.cpp::GetCellCometsLeavingFactor(): there are 5 'living' and 0 'cut away' cells, ratio=inf Thread 4 at 00:00:36:873, Cell ID: 2, bp_lists.cpp::ResetBoundaryPoints(): new list contains 211671 points (13395 outer) with centre at (8.62866,12.3041,8.26826) Thread 4 at 00:00:36:874, Cell ID: 2, scheduler.cpp::PnGetMeNonrigidHints(): points span x=5.07604 to 12.133; y=8.66641 to 16.0948; z=5.44746 to 11.2663 Thread 4 at 00:00:36:874, Cell ID: 2, scheduler.cpp::PnGetMeNonrigidHints(): span in pixels is 57; 61; 48 Thread 4 at 00:00:36:874, Cell ID: 2, scheduler.cpp::PnGetMeNonrigidHints(): since pnArray has size 197,197,197, will use offset 27,25,72 Thread 4 at 00:00:36:882, Cell ID: 2, bp_lists.cpp::ResetBoundaryPoints(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 7 at 00:00:37:136, scheduler.cpp::ReleaseOldScenes(): scene #5 saved Thread 4 at 00:00:37:600, Cell ID: 2, bp_lists.cpp::ResetBoundaryPoints(): new list contains 186813 points (11817 outer) with centre at (8.62129,12.2929,8.27161) Thread 4 at 00:00:37:600, Cell ID: 2, bp_lists.cpp::ResetBoundaryPoints(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 7 at 00:00:38:173, scheduler.cpp::ReleaseOldScenes(): scene #6 saved Thread 4 at 00:00:38:400, Cell ID: 2, bp_lists.cpp::ResetBoundaryPoints(): new list contains 4517 points (305 outer) with centre at (9.81476,13.5492,7.54363) Thread 4 at 00:00:38:400, Cell ID: 2, bp_lists.cpp::ResetBoundaryPoints(): source image at (-20.3042,-12.0092,2.72373) of size (48.9033,49.3985,11.7616) in microns Thread 4 at 00:00:39:068, Cell ID: 2, bp_lists.cpp::ResetBoundaryPoints(): new list contains 4869 points (327 outer) with centre at (9.48837,10.9449,7.49044) Thread 4 at 00:00:39:069, Cell ID: 2, regionlock.h::printLockInfo(): SPHERE lock, waiting time: 0ms, timePoint: 9-9, sceneType: masks, centre: [4.2114, 12.6927, 8.51112], radius: 8.75 Thread 4 at 00:00:39:069, Cell ID: 2, regionlock.cpp::checkAndLock(): Total time spent waiting (all threads): 0m 4s Thread 4 at 00:00:39:069, Cell ID: 2, cell.cpp::DoNextPhase(): updating reservation in sceneMask # 9 Thread 4 at 00:00:39:069, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): removing ID=2 from source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:39:069, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): sweeping ranges, x:0--98, y:38--166, z:4--95 Thread 4 at 00:00:39:073, Cell ID: 2, cellScm.cpp::ScmRemoveCellFromMask(): 74945 dots were removed (ID 2) Thread 4 at 00:00:39:073, Cell ID: 2, bp_lists.cpp::SoftRenderBPListIntoMask(): source image at (0,0,0) of size (84.9308,84.9308,11.8854) in microns Thread 4 at 00:00:39:074, Cell ID: 2, bp_lists.cpp::SoftRenderBPListIntoMask(): pixelShift=(32,61,35) Thread 4 at 00:00:39:077, Cell ID: 2, bp_lists.cpp::SoftRenderBPListIntoMask(): rendering (dilated) object took 0.00463104 seconds Thread 4 at 00:00:39:094, Cell ID: 2, bp_lists.cpp::SoftRenderBPListIntoMask(): flooding outside of (dilated) object took 0.016939 seconds Thread 4 at 00:00:39:095, Cell ID: 2, bp_lists.cpp::SoftRenderBPListIntoMask(): finishing (eroding) object took 0.000643015 seconds Thread 4 at 00:00:39:095, Cell ID: 2, cell.cpp::DoNextPhase(): changed reservations in 1 sceneMasks Thread 4 at 00:00:39:095, scheduler.cpp::GetCellCometsLeavingFactor(): there are 5 'living' and 0 'cut away' cells, ratio=inf scheduler.cpp::Run_st(): All worker threads have finished without errors! scheduler.cpp::ReleaseOldScenes(): scene #7 saved scheduler.cpp::ReleaseOldScenes(): scene #8 saved scheduler.cpp::ReleaseOldScenes(): scene #9 saved scheduler.cpp::~Scheduler(): Destructing scheduler scheduler.cpp::~Scheduler(): deleting cell with ID = 1 scheduler.cpp::~Scheduler(): deleting cell with ID = 2 scheduler.cpp::~Scheduler(): deleting cell with ID = 3 scheduler.cpp::~Scheduler(): deleting cell with ID = 4 scheduler.cpp::~Scheduler(): deleting cell with ID = 5 scheduler.cpp::~Scheduler(): Saving spatiotemporal mask image scheduler.cpp::~Scheduler(): Saving spatiotemporal phantom image main.cpp::main(): Happy end! :-) main.cpp::main(): main.cpp::main(): Now, inspect the results. If you are happy with them, please run: main.cpp::main(): $> ./scripts/finalize.sh config-smallVOI-highSNR.ini main.cpp::main(): main.cpp::main(): stopping time: Tue 2017-11-28, 10:04:28