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Opened 3 years ago
Closed 3 years ago
#8654 closed defect (duplicate)
Crash saving PNG
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Input/Output | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: Linux-3.10.0-1160.15.2.el7.x86_64-x86_64-with-glibc2.17
ChimeraX Version: 1.3 (2021-12-08 23:08:33 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Current thread 0x00007f9da23ff740 (most recent call first):
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/PIL/ImageFile.py", line 518 in _save
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/PIL/PngImagePlugin.py", line 1349 in _save
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/PIL/Image.py", line 2235 in save
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/image_formats/save.py", line 123 in save_image
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/image_formats/__init__.py", line 45 in save
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/save_command/cmd.py", line 89 in provider_save
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2856 in run
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/save_command/cmd.py", line 75 in cmd_save
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2856 in run
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/cmd_line/tool.py", line 297 in execute
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/cmd_line/tool.py", line 134 in keyPressEvent
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/ui/gui.py", line 301 in event_loop
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/ChimeraX_main.py", line 867 in init
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/ChimeraX_main.py", line 1018 in
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/runpy.py", line 87 in _run_code
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/runpy.py", line 197 in _run_module_as_main
===== Log before crash start =====
UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc1/vol_000.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc1/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc1/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc1/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc1/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc1/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc1/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc1/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc1/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc1/vol_009.mrc
> vseries true
Opened map series vol_000.mrc as #1, 10 images, grid size 128,128,128, pixel
5.42, shown at level 0.0256, step 1, values float32
> volume #1.1 level 0.1658
> volume #1.1 level 0.2139
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc2/vol_000.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc2/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc2/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc2/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc2/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc2/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc2/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc2/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc2/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/pc2/vol_009.mrc
Opened vol_000.mrc as #2.1, grid size 128,128,128, pixel 5.42, shown at level
0.0493, step 1, values float32
Opened vol_001.mrc as #2.2, grid size 128,128,128, pixel 5.42, shown at level
0.0457, step 1, values float32
Opened vol_002.mrc as #2.3, grid size 128,128,128, pixel 5.42, shown at level
0.0425, step 1, values float32
Opened vol_003.mrc as #2.4, grid size 128,128,128, pixel 5.42, shown at level
0.0382, step 1, values float32
Opened vol_004.mrc as #2.5, grid size 128,128,128, pixel 5.42, shown at level
0.0309, step 1, values float32
Opened vol_005.mrc as #2.6, grid size 128,128,128, pixel 5.42, shown at level
0.0269, step 1, values float32
Opened vol_006.mrc as #2.7, grid size 128,128,128, pixel 5.42, shown at level
0.028, step 1, values float32
Opened vol_007.mrc as #2.8, grid size 128,128,128, pixel 5.42, shown at level
0.0265, step 1, values float32
Opened vol_008.mrc as #2.9, grid size 128,128,128, pixel 5.42, shown at level
0.024, step 1, values float32
Opened vol_009.mrc as #2.10, grid size 128,128,128, pixel 5.42, shown at level
0.0224, step 1, values float32
> hide #!1 models
> hide #!2 models
> hide #!2.1 models
> hide #!2.2 models
> hide #!2.3 models
> hide #!2.4 models
> show #!2 models
> hide #!2.5 models
> hide #!2.6 models
> hide #!2.7 models
> hide #!2.8 models
> hide #!2.9 models
> hide #!2.10 models
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_000.mrc
Opened vol_000.mrc as #3, grid size 128,128,128, pixel 5.42, shown at level
0.181, step 1, values float32
> volume #2.1 level 0.3029
> hide #!2 models
> hide #!3 models
> show #!3 models
> volume #3 level 0.5071
> close
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_000.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_010.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_011.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_012.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_013.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_014.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_015.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_016.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_017.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_018.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_019.mrc
Opened vol_000.mrc as #1.1, grid size 128,128,128, pixel 5.42, shown at level
0.181, step 1, values float32
Opened vol_001.mrc as #1.2, grid size 128,128,128, pixel 5.42, shown at level
0.045, step 1, values float32
Opened vol_002.mrc as #1.3, grid size 128,128,128, pixel 5.42, shown at level
0.0424, step 1, values float32
Opened vol_003.mrc as #1.4, grid size 128,128,128, pixel 5.42, shown at level
0.0284, step 1, values float32
Opened vol_004.mrc as #1.5, grid size 128,128,128, pixel 5.42, shown at level
0.0144, step 1, values float32
Opened vol_005.mrc as #1.6, grid size 128,128,128, pixel 5.42, shown at level
0.0288, step 1, values float32
Opened vol_006.mrc as #1.7, grid size 128,128,128, pixel 5.42, shown at level
0.0266, step 1, values float32
Opened vol_007.mrc as #1.8, grid size 128,128,128, pixel 5.42, shown at level
0.0175, step 1, values float32
Opened vol_008.mrc as #1.9, grid size 128,128,128, pixel 5.42, shown at level
0.0548, step 1, values float32
Opened vol_009.mrc as #1.10, grid size 128,128,128, pixel 5.42, shown at level
0.0301, step 1, values float32
Opened vol_010.mrc as #1.11, grid size 128,128,128, pixel 5.42, shown at level
0.0335, step 1, values float32
Opened vol_011.mrc as #1.12, grid size 128,128,128, pixel 5.42, shown at level
0.0553, step 1, values float32
Opened vol_012.mrc as #1.13, grid size 128,128,128, pixel 5.42, shown at level
0.0345, step 1, values float32
Opened vol_013.mrc as #1.14, grid size 128,128,128, pixel 5.42, shown at level
0.0305, step 1, values float32
Opened vol_014.mrc as #1.15, grid size 128,128,128, pixel 5.42, shown at level
0.0515, step 1, values float32
Opened vol_015.mrc as #1.16, grid size 128,128,128, pixel 5.42, shown at level
0.0236, step 1, values float32
Opened vol_016.mrc as #1.17, grid size 128,128,128, pixel 5.42, shown at level
0.0174, step 1, values float32
Opened vol_017.mrc as #1.18, grid size 128,128,128, pixel 5.42, shown at level
0.0265, step 1, values float32
Opened vol_018.mrc as #1.19, grid size 128,128,128, pixel 5.42, shown at level
0.0356, step 1, values float32
Opened vol_019.mrc as #1.20, grid size 128,128,128, pixel 5.42, shown at level
0.0216, step 1, values float32
> tile
20 models tiled
> volume #1.1 level 0.2383
> volume #1 level 0.3
> volume #1 sdLevel 3
> volume #1 sdLevel 1
> volume #1 sdLevel 10
> volume #1 sdLevel 50
> volume #1 sdLevel 5000
> volume #1 level 0.3
> volume #1.1 level 0.3035
> volume #1.1 level 0.1607
> open /mnt/pegasus2/Bryce/restart_03Apr2021/Refine3D/job913/run_class001.mrc
Opened run_class001.mrc as #2, grid size 480,480,480, pixel 1.81, shown at
level 0.000342, step 2, values float32
> hide #!1 models
> volume #2 level 0.008344
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/Refine3D/job913/run_class001_angdist.bild
Opened BILD data containing 2275 objects
> hide #!2 models
> show #!1 models
> hide #3 models
> volume #1 level 0.2
> close
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_000.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_010.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_011.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_012.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_013.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_014.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_015.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_016.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_017.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_018.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.2/analyze.36/kmeans20/vol_019.mrc
Opened vol_000.mrc as #1.1, grid size 128,128,128, pixel 5.42, shown at level
0.0979, step 1, values float32
Opened vol_001.mrc as #1.2, grid size 128,128,128, pixel 5.42, shown at level
0.0859, step 1, values float32
Opened vol_002.mrc as #1.3, grid size 128,128,128, pixel 5.42, shown at level
0.0541, step 1, values float32
Opened vol_003.mrc as #1.4, grid size 128,128,128, pixel 5.42, shown at level
0.029, step 1, values float32
Opened vol_004.mrc as #1.5, grid size 128,128,128, pixel 5.42, shown at level
0.0544, step 1, values float32
Opened vol_005.mrc as #1.6, grid size 128,128,128, pixel 5.42, shown at level
0.0469, step 1, values float32
Opened vol_006.mrc as #1.7, grid size 128,128,128, pixel 5.42, shown at level
0.0555, step 1, values float32
Opened vol_007.mrc as #1.8, grid size 128,128,128, pixel 5.42, shown at level
0.0309, step 1, values float32
Opened vol_008.mrc as #1.9, grid size 128,128,128, pixel 5.42, shown at level
0.0286, step 1, values float32
Opened vol_009.mrc as #1.10, grid size 128,128,128, pixel 5.42, shown at level
0.0298, step 1, values float32
Opened vol_010.mrc as #1.11, grid size 128,128,128, pixel 5.42, shown at level
0.0647, step 1, values float32
Opened vol_011.mrc as #1.12, grid size 128,128,128, pixel 5.42, shown at level
0.0385, step 1, values float32
Opened vol_012.mrc as #1.13, grid size 128,128,128, pixel 5.42, shown at level
0.0261, step 1, values float32
Opened vol_013.mrc as #1.14, grid size 128,128,128, pixel 5.42, shown at level
0.0601, step 1, values float32
Opened vol_014.mrc as #1.15, grid size 128,128,128, pixel 5.42, shown at level
0.0457, step 1, values float32
Opened vol_015.mrc as #1.16, grid size 128,128,128, pixel 5.42, shown at level
0.0356, step 1, values float32
Opened vol_016.mrc as #1.17, grid size 128,128,128, pixel 5.42, shown at level
0.0646, step 1, values float32
Opened vol_017.mrc as #1.18, grid size 128,128,128, pixel 5.42, shown at level
0.0268, step 1, values float32
Opened vol_018.mrc as #1.19, grid size 128,128,128, pixel 5.42, shown at level
0.0234, step 1, values float32
Opened vol_019.mrc as #1.20, grid size 128,128,128, pixel 5.42, shown at level
0.0347, step 1, values float32
> volume #1 level 0.2
> volume #1 level 0.3
> tile
20 models tiled
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/Refine3D/job987/run_it008_half1_class001.mrc
Opened run_it008_half1_class001.mrc as #2, grid size 384,384,384, pixel 1.81,
shown at level 3.13e-06, step 2, values float32
> volume #1.1 level 0.3073
> hide #!1 models
> volume #1.1 level 0.1836
> volume #2 level 0.01692
> volume #2 step 1
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/Refine3D/job987/run_it008_half1_class001_angdist.bild
Opened BILD data containing 48 objects
> close
> open /mnt/pegasus2/Bryce/restart_03Apr2021/Refine3D/job987/run_class001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/Refine3D/job987/run_class001_angdist.bild
Opened run_class001.mrc as #1, grid size 384,384,384, pixel 1.81, shown at
level 0.00045, step 2, values float32
Opened BILD data containing 768 objects
> volume #1 level 0.007336
> volume #1 step 1
> volume #1 level 0.01808
> open /mnt/pegasus2/Bryce/restart_03Apr2021/Refine3D/job960/run_class001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/Refine3D/job960/run_class001_angdist.bild
Opened run_class001.mrc as #3, grid size 384,384,384, pixel 1.81, shown at
level 0.000543, step 2, values float32
Opened BILD data containing 3072 objects
> volume #3 step 1
> volume #3 level 0.01093
> hide #!3 models
> hide #!1 models
> hide #4 models
> show #4 models
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> hide #2 models
> hide #4 models
> show #4 models
> hide #4 models
> show #2 models
> show #4 models
> hide #4 models
> hide #2 models
> show #!3 models
> volume #3 level 0.001381
> volume #1 level 0.001842
> volume #3 level 0.008419
> volume #1 level 0.01149
> close #2
> close
> open /pegasus2/Bryce/restart_03Apr2021/Refine3D/job987/*.bld vseries true
'vseries' has no suffix
> open /pegasus2/Bryce/restart_03Apr2021/Refine3D/job987/*.bild vseries true
'vseries' has no suffix
> open /pegasus2/Bryce/restart_03Apr2021/Refine3D/job987/*half1_class001.mrc
> vseries true
Opened map series run_it000_half1_class001.mrc as #1, 22 images, grid size
384,384,384, pixel 1.81, shown at level 0.000254, step 2, values float32
> volume #1.1 level 0.004312
> volume #1.1 step 1
> open /pegasus2/Bryce/restart_03Apr2021/Refine3D/job960/*half1_class001.mrc
> vseries true
Opened map series run_it000_half1_class001.mrc as #2, 19 images, grid size
384,384,384, pixel 1.81, shown at level 0.000254, step 2, values float32
> volume #2.1 level 0.002949
> volume #1 level 0.3
> volume #2 level 0.3
> volume #2.1 step 1
> volume #2 level 0.03
> volume #2 level 0.05
> volume #2 level 0.01
> volume #1 level 0.01
> select #1
45 models selected
> ui mousemode right "translate selected models"
> select #2
39 models selected
> ~select #1
39 models selected
> view matrix models #2,1,0,0,285.35,0,1,0,5.5511e-16,0,0,1,0
> ~select #2
Nothing selected
> close #2
> close
> open /mnt/pegasus2/Bryce/restart_03Apr2021/Refine3D/job960/run_class001.mrc
Opened run_class001.mrc as #1, grid size 384,384,384, pixel 1.81, shown at
level 0.000543, step 2, values float32
> open /mnt/pegasus2/Bryce/restart_03Apr2021/Refine3D/job990/run_class001.mrc
Opened run_class001.mrc as #2, grid size 384,384,384, pixel 1.81, shown at
level 0.000326, step 2, values float32
> volume #2 level 0.001749
> volume #1 level 0.005683
> volume #1 step 1
> volume #2 step 1
> volume #2 level 0.0177
> volume #1 level 0.03417
> volume #2 level 0.02307
> open /mnt/pegasus2/Bryce/restart_03Apr2021/Subtract/job919/reconstructed.mrc
Opened reconstructed.mrc as #3, grid size 384,384,384, pixel 1.81, shown at
level 0.00264, step 2, values float32
> volume #3 level 0.02506
> volume #3 step 1
> volume #3 level 0.03109
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/backproject.128.mrc
Opened backproject.128.mrc as #4, grid size 128,128,128, pixel 5.42, shown at
level 0.0412, step 1, values float32
> volume #4 level 0.2656
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_000.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_010.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_011.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_012.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_013.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_014.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_015.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_016.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_017.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_018.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.24/kmeans20/vol_019.mrc
Opened vol_000.mrc as #5.1, grid size 128,128,128, pixel 5.42, shown at level
0.131, step 1, values float32
Opened vol_001.mrc as #5.2, grid size 128,128,128, pixel 5.42, shown at level
0.0465, step 1, values float32
Opened vol_002.mrc as #5.3, grid size 128,128,128, pixel 5.42, shown at level
0.0275, step 1, values float32
Opened vol_003.mrc as #5.4, grid size 128,128,128, pixel 5.42, shown at level
0.0224, step 1, values float32
Opened vol_004.mrc as #5.5, grid size 128,128,128, pixel 5.42, shown at level
0.0247, step 1, values float32
Opened vol_005.mrc as #5.6, grid size 128,128,128, pixel 5.42, shown at level
0.0344, step 1, values float32
Opened vol_006.mrc as #5.7, grid size 128,128,128, pixel 5.42, shown at level
0.033, step 1, values float32
Opened vol_007.mrc as #5.8, grid size 128,128,128, pixel 5.42, shown at level
0.0219, step 1, values float32
Opened vol_008.mrc as #5.9, grid size 128,128,128, pixel 5.42, shown at level
0.00863, step 1, values float32
Opened vol_009.mrc as #5.10, grid size 128,128,128, pixel 5.42, shown at level
0.0251, step 1, values float32
Opened vol_010.mrc as #5.11, grid size 128,128,128, pixel 5.42, shown at level
0.0232, step 1, values float32
Opened vol_011.mrc as #5.12, grid size 128,128,128, pixel 5.42, shown at level
0.0286, step 1, values float32
Opened vol_012.mrc as #5.13, grid size 128,128,128, pixel 5.42, shown at level
0.0237, step 1, values float32
Opened vol_013.mrc as #5.14, grid size 128,128,128, pixel 5.42, shown at level
0.073, step 1, values float32
Opened vol_014.mrc as #5.15, grid size 128,128,128, pixel 5.42, shown at level
0.055, step 1, values float32
Opened vol_015.mrc as #5.16, grid size 128,128,128, pixel 5.42, shown at level
0.0232, step 1, values float32
Opened vol_016.mrc as #5.17, grid size 128,128,128, pixel 5.42, shown at level
0.0333, step 1, values float32
Opened vol_017.mrc as #5.18, grid size 128,128,128, pixel 5.42, shown at level
0.028, step 1, values float32
Opened vol_018.mrc as #5.19, grid size 128,128,128, pixel 5.42, shown at level
0.0207, step 1, values float32
Opened vol_019.mrc as #5.20, grid size 128,128,128, pixel 5.42, shown at level
0.0236, step 1, values float32
> close #1
> close #2
> close #3
> close #4
> volume #5 level 0.01
> volume #5 level 0.03
> volume #5 level 0.06
> volume #5 level 0.1
> volume #5 level 0.2
> volume #5 level 0.3
> volume #5 level 0.4
> tile
20 models tiled
> undo
> tile
20 models tiled
> tile
20 models tiled
> hide #!5 models
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_000.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_010.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_011.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_012.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_013.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_014.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_015.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_016.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_017.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_018.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob960/train.128.1/analyze.24/kmeans20/vol_019.mrc
Opened vol_000.mrc as #1.1, grid size 128,128,128, pixel 5.42, shown at level
0.181, step 1, values float32
Opened vol_001.mrc as #1.2, grid size 128,128,128, pixel 5.42, shown at level
0.045, step 1, values float32
Opened vol_002.mrc as #1.3, grid size 128,128,128, pixel 5.42, shown at level
0.0424, step 1, values float32
Opened vol_003.mrc as #1.4, grid size 128,128,128, pixel 5.42, shown at level
0.0284, step 1, values float32
Opened vol_004.mrc as #1.5, grid size 128,128,128, pixel 5.42, shown at level
0.0144, step 1, values float32
Opened vol_005.mrc as #1.6, grid size 128,128,128, pixel 5.42, shown at level
0.0288, step 1, values float32
Opened vol_006.mrc as #1.7, grid size 128,128,128, pixel 5.42, shown at level
0.0266, step 1, values float32
Opened vol_007.mrc as #1.8, grid size 128,128,128, pixel 5.42, shown at level
0.0175, step 1, values float32
Opened vol_008.mrc as #1.9, grid size 128,128,128, pixel 5.42, shown at level
0.0548, step 1, values float32
Opened vol_009.mrc as #1.10, grid size 128,128,128, pixel 5.42, shown at level
0.0301, step 1, values float32
Opened vol_010.mrc as #1.11, grid size 128,128,128, pixel 5.42, shown at level
0.0335, step 1, values float32
Opened vol_011.mrc as #1.12, grid size 128,128,128, pixel 5.42, shown at level
0.0553, step 1, values float32
Opened vol_012.mrc as #1.13, grid size 128,128,128, pixel 5.42, shown at level
0.0345, step 1, values float32
Opened vol_013.mrc as #1.14, grid size 128,128,128, pixel 5.42, shown at level
0.0305, step 1, values float32
Opened vol_014.mrc as #1.15, grid size 128,128,128, pixel 5.42, shown at level
0.0515, step 1, values float32
Opened vol_015.mrc as #1.16, grid size 128,128,128, pixel 5.42, shown at level
0.0236, step 1, values float32
Opened vol_016.mrc as #1.17, grid size 128,128,128, pixel 5.42, shown at level
0.0174, step 1, values float32
Opened vol_017.mrc as #1.18, grid size 128,128,128, pixel 5.42, shown at level
0.0265, step 1, values float32
Opened vol_018.mrc as #1.19, grid size 128,128,128, pixel 5.42, shown at level
0.0356, step 1, values float32
Opened vol_019.mrc as #1.20, grid size 128,128,128, pixel 5.42, shown at level
0.0216, step 1, values float32
> volume #1 level 0.4
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> close #5
> close #1
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_000.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_010.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_011.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_012.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_013.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_014.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_015.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_016.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_017.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_018.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_019.mrc
Opened vol_000.mrc as #1.1, grid size 128,128,128, pixel 5.42, shown at level
0.123, step 1, values float32
Opened vol_001.mrc as #1.2, grid size 128,128,128, pixel 5.42, shown at level
0.039, step 1, values float32
Opened vol_002.mrc as #1.3, grid size 128,128,128, pixel 5.42, shown at level
0.0427, step 1, values float32
Opened vol_003.mrc as #1.4, grid size 128,128,128, pixel 5.42, shown at level
0.038, step 1, values float32
Opened vol_004.mrc as #1.5, grid size 128,128,128, pixel 5.42, shown at level
0.0378, step 1, values float32
Opened vol_005.mrc as #1.6, grid size 128,128,128, pixel 5.42, shown at level
0.0242, step 1, values float32
Opened vol_006.mrc as #1.7, grid size 128,128,128, pixel 5.42, shown at level
0.0347, step 1, values float32
Opened vol_007.mrc as #1.8, grid size 128,128,128, pixel 5.42, shown at level
0.036, step 1, values float32
Opened vol_008.mrc as #1.9, grid size 128,128,128, pixel 5.42, shown at level
0.0405, step 1, values float32
Opened vol_009.mrc as #1.10, grid size 128,128,128, pixel 5.42, shown at level
0.0468, step 1, values float32
Opened vol_010.mrc as #1.11, grid size 128,128,128, pixel 5.42, shown at level
0.0386, step 1, values float32
Opened vol_011.mrc as #1.12, grid size 128,128,128, pixel 5.42, shown at level
0.0282, step 1, values float32
Opened vol_012.mrc as #1.13, grid size 128,128,128, pixel 5.42, shown at level
0.0204, step 1, values float32
Opened vol_013.mrc as #1.14, grid size 128,128,128, pixel 5.42, shown at level
0.029, step 1, values float32
Opened vol_014.mrc as #1.15, grid size 128,128,128, pixel 5.42, shown at level
0.0379, step 1, values float32
Opened vol_015.mrc as #1.16, grid size 128,128,128, pixel 5.42, shown at level
0.0209, step 1, values float32
Opened vol_016.mrc as #1.17, grid size 128,128,128, pixel 5.42, shown at level
0.0333, step 1, values float32
Opened vol_017.mrc as #1.18, grid size 128,128,128, pixel 5.42, shown at level
0.0599, step 1, values float32
Opened vol_018.mrc as #1.19, grid size 128,128,128, pixel 5.42, shown at level
0.0817, step 1, values float32
Opened vol_019.mrc as #1.20, grid size 128,128,128, pixel 5.42, shown at level
0.0411, step 1, values float32
> volume #1 level 0.4
> tile
20 models tiled
> hide #!1 models
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_000.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_010.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_011.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_012.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_013.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_014.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_015.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_016.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_017.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_018.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob733/particles.128.train.1/analyze.49/kmeans20/vol_019.mrc
Opened vol_000.mrc as #2.1, grid size 128,128,128, pixel 2.72, shown at level
0.0493, step 1, values float32
Opened vol_001.mrc as #2.2, grid size 128,128,128, pixel 2.72, shown at level
0.0218, step 1, values float32
Opened vol_002.mrc as #2.3, grid size 128,128,128, pixel 2.72, shown at level
0.036, step 1, values float32
Opened vol_003.mrc as #2.4, grid size 128,128,128, pixel 2.72, shown at level
0.0356, step 1, values float32
Opened vol_004.mrc as #2.5, grid size 128,128,128, pixel 2.72, shown at level
0.0317, step 1, values float32
Opened vol_005.mrc as #2.6, grid size 128,128,128, pixel 2.72, shown at level
0.0272, step 1, values float32
Opened vol_006.mrc as #2.7, grid size 128,128,128, pixel 2.72, shown at level
0.0493, step 1, values float32
Opened vol_007.mrc as #2.8, grid size 128,128,128, pixel 2.72, shown at level
0.0277, step 1, values float32
Opened vol_008.mrc as #2.9, grid size 128,128,128, pixel 2.72, shown at level
0.0196, step 1, values float32
Opened vol_009.mrc as #2.10, grid size 128,128,128, pixel 2.72, shown at level
0.0232, step 1, values float32
Opened vol_010.mrc as #2.11, grid size 128,128,128, pixel 2.72, shown at level
0.0278, step 1, values float32
Opened vol_011.mrc as #2.12, grid size 128,128,128, pixel 2.72, shown at level
0.0294, step 1, values float32
Opened vol_012.mrc as #2.13, grid size 128,128,128, pixel 2.72, shown at level
0.0258, step 1, values float32
Opened vol_013.mrc as #2.14, grid size 128,128,128, pixel 2.72, shown at level
0.0371, step 1, values float32
Opened vol_014.mrc as #2.15, grid size 128,128,128, pixel 2.72, shown at level
0.0308, step 1, values float32
Opened vol_015.mrc as #2.16, grid size 128,128,128, pixel 2.72, shown at level
0.0322, step 1, values float32
Opened vol_016.mrc as #2.17, grid size 128,128,128, pixel 2.72, shown at level
0.0303, step 1, values float32
Opened vol_017.mrc as #2.18, grid size 128,128,128, pixel 2.72, shown at level
0.0316, step 1, values float32
Opened vol_018.mrc as #2.19, grid size 128,128,128, pixel 2.72, shown at level
0.0258, step 1, values float32
Opened vol_019.mrc as #2.20, grid size 128,128,128, pixel 2.72, shown at level
0.0349, step 1, values float32
> volume #2 level 0.4
> volume #2 level 0.1
> volume #2 level 0.05
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_000.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_010.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_011.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_012.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_013.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_014.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_015.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_016.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_017.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_018.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob632/Train2.2_Z10_D128/analyze.49/kmeans20/vol_019.mrc
Opened vol_000.mrc as #3.1, grid size 128,128,128, pixel 5.44, shown at level
0.0651, step 1, values float32
Opened vol_001.mrc as #3.2, grid size 128,128,128, pixel 5.44, shown at level
0.0253, step 1, values float32
Opened vol_002.mrc as #3.3, grid size 128,128,128, pixel 5.44, shown at level
0.0478, step 1, values float32
Opened vol_003.mrc as #3.4, grid size 128,128,128, pixel 5.44, shown at level
0.0295, step 1, values float32
Opened vol_004.mrc as #3.5, grid size 128,128,128, pixel 5.44, shown at level
0.0483, step 1, values float32
Opened vol_005.mrc as #3.6, grid size 128,128,128, pixel 5.44, shown at level
0.0639, step 1, values float32
Opened vol_006.mrc as #3.7, grid size 128,128,128, pixel 5.44, shown at level
0.051, step 1, values float32
Opened vol_007.mrc as #3.8, grid size 128,128,128, pixel 5.44, shown at level
0.0345, step 1, values float32
Opened vol_008.mrc as #3.9, grid size 128,128,128, pixel 5.44, shown at level
0.0465, step 1, values float32
Opened vol_009.mrc as #3.10, grid size 128,128,128, pixel 5.44, shown at level
0.0312, step 1, values float32
Opened vol_010.mrc as #3.11, grid size 128,128,128, pixel 5.44, shown at level
0.0505, step 1, values float32
Opened vol_011.mrc as #3.12, grid size 128,128,128, pixel 5.44, shown at level
0.0595, step 1, values float32
Opened vol_012.mrc as #3.13, grid size 128,128,128, pixel 5.44, shown at level
0.039, step 1, values float32
Opened vol_013.mrc as #3.14, grid size 128,128,128, pixel 5.44, shown at level
0.0289, step 1, values float32
Opened vol_014.mrc as #3.15, grid size 128,128,128, pixel 5.44, shown at level
0.0453, step 1, values float32
Opened vol_015.mrc as #3.16, grid size 128,128,128, pixel 5.44, shown at level
0.0325, step 1, values float32
Opened vol_016.mrc as #3.17, grid size 128,128,128, pixel 5.44, shown at level
0.0257, step 1, values float32
Opened vol_017.mrc as #3.18, grid size 128,128,128, pixel 5.44, shown at level
0.0292, step 1, values float32
Opened vol_018.mrc as #3.19, grid size 128,128,128, pixel 5.44, shown at level
0.0288, step 1, values float32
Opened vol_019.mrc as #3.20, grid size 128,128,128, pixel 5.44, shown at level
0.022, step 1, values float32
> hide #!2 models
> volume #3 level 0.05
> volume #3 level 0.1
> volume #3 level 0.2
> volume #3 level 0.3
> volume #3 level 0.4
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/clustering_L2_average_10/state_5_mean.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/clustering_L2_average_10/state_4_mean.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/clustering_L2_average_10/state_3_mean.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/clustering_L2_average_10/state_2_mean.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/clustering_L2_average_10/state_1_mean.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/clustering_L2_average_10/state_0_mean.mrc
Opened state_5_mean.mrc as #4.1, grid size 128,128,128, pixel 1, shown at
level 0.123, step 1, values float32
Opened state_4_mean.mrc as #4.2, grid size 128,128,128, pixel 1, shown at
level 0.101, step 1, values float32
Opened state_3_mean.mrc as #4.3, grid size 128,128,128, pixel 1, shown at
level 0.151, step 1, values float32
Opened state_2_mean.mrc as #4.4, grid size 128,128,128, pixel 1, shown at
level 0.166, step 1, values float32
Opened state_1_mean.mrc as #4.5, grid size 128,128,128, pixel 1, shown at
level 0.068, step 1, values float32
Opened state_0_mean.mrc as #4.6, grid size 128,128,128, pixel 1, shown at
level 0.0104, step 1, values float32
> hide #!3 models
> show #!3 models
> hide #!3 models
> volume #4.6 level 0.3477
> volume #4.5 level 0.3963
> volume #4.4 level 0.5419
> volume #4.3 level 0.5824
> volume #4.2 level 0.4335
> volume #4.1 level 0.448
> volume #4.1 level 0.3229
> volume #4.6 level 0.5532
> volume #4.5 level 0.8595
> volume #4.5 level 0.4692
> close
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_019.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_018.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_017.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_016.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_015.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_014.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_013.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_012.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_011.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_010.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/kmeans20/vol_000.mrc
Opened vol_019.mrc as #1.1, grid size 128,128,128, pixel 5.42, shown at level
0.0411, step 1, values float32
Opened vol_018.mrc as #1.2, grid size 128,128,128, pixel 5.42, shown at level
0.0817, step 1, values float32
Opened vol_017.mrc as #1.3, grid size 128,128,128, pixel 5.42, shown at level
0.0599, step 1, values float32
Opened vol_016.mrc as #1.4, grid size 128,128,128, pixel 5.42, shown at level
0.0333, step 1, values float32
Opened vol_015.mrc as #1.5, grid size 128,128,128, pixel 5.42, shown at level
0.0209, step 1, values float32
Opened vol_014.mrc as #1.6, grid size 128,128,128, pixel 5.42, shown at level
0.0379, step 1, values float32
Opened vol_013.mrc as #1.7, grid size 128,128,128, pixel 5.42, shown at level
0.029, step 1, values float32
Opened vol_012.mrc as #1.8, grid size 128,128,128, pixel 5.42, shown at level
0.0204, step 1, values float32
Opened vol_011.mrc as #1.9, grid size 128,128,128, pixel 5.42, shown at level
0.0282, step 1, values float32
Opened vol_010.mrc as #1.10, grid size 128,128,128, pixel 5.42, shown at level
0.0386, step 1, values float32
Opened vol_009.mrc as #1.11, grid size 128,128,128, pixel 5.42, shown at level
0.0468, step 1, values float32
Opened vol_008.mrc as #1.12, grid size 128,128,128, pixel 5.42, shown at level
0.0405, step 1, values float32
Opened vol_007.mrc as #1.13, grid size 128,128,128, pixel 5.42, shown at level
0.036, step 1, values float32
Opened vol_006.mrc as #1.14, grid size 128,128,128, pixel 5.42, shown at level
0.0347, step 1, values float32
Opened vol_005.mrc as #1.15, grid size 128,128,128, pixel 5.42, shown at level
0.0242, step 1, values float32
Opened vol_004.mrc as #1.16, grid size 128,128,128, pixel 5.42, shown at level
0.0378, step 1, values float32
Opened vol_003.mrc as #1.17, grid size 128,128,128, pixel 5.42, shown at level
0.038, step 1, values float32
Opened vol_002.mrc as #1.18, grid size 128,128,128, pixel 5.42, shown at level
0.0427, step 1, values float32
Opened vol_001.mrc as #1.19, grid size 128,128,128, pixel 5.42, shown at level
0.039, step 1, values float32
Opened vol_000.mrc as #1.20, grid size 128,128,128, pixel 5.42, shown at level
0.123, step 1, values float32
> volume #1 level 0.4
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc1/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc1/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc1/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc1/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc1/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc1/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc1/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc1/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc1/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc1/vol_000.mrc
> vseries true
Opened map series vol_009.mrc as #2, 10 images, grid size 128,128,128, pixel
5.42, shown at level 0.0325, step 1, values float32
> volume #2.2 level 0.2277
> hide #!1 models
> volume #2.10 level 0.3373
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc2/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc2/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc2/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc2/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc2/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc2/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc2/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc2/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc2/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/analyze.49/pc2/vol_000.mrc
> vseries true
Opened map series vol_009.mrc as #3, 10 images, grid size 128,128,128, pixel
5.42, shown at level 0.0331, step 1, values float32
> volume #3.10 level 0.2694
> close #2
> close #3
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc1/9.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc1/8.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc1/7.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc1/6.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc1/5.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc1/4.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc1/3.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc1/2.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc1/1.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc1/0.mrc
> vseries true
Opened map series 9.mrc as #2, 10 images, grid size 128,128,128, pixel 1,
shown at level 0.0993, step 1, values float32
> volume #2.1 level 0.9489
> show #!1 models
> close #2
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/9.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/8.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/7.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/6.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/5.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/4.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/3.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/2.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/1.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/0.mrc
> vseries true
Opened map series 9.mrc as #2, 10 images, grid size 128,128,128, pixel 1,
shown at level 0.0673, step 1, values float32
> close
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/9.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/8.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/7.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/6.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/5.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/4.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/3.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/2.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/1.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Subtractjob919/00_trainvae.128/landscape.49/vol_pcs/pc2/0.mrc
> vseries true
Opened map series 9.mrc as #1, 10 images, grid size 128,128,128, pixel 1,
shown at level 0.0673, step 1, values float32
> close
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/backproject.128.mrc
Opened backproject.128.mrc as #1, grid size 128,128,128, pixel 6.77, shown at
level 0.0535, step 1, values float32
> volume #1 level 0.2029
> close
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_019.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_018.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_017.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_016.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_015.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_014.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_013.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_012.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_011.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_010.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/kmeans20/vol_000.mrc
Opened vol_019.mrc as #1.1, grid size 128,128,128, pixel 6.77, shown at level
0.0106, step 1, values float32
Opened vol_018.mrc as #1.2, grid size 128,128,128, pixel 6.77, shown at level
0.0129, step 1, values float32
Opened vol_017.mrc as #1.3, grid size 128,128,128, pixel 6.77, shown at level
0.0353, step 1, values float32
Opened vol_016.mrc as #1.4, grid size 128,128,128, pixel 6.77, shown at level
0.0105, step 1, values float32
Opened vol_015.mrc as #1.5, grid size 128,128,128, pixel 6.77, shown at level
0.0141, step 1, values float32
Opened vol_014.mrc as #1.6, grid size 128,128,128, pixel 6.77, shown at level
0.0141, step 1, values float32
Opened vol_013.mrc as #1.7, grid size 128,128,128, pixel 6.77, shown at level
0.0158, step 1, values float32
Opened vol_012.mrc as #1.8, grid size 128,128,128, pixel 6.77, shown at level
0.017, step 1, values float32
Opened vol_011.mrc as #1.9, grid size 128,128,128, pixel 6.77, shown at level
0.0134, step 1, values float32
Opened vol_010.mrc as #1.10, grid size 128,128,128, pixel 6.77, shown at level
0.031, step 1, values float32
Opened vol_009.mrc as #1.11, grid size 128,128,128, pixel 6.77, shown at level
0.0271, step 1, values float32
Opened vol_008.mrc as #1.12, grid size 128,128,128, pixel 6.77, shown at level
0.0119, step 1, values float32
Opened vol_007.mrc as #1.13, grid size 128,128,128, pixel 6.77, shown at level
0.012, step 1, values float32
Opened vol_006.mrc as #1.14, grid size 128,128,128, pixel 6.77, shown at level
0.0178, step 1, values float32
Opened vol_005.mrc as #1.15, grid size 128,128,128, pixel 6.77, shown at level
0.0158, step 1, values float32
Opened vol_004.mrc as #1.16, grid size 128,128,128, pixel 6.77, shown at level
0.0136, step 1, values float32
Opened vol_003.mrc as #1.17, grid size 128,128,128, pixel 6.77, shown at level
0.0595, step 1, values float32
Opened vol_002.mrc as #1.18, grid size 128,128,128, pixel 6.77, shown at level
0.0125, step 1, values float32
Opened vol_001.mrc as #1.19, grid size 128,128,128, pixel 6.77, shown at level
0.24, step 1, values float32
Opened vol_000.mrc as #1.20, grid size 128,128,128, pixel 6.77, shown at level
0.292, step 1, values float32
> volume #1 level 0.4
> volume #1 level 0.5
> volume #1 level 0.6
> volume #1 level 0.7
> volume #1 level 1
> tile
20 models tiled
> volume #1.20 level 0.6072
> volume #1.20 level 0.5749
> volume #1.19 level 0.7379
> volume #1.20 level 0.9516
> volume #1.19 level 0.9305
> volume #1.18 level 0.896
> volume #1.12 level 0.9428
> volume #1.11 level 0.9058
> volume #1.10 level 0.649
> volume #1.9 level 1.08
> volume #1.8 level 1
> volume #1.8 level 1.137
> volume #1.8 level 0.8515
> volume #1.7 level 0.5222
> volume #1.6 level 1.036
> volume #1.5 level 0.7812
> volume #1.4 level 0.7487
> volume #1.3 level 0.7424
> volume #1.2 level 0.6561
> volume #1.1 level 0.7054
> close
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc1/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc1/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc1/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc1/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc1/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc1/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc1/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc1/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc1/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc1/vol_000.mrc
> vseries true
Opened map series vol_009.mrc as #1, 10 images, grid size 128,128,128, pixel
6.77, shown at level 0.0193, step 1, values float32
> volume #1.10 level 0.6765
> volume #1.10 level 1.181
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_000.mrc
> vseries true
Opened map series vol_009.mrc as #2, 10 images, grid size 128,128,128, pixel
6.77, shown at level 0.0302, step 1, values float32
> volume #2.10 level 0.5824
> close #1
> close
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.16/pc2/vol_000.mrc
> vseries true
Opened map series vol_009.mrc as #1, 10 images, grid size 128,128,128, pixel
6.77, shown at level 0.0302, step 1, values float32
> volume #1.1 level 0.4805
> close
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_019.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_018.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_017.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_016.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_015.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_014.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_013.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_012.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_011.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_010.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.19/kmeans20/vol_000.mrc
Opened vol_019.mrc as #1.1, grid size 128,128,128, pixel 6.77, shown at level
0.0202, step 1, values float32
Opened vol_018.mrc as #1.2, grid size 128,128,128, pixel 6.77, shown at level
0.02, step 1, values float32
Opened vol_017.mrc as #1.3, grid size 128,128,128, pixel 6.77, shown at level
0.0122, step 1, values float32
Opened vol_016.mrc as #1.4, grid size 128,128,128, pixel 6.77, shown at level
0.0152, step 1, values float32
Opened vol_015.mrc as #1.5, grid size 128,128,128, pixel 6.77, shown at level
0.0141, step 1, values float32
Opened vol_014.mrc as #1.6, grid size 128,128,128, pixel 6.77, shown at level
0.0188, step 1, values float32
Opened vol_013.mrc as #1.7, grid size 128,128,128, pixel 6.77, shown at level
0.0218, step 1, values float32
Opened vol_012.mrc as #1.8, grid size 128,128,128, pixel 6.77, shown at level
0.017, step 1, values float32
Opened vol_011.mrc as #1.9, grid size 128,128,128, pixel 6.77, shown at level
0.0145, step 1, values float32
Opened vol_010.mrc as #1.10, grid size 128,128,128, pixel 6.77, shown at level
0.0245, step 1, values float32
Opened vol_009.mrc as #1.11, grid size 128,128,128, pixel 6.77, shown at level
0.0839, step 1, values float32
Opened vol_008.mrc as #1.12, grid size 128,128,128, pixel 6.77, shown at level
0.0566, step 1, values float32
Opened vol_007.mrc as #1.13, grid size 128,128,128, pixel 6.77, shown at level
0.011, step 1, values float32
Opened vol_006.mrc as #1.14, grid size 128,128,128, pixel 6.77, shown at level
0.0183, step 1, values float32
Opened vol_005.mrc as #1.15, grid size 128,128,128, pixel 6.77, shown at level
0.0167, step 1, values float32
Opened vol_004.mrc as #1.16, grid size 128,128,128, pixel 6.77, shown at level
0.0305, step 1, values float32
Opened vol_003.mrc as #1.17, grid size 128,128,128, pixel 6.77, shown at level
0.0158, step 1, values float32
Opened vol_002.mrc as #1.18, grid size 128,128,128, pixel 6.77, shown at level
0.0309, step 1, values float32
Opened vol_001.mrc as #1.19, grid size 128,128,128, pixel 6.77, shown at level
0.197, step 1, values float32
Opened vol_000.mrc as #1.20, grid size 128,128,128, pixel 6.77, shown at level
0.227, step 1, values float32
> tile
20 models tiled
> volume #1 level 0.7
> tile
20 models tiled
> close
> open
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_019.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_018.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_017.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_016.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_015.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_014.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_013.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_012.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_011.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_010.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_009.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_008.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_007.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_006.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_005.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_004.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_003.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_002.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_001.mrc
> /mnt/pegasus2/Bryce/restart_03Apr2021/cryoDRGN/Refine3Djob917/train_1/analyze.38/kmeans20/vol_000.mrc
Opened vol_019.mrc as #1.1, grid size 128,128,128, pixel 6.77, shown at level
0.245, step 1, values float32
Opened vol_018.mrc as #1.2, grid size 128,128,128, pixel 6.77, shown at level
0.22, step 1, values float32
Opened vol_017.mrc as #1.3, grid size 128,128,128, pixel 6.77, shown at level
0.0194, step 1, values float32
Opened vol_016.mrc as #1.4, grid size 128,128,128, pixel 6.77, shown at level
0.0282, step 1, values float32
Opened vol_015.mrc as #1.5, grid size 128,128,128, pixel 6.77, shown at level
0.0581, step 1, values float32
Opened vol_014.mrc as #1.6, grid size 128,128,128, pixel 6.77, shown at level
0.0161, step 1, values float32
Opened vol_013.mrc as #1.7, grid size 128,128,128, pixel 6.77, shown at level
0.0149, step 1, values float32
Opened vol_012.mrc as #1.8, grid size 128,128,128, pixel 6.77, shown at level
0.03, step 1, values float32
Opened vol_011.mrc as #1.9, grid size 128,128,128, pixel 6.77, shown at level
0.0178, step 1, values float32
Opened vol_010.mrc as #1.10, grid size 128,128,128, pixel 6.77, shown at level
0.0132, step 1, values float32
Opened vol_009.mrc as #1.11, grid size 128,128,128, pixel 6.77, shown at level
0.0277, step 1, values float32
Opened vol_008.mrc as #1.12, grid size 128,128,128, pixel 6.77, shown at level
0.0551, step 1, values float32
Opened vol_007.mrc as #1.13, grid size 128,128,128, pixel 6.77, shown at level
0.0325, step 1, values float32
Opened vol_006.mrc as #1.14, grid size 128,128,128, pixel 6.77, shown at level
0.026, step 1, values float32
Opened vol_005.mrc as #1.15, grid size 128,128,128, pixel 6.77, shown at level
0.0202, step 1, values float32
Opened vol_004.mrc as #1.16, grid size 128,128,128, pixel 6.77, shown at level
0.0158, step 1, values float32
Opened vol_003.mrc as #1.17, grid size 128,128,128, pixel 6.77, shown at level
0.0176, step 1, values float32
Opened vol_002.mrc as #1.18, grid size 128,128,128, pixel 6.77, shown at level
0.0201, step 1, values float32
Opened vol_001.mrc as #1.19, grid size 128,128,128, pixel 6.77, shown at level
0.0345, step 1, values float32
Opened vol_000.mrc as #1.20, grid size 128,128,128, pixel 6.77, shown at level
0.114, step 1, values float32
> tile
20 models tiled
> volume #1 level 0.7
> tile
20 models tiled
> save /run/media/bab378/1B27-11CA/14Mar2023/cryodrgn_tiled.png superSample 3
> transparentBackground true
Expected a keyword
> save /run/media/bab378/1B27-11CA/14Mar2023/cryodrgntiled.png supersample 3
> transparentBackground true
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 3.3.0 NVIDIA 470.57.02
OpenGL renderer: NVIDIA GeForce RTX 2080 Ti/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: ASUSTeK COMPUTER INC.
Model: WS-C621E-SAGE Series
OS: CentOS Linux 7 Core
Architecture: 64bit ELF
Virutal Machine: none
CPU: 48 Intel(R) Xeon(R) Silver 4214 CPU @ 2.20GHz
Cache Size: 16896 KB
Memory:
total used free shared buff/cache available
Mem: 187G 7.3G 152G 109M 27G 179G
Swap: 93G 1.1G 91G
Graphics:
02:00.0 VGA compatible controller [0300]: ASPEED Technology, Inc. ASPEED Graphics Family [1a03:2000] (rev 41)
Subsystem: ASUSTeK Computer Inc. Device [1043:86ed]
Kernel driver in use: ast
Locale: ('en_US', 'UTF-8')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
Babel: 2.9.1
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2021.10.8
cftime: 1.5.1.1
charset-normalizer: 2.0.9
ChimeraX-AddCharge: 1.2.2
ChimeraX-AddH: 2.1.11
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.2.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.31
ChimeraX-AtomicLibrary: 4.2
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.0
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.6.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.2
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.2.2
ChimeraX-Clipper: 0.17.0
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5
ChimeraX-CommandLine: 1.1.5
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.3
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.2
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1.5
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.2
ChimeraX-Help: 1.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0
ChimeraX-Label: 1.1
ChimeraX-LinuxSupport: 1.0
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.4
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 2.0.4
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.4
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.2.6
ChimeraX-ModelPanel: 1.2.1
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.2
ChimeraX-OpenCommand: 1.7
ChimeraX-PDB: 2.6.5
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0.1
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.4.6
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.6.1
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1
ChimeraX-ToolshedUtils: 1.2
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.13.7
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.0.1
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.4
cxservices: 1.1
cycler: 0.11.0
Cython: 0.29.24
decorator: 5.1.0
distro: 1.6.0
docutils: 0.17.1
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 3.6.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.21
imagecodecs: 2021.4.28
imagesize: 1.3.0
ipykernel: 5.5.5
ipython: 7.23.1
ipython-genutils: 0.2.0
jedi: 0.18.0
Jinja2: 3.0.1
jupyter-client: 6.1.12
jupyter-core: 4.9.1
kiwisolver: 1.3.2
line-profiler: 3.3.0
lxml: 4.6.3
lz4: 3.1.3
MarkupSafe: 2.0.1
matplotlib: 3.4.3
matplotlib-inline: 0.1.3
msgpack: 1.0.2
netCDF4: 1.5.7
networkx: 2.6.3
numexpr: 2.8.0
numpy: 1.21.2
openvr: 1.16.801
packaging: 21.3
ParmEd: 3.2.0
parso: 0.8.3
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 8.3.2
pip: 21.2.4
pkginfo: 1.7.1
prompt-toolkit: 3.0.23
psutil: 5.8.0
ptyprocess: 0.7.0
pycollada: 0.7.1
pydicom: 2.1.2
Pygments: 2.10.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.6
PyQt5-commercial: 5.15.2
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.2
python-dateutil: 2.8.2
pytz: 2021.3
pyzmq: 22.3.0
qtconsole: 5.1.1
QtPy: 1.11.3
RandomWords: 0.3.0
requests: 2.26.0
scipy: 1.7.1
setuptools: 57.5.0
sfftk-rw: 0.7.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
Sphinx: 4.2.0
sphinx-autodoc-typehints: 1.12.0
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
suds-jurko: 0.6
tables: 3.6.1
tifffile: 2021.4.8
tinyarray: 1.2.3
tornado: 6.1
traitlets: 5.1.1
urllib3: 1.26.7
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.0
wheel-filename: 1.3.0
wiggle: 0.2.1
Change History (2)
comment:1 by , 3 years ago
| Component: | Unassigned → Input/Output |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash saving PNG |
comment:2 by , 3 years ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
Note:
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Duplicate. Only seen with ChimeraX 1.3, only Linux 3.10.