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Opened 18 months ago
Closed 18 months ago
#15038 closed defect (duplicate)
Crash in garbage collection
| Reported by: | Owned by: | pett | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Core | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-14.4.1-arm64-arm-64bit
ChimeraX Version: 1.7.1 (2024-01-23 01:58:08 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Thread 0x000000033bd5f000 (most recent call first):
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 324 in wait
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 622 in wait
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1392 in run
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000032eb57000 (most recent call first):
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 324 in wait
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 622 in wait
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1392 in run
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x000000032db4b000 (most recent call first):
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 324 in wait
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 622 in wait
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1392 in run
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Current thread 0x00000001ff60fac0 (most recent call first):
Garbage-collecting
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/addh/cmd.py", line 1014 in to_h36
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/addh/cmd.py", line 1082 in _h_name
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/addh/cmd.py", line 949 in new_hydrogen
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/addh/cmd.py", line 910 in add_altloc_hyds
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/addh/hbond.py", line 909 in _attach_hydrogens
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/addh/hbond.py", line 225 in add_hydrogens
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/addh/cmd.py", line 184 in hbond_add_hydrogens
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/addh/cmd.py", line 77 in cmd_addh
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/coulombic/coulombic.py", line 95 in assign_charges
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/coulombic/cmd.py", line 99 in cmd_coulombic
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/commands/cli.py", line 2908 in run
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/commands/cli.py", line 3468 in __call__
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/commands/cli.py", line 2929 in run
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/commands/run.py", line 49 in run
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/scripting.py", line 184 in _run_commands
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/commands/runscript.py", line 61 in run_command_script
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/commands/runscript.py", line 51 in runscript
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/commands/cli.py", line 2908 in run
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/cmd_line/tool.py", line 319 in execute
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/cmd_line/tool.py", line 146 in keyPressEvent
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 275 in event_loop
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 918 in init
File "/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1069 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtWebChannel, PyQt6.QtNetwork, PyQt6.QtWebEngineCore, PyQt6.QtPrintSupport, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.map._map, chimerax.surface._surface, lxml._elementpath, lxml.etree, charset_normalizer.md, PIL._imaging, matplotlib._c_internal_utils, matplotlib._path, kiwisolver._cext, matplotlib._image, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.pdb_lib._load_libs, PIL._imagingmath, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, chimerax.pdb._pdbio, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.atom_search.ast, chimerax.chem_group._chem_group, chimerax.coulombic._esp, chimerax.mlp._mlp (total: 59)
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"vmRegionInfo" : "0xa9 is not in any region. Bytes before following region: 4309778263\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 100e20000-100e24000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.7.1.app\/Contents\/MacOS\/ChimeraX",
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"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":97199},
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===== Log before crash start =====
Startup Messages
---
warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR
bundle with that from NMRSTAR bundle
UCSF ChimeraX version: 1.7.1 (2024-01-23)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> runscript /Users/neyrinck/Dropbox/notebook/proteins/makepictures.cxc
> alias picmovie view orient ; save "/Users/neyrinck/Google Drive/My
> Drive/$1/$2/$2_$3.jpg" supersample 2 ; movie record ; turn y 2 180 ; wait
> 180 ; movie encode "/Users/neyrinck/Google Drive/My
> Drive/$1/$2/$2_$3_rot.mp4"
> alias makepicture close ; set bgColor white ; windowsize 480 480 ;open
> "/Users/neyrinck/Google Drive/My Drive/$1/$2/best_model.pdb" ; alphafold pae
> #1 file "/Users/neyrinck/Google Drive/My Drive/$1/$2/best_model_pae.json" ;
> view orient ; sequence chain #1/A ; sequence chain #1/B ;color bychain ;
> color /A indianred ; color /B royalblue ; alphafold contacts /A to /B
> palette paegreen ; hbonds /A reveal true restrict /B color fuchsia radius
> 0.8 dashes 2 ; picmovie $1 $2 contacts_hbonds ; style sphere ; show atoms ;
> picmovie $1 $2 sphere ; style nucleic stick ; hide atoms ; coulombic key
> true ; picmovie $1 $2 coulombic ; style nucleic stick ; hide atoms ; mlp key
> true ; picmovie $1 $2 hydrophobic
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AA186
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA186/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
14 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA186/AA186_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA186/AA186_contacts_hbonds_rot.mp4
Changed 8236 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA186/AA186_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA186/AA186_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -24.91, mean
-3.45, maximum 18.96
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -17.91, mean
0.27, maximum 17.12
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA186/AA186_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA186/AA186_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -28.9, mean
-5.402, maximum 27.2
Map values for surface "best_model.pdb_B SES surface": minimum -33.89, mean
-6.165, maximum 25.75
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA186/AA186_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA186/AA186_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AA187
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA187/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
3 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA187/AA187_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA187/AA187_contacts_hbonds_rot.mp4
Changed 6019 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA187/AA187_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA187/AA187_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -23.03, mean
-3.67, maximum 22.15
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -10.55, mean
-0.38, maximum 8.98
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA187/AA187_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA187/AA187_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -32.26, mean
-5.262, maximum 25.53
Map values for surface "best_model.pdb_B SES surface": minimum -25.71, mean
-5.142, maximum 22.48
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA187/AA187_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA187/AA187_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AA188
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA188/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
1 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA188/AA188_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA188/AA188_contacts_hbonds_rot.mp4
Changed 8614 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA188/AA188_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA188/AA188_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -38.16, mean
-2.92, maximum 19.47
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -18.05, mean
-2.44, maximum 10.15
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA188/AA188_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA188/AA188_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -27.49, mean
-5.448, maximum 26.09
Map values for surface "best_model.pdb_B SES surface": minimum -27.72, mean
-3.147, maximum 24.08
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA188/AA188_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA188/AA188_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AA190
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA190/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
1 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA190/AA190_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA190/AA190_contacts_hbonds_rot.mp4
Changed 6317 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA190/AA190_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA190/AA190_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -24.42, mean
-3.27, maximum 19.24
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -23.57, mean
-1.27, maximum 12.65
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA190/AA190_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA190/AA190_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -27.13, mean
-5.362, maximum 22.73
Map values for surface "best_model.pdb_B SES surface": minimum -28.29, mean
-1.995, maximum 24.45
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA190/AA190_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA190/AA190_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AA191
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA191/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
11 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA191/AA191_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA191/AA191_contacts_hbonds_rot.mp4
Changed 11455 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA191/AA191_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA191/AA191_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -22.01, mean
-2.83, maximum 22.37
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -21.18, mean
0.52, maximum 18.94
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA191/AA191_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA191/AA191_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -31.38, mean
-5.34, maximum 25.04
Map values for surface "best_model.pdb_B SES surface": minimum -29.11, mean
-3.532, maximum 23.69
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA191/AA191_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA191/AA191_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AA192
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA192/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
9 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA192/AA192_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA192/AA192_contacts_hbonds_rot.mp4
Changed 11820 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA192/AA192_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA192/AA192_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -21.61, mean
-3.59, maximum 19.85
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -19.51, mean
1.62, maximum 20.76
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA192/AA192_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA192/AA192_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -32.99, mean
-5.396, maximum 30.04
Map values for surface "best_model.pdb_B SES surface": minimum -28.44, mean
-3.959, maximum 25.98
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA192/AA192_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA192/AA192_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AA193
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA193/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
3 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA193/AA193_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA193/AA193_contacts_hbonds_rot.mp4
Changed 9596 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA193/AA193_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA193/AA193_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -23.11, mean
-2.56, maximum 23.64
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -42.39, mean
-0.10, maximum 15.73
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA193/AA193_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA193/AA193_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -31.34, mean
-5.428, maximum 25.19
Map values for surface "best_model.pdb_B SES surface": minimum -28.64, mean
-3.417, maximum 23.47
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA193/AA193_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA193/AA193_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AA194
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA194/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
1 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA194/AA194_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA194/AA194_contacts_hbonds_rot.mp4
Changed 12503 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA194/AA194_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA194/AA194_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -26.89, mean
-3.00, maximum 20.61
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -17.00, mean
-0.51, maximum 14.86
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA194/AA194_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA194/AA194_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -30.98, mean
-5.388, maximum 27.15
Map values for surface "best_model.pdb_B SES surface": minimum -30.38, mean
-3.552, maximum 26.1
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA194/AA194_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA194/AA194_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AA195
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA195/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
1 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA195/AA195_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA195/AA195_contacts_hbonds_rot.mp4
Changed 8027 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA195/AA195_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA195/AA195_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -25.35, mean
-2.87, maximum 20.00
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -28.84, mean
-1.33, maximum 13.32
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA195/AA195_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA195/AA195_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -28.08, mean
-5.331, maximum 24.7
Map values for surface "best_model.pdb_B SES surface": minimum -28.54, mean
-3.605, maximum 24
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA195/AA195_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA195/AA195_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AA196
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA196/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
1 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA196/AA196_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA196/AA196_contacts_hbonds_rot.mp4
Changed 7633 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA196/AA196_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA196/AA196_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -22.14, mean
-2.91, maximum 19.43
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -15.07, mean
0.08, maximum 18.08
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA196/AA196_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA196/AA196_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -26.61, mean
-5.327, maximum 25.49
Map values for surface "best_model.pdb_B SES surface": minimum -28.14, mean
-2.916, maximum 25.28
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AA196/AA196_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AA196/AA196_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AB186
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB186/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
1 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB186/AB186_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB186/AB186_contacts_hbonds_rot.mp4
Changed 5381 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB186/AB186_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB186/AB186_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -17.98, mean
-2.28, maximum 8.81
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -16.07, mean
0.21, maximum 18.05
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB186/AB186_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB186/AB186_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -27.84, mean
-5.09, maximum 22.1
Map values for surface "best_model.pdb_B SES surface": minimum -27.72, mean
-6.068, maximum 24.02
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB186/AB186_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB186/AB186_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AB187
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB187/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
4 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB187/AB187_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB187/AB187_contacts_hbonds_rot.mp4
Changed 3164 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB187/AB187_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB187/AB187_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -13.97, mean
-2.03, maximum 8.91
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -10.35, mean
-0.34, maximum 9.68
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB187/AB187_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB187/AB187_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -30.24, mean
-5.187, maximum 22.01
Map values for surface "best_model.pdb_B SES surface": minimum -26.55, mean
-5.109, maximum 22.84
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB187/AB187_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB187/AB187_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AB188
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB188/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
6 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB188/AB188_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB188/AB188_contacts_hbonds_rot.mp4
Changed 5759 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB188/AB188_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB188/AB188_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -12.45, mean
-2.40, maximum 14.15
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -19.89, mean
-2.42, maximum 10.40
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB188/AB188_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB188/AB188_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -29.08, mean
-5.29, maximum 22.01
Map values for surface "best_model.pdb_B SES surface": minimum -28.34, mean
-3.106, maximum 24.37
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB188/AB188_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB188/AB188_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AB189
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB189/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
1 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB189/AB189_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB189/AB189_contacts_hbonds_rot.mp4
Changed 11436 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB189/AB189_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB189/AB189_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -14.10, mean
-2.72, maximum 8.68
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -21.48, mean
-1.56, maximum 18.03
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB189/AB189_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB189/AB189_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -30.74, mean
-5.483, maximum 28.27
Map values for surface "best_model.pdb_B SES surface": minimum -32.48, mean
-4.342, maximum 25.92
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB189/AB189_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB189/AB189_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AB190
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB190/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
1 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB190/AB190_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB190/AB190_contacts_hbonds_rot.mp4
Changed 3462 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB190/AB190_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB190/AB190_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -12.94, mean
-2.18, maximum 8.91
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -19.18, mean
-1.26, maximum 11.78
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB190/AB190_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB190/AB190_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -28.63, mean
-5.26, maximum 21.99
Map values for surface "best_model.pdb_B SES surface": minimum -27.65, mean
-2.096, maximum 23.33
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB190/AB190_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB190/AB190_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AB191
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB191/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
19 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB191/AB191_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB191/AB191_contacts_hbonds_rot.mp4
Changed 8600 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB191/AB191_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB191/AB191_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -13.38, mean
-2.52, maximum 8.68
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -19.16, mean
0.52, maximum 30.73
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB191/AB191_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB191/AB191_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -33.01, mean
-5.304, maximum 22.18
Map values for surface "best_model.pdb_B SES surface": minimum -27.39, mean
-3.607, maximum 23.95
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB191/AB191_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB191/AB191_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AB192
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB192/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
20 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB192/AB192_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB192/AB192_contacts_hbonds_rot.mp4
Changed 8965 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB192/AB192_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB192/AB192_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -21.36, mean
-2.55, maximum 9.46
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -14.78, mean
1.71, maximum 21.57
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB192/AB192_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB192/AB192_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -30.94, mean
-5.128, maximum 21.8
Map values for surface "best_model.pdb_B SES surface": minimum -28.25, mean
-3.985, maximum 23.29
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB192/AB192_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB192/AB192_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AB193
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB193/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
0 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB193/AB193_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB193/AB193_contacts_hbonds_rot.mp4
Changed 6741 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB193/AB193_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB193/AB193_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -15.84, mean
-2.71, maximum 8.52
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -19.48, mean
-0.11, maximum 16.95
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB193/AB193_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB193/AB193_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -28.16, mean
-5.376, maximum 22.41
Map values for surface "best_model.pdb_B SES surface": minimum -29.6, mean
-3.358, maximum 23.25
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB193/AB193_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB193/AB193_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AB194
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB194/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
3 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB194/AB194_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB194/AB194_contacts_hbonds_rot.mp4
Changed 9648 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB194/AB194_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB194/AB194_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -21.59, mean
-2.26, maximum 9.57
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -17.39, mean
-0.52, maximum 19.31
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB194/AB194_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB194/AB194_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -29.37, mean
-5.314, maximum 21.7
Map values for surface "best_model.pdb_B SES surface": minimum -29.24, mean
-3.512, maximum 27.19
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB194/AB194_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB194/AB194_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AB195
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB195/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
1 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB195/AB195_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB195/AB195_contacts_hbonds_rot.mp4
Changed 5172 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB195/AB195_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB195/AB195_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -19.68, mean
-2.20, maximum 10.20
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -18.10, mean
-1.41, maximum 14.50
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB195/AB195_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB195/AB195_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -29.78, mean
-5.286, maximum 22.61
Map values for surface "best_model.pdb_B SES surface": minimum -28.28, mean
-3.822, maximum 28.02
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB195/AB195_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB195/AB195_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AB196
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB196/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
1 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB196/AB196_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB196/AB196_contacts_hbonds_rot.mp4
Changed 4778 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB196/AB196_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB196/AB196_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -12.20, mean
-2.16, maximum 8.74
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -20.34, mean
0.05, maximum 18.28
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB196/AB196_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB196/AB196_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -28.03, mean
-5.173, maximum 22.61
Map values for surface "best_model.pdb_B SES surface": minimum -28.77, mean
-3.276, maximum 25.05
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AB196/AB196_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AB196/AB196_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AC186
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC186/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
12 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC186/AC186_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC186/AC186_contacts_hbonds_rot.mp4
Changed 5379 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC186/AC186_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC186/AC186_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -20.95, mean
-2.23, maximum 8.85
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -16.29, mean
0.39, maximum 19.36
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC186/AC186_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC186/AC186_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -26.67, mean
-5.891, maximum 22.7
Map values for surface "best_model.pdb_B SES surface": minimum -29.73, mean
-6.058, maximum 27.56
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC186/AC186_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC186/AC186_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AC187
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC187/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
12 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC187/AC187_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC187/AC187_contacts_hbonds_rot.mp4
Changed 3162 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC187/AC187_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC187/AC187_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -21.68, mean
-2.33, maximum 9.06
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -9.90, mean
-0.27, maximum 9.33
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC187/AC187_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC187/AC187_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -27.47, mean
-5.712, maximum 22.14
Map values for surface "best_model.pdb_B SES surface": minimum -25.75, mean
-5.149, maximum 23.24
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC187/AC187_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC187/AC187_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AC188
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC188/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
5 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC188/AC188_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC188/AC188_contacts_hbonds_rot.mp4
Changed 5757 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC188/AC188_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC188/AC188_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -22.05, mean
-2.48, maximum 8.40
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -20.14, mean
-2.43, maximum 9.82
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC188/AC188_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC188/AC188_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -25.87, mean
-5.828, maximum 22.33
Map values for surface "best_model.pdb_B SES surface": minimum -30.43, mean
-3.125, maximum 24.01
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC188/AC188_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC188/AC188_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AC189
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC189/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
20 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC189/AC189_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC189/AC189_contacts_hbonds_rot.mp4
Changed 11434 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC189/AC189_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC189/AC189_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -22.26, mean
-2.19, maximum 8.17
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -21.40, mean
-1.62, maximum 14.33
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC189/AC189_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC189/AC189_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -27.26, mean
-5.898, maximum 21.64
Map values for surface "best_model.pdb_B SES surface": minimum -28.57, mean
-4.458, maximum 25.71
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC189/AC189_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC189/AC189_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AC190
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC190/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
9 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC190/AC190_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC190/AC190_contacts_hbonds_rot.mp4
Changed 3460 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC190/AC190_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC190/AC190_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -21.03, mean
-2.51, maximum 8.22
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -20.61, mean
-1.35, maximum 11.56
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC190/AC190_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC190/AC190_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -25.92, mean
-5.851, maximum 22.86
Map values for surface "best_model.pdb_B SES surface": minimum -26.44, mean
-1.954, maximum 26.51
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC190/AC190_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC190/AC190_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AC191
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC191/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
9 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC191/AC191_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC191/AC191_contacts_hbonds_rot.mp4
Changed 8598 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC191/AC191_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC191/AC191_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -20.65, mean
-2.21, maximum 8.17
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -25.51, mean
0.54, maximum 21.36
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC191/AC191_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC191/AC191_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -26.98, mean
-5.848, maximum 22.07
Map values for surface "best_model.pdb_B SES surface": minimum -32.59, mean
-3.607, maximum 23.52
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC191/AC191_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC191/AC191_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AC192
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC192/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
12 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC192/AC192_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC192/AC192_contacts_hbonds_rot.mp4
Changed 8963 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC192/AC192_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC192/AC192_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -20.63, mean
-2.10, maximum 9.34
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -18.60, mean
1.78, maximum 20.18
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC192/AC192_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC192/AC192_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -27.25, mean
-5.889, maximum 22.52
Map values for surface "best_model.pdb_B SES surface": minimum -30.3, mean
-3.986, maximum 25.88
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC192/AC192_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC192/AC192_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AC193
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC193/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
20 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC193/AC193_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC193/AC193_contacts_hbonds_rot.mp4
Changed 6739 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC193/AC193_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC193/AC193_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -23.42, mean
-2.48, maximum 8.30
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -18.55, mean
0.06, maximum 16.72
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC193/AC193_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC193/AC193_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -25.99, mean
-5.905, maximum 22.5
Map values for surface "best_model.pdb_B SES surface": minimum -28.97, mean
-3.339, maximum 24.02
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC193/AC193_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC193/AC193_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AC194
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC194/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
12 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC194/AC194_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC194/AC194_contacts_hbonds_rot.mp4
Changed 9646 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC194/AC194_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC194/AC194_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -23.51, mean
-2.36, maximum 8.77
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -17.11, mean
-0.51, maximum 16.98
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC194/AC194_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC194/AC194_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -25.86, mean
-5.792, maximum 22.33
Map values for surface "best_model.pdb_B SES surface": minimum -29, mean
-3.581, maximum 26.04
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC194/AC194_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC194/AC194_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AC195
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC195/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
14 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC195/AC195_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC195/AC195_contacts_hbonds_rot.mp4
Changed 5170 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC195/AC195_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC195/AC195_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -21.50, mean
-2.40, maximum 8.43
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -18.83, mean
-1.37, maximum 15.82
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC195/AC195_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC195/AC195_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -29.83, mean
-5.767, maximum 22.83
Map values for surface "best_model.pdb_B SES surface": minimum -27.39, mean
-3.788, maximum 26.02
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC195/AC195_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC195/AC195_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AC196
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC196/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
13 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC196/AC196_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC196/AC196_contacts_hbonds_rot.mp4
Changed 4776 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC196/AC196_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC196/AC196_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -25.07, mean
-2.42, maximum 9.05
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -13.57, mean
0.11, maximum 15.96
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC196/AC196_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC196/AC196_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -26.96, mean
-5.708, maximum 22.69
Map values for surface "best_model.pdb_B SES surface": minimum -29.1, mean
-3.118, maximum 25.12
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AC196/AC196_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AC196/AC196_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AD186
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AD186/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
0 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AD186/AD186_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AD186/AD186_contacts_hbonds_rot.mp4
Changed 4085 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AD186/AD186_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AD186/AD186_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -12.21, mean
-0.43, maximum 9.71
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -18.45, mean
0.29, maximum 18.54
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AD186/AD186_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AD186/AD186_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -24.22, mean
-3.747, maximum 22.91
Map values for surface "best_model.pdb_B SES surface": minimum -28.97, mean
-6.16, maximum 22.4
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AD186/AD186_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AD186/AD186_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AD187
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AD187/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
0 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AD187/AD187_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AD187/AD187_contacts_hbonds_rot.mp4
Changed 1868 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AD187/AD187_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AD187/AD187_sphere_rot.mp4
Changed 0 atom styles
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for best_model.pdb_A SES surface #1.3: minimum, -12.30, mean
-0.39, maximum 9.55
Coulombic values for best_model.pdb_B SES surface #1.4: minimum, -11.67, mean
-0.32, maximum 9.61
> key red-white-blue :-10 :0 :10 showTool true
> ui mousemode right "color key"
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AD187/AD187_coulombic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AD187/AD187_coulombic_rot.mp4
Changed 0 atom styles
Map values for surface "best_model.pdb_A SES surface": minimum -24.3, mean
-3.661, maximum 21.99
Map values for surface "best_model.pdb_B SES surface": minimum -24.61, mean
-5.134, maximum 25.6
> key lipophilicity :-20 :0 :20 showTool true
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AD187/AD187_hydrophobic.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AD187/AD187_hydrophobic_rot.mp4
> makepicture 0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults AD188
> ui mousemode right translate
> open "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AD188/best_model.pdb"
Chain information for best_model.pdb #1
---
Chain | Description
A | No description available
B | No description available
Alignment identifier is 1/A
Alignment identifier is 1/B
1 hydrogen bonds found
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AD188/AD188_contacts_hbonds.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AD188/AD188_contacts_hbonds_rot.mp4
Changed 4463 atom styles
> save "/Users/neyrinck/Google Drive/My
> Drive/0_DUF1220_202208_howard/0_AlphaFold_results/0_MarksResults/AD188/AD188_sphere.jpg"
> supersample 2
Movie saved to /Users/neyrinck/.../AD188/AD188_sphere_rot.mp4
Changed 0 atom styles
===== Log before crash end =====
Log:
Startup Messages
---
warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR
bundle with that from NMRSTAR bundle
UCSF ChimeraX version: 1.7.1 (2024-01-23)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 88
OpenGL renderer: Apple M1 Max
OpenGL vendor: Apple
Python: 3.11.2
Locale: UTF-8
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro18,2
Model Number: Z14W00106LL/A
Chip: Apple M1 Max
Total Number of Cores: 10 (8 performance and 2 efficiency)
Memory: 32 GB
System Firmware Version: 10151.101.3
OS Loader Version: 10151.101.3
Software:
System Software Overview:
System Version: macOS 14.4.1 (23E224)
Kernel Version: Darwin 23.4.0
Time since boot: 24 days, 11 hours, 38 minutes
Graphics/Displays:
Apple M1 Max:
Chipset Model: Apple M1 Max
Type: GPU
Bus: Built-In
Total Number of Cores: 24
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3456 x 2234 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
Installed Packages:
alabaster: 0.7.16
appdirs: 1.4.4
appnope: 0.1.3
asttokens: 2.4.1
Babel: 2.14.0
backcall: 0.2.0
beautifulsoup4: 4.11.2
blockdiag: 3.0.0
blosc2: 2.0.0
build: 0.10.0
certifi: 2022.12.7
cftime: 1.6.3
charset-normalizer: 3.3.2
ChimeraX-AddCharge: 1.5.13
ChimeraX-AddH: 2.2.5
ChimeraX-AlignmentAlgorithms: 2.0.1
ChimeraX-AlignmentHdrs: 3.4.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.12.2
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.49.1
ChimeraX-AtomicLibrary: 12.1.5
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.3.2
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.1.2
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.10.5
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.2.2
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.3.2
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.3.2
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.2.4
ChimeraX-ColorActions: 1.0.3
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.5
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.7.1
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2
ChimeraX-DistMonitor: 1.4
ChimeraX-DockPrep: 1.1.3
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1.1
ChimeraX-Hbonds: 2.4
ChimeraX-Help: 1.2.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-Label: 1.1.8
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.1.6
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.1.4
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchMaker: 2.1.2
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.6.1
ChimeraX-MedicalToolbar: 1.0.2
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.12.1
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.14
ChimeraX-ModelPanel: 1.4
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.1
ChimeraX-NRRD: 1.1
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.13.1
ChimeraX-PDB: 2.7.3
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.1
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.2
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.2
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.11
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.2
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.12.4
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.1.2
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.2.2
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.2
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.33.3
ChimeraX-uniprot: 2.3
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.3.2
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.3
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.1
contourpy: 1.2.0
cxservices: 1.2.2
cycler: 0.12.1
Cython: 0.29.33
debugpy: 1.8.0
decorator: 5.1.1
docutils: 0.19
executing: 2.0.1
filelock: 3.9.0
fonttools: 4.47.2
funcparserlib: 2.0.0a0
glfw: 2.6.4
grako: 3.16.5
h5py: 3.10.0
html2text: 2020.1.16
idna: 3.6
ihm: 0.38
imagecodecs: 2023.9.18
imagesize: 1.4.1
ipykernel: 6.23.2
ipython: 8.14.0
ipython-genutils: 0.2.0
ipywidgets: 8.1.1
jedi: 0.18.2
Jinja2: 3.1.2
jupyter-client: 8.2.0
jupyter-core: 5.7.1
jupyterlab-widgets: 3.0.9
kiwisolver: 1.4.5
line-profiler: 4.0.2
lxml: 4.9.2
lz4: 4.3.2
MarkupSafe: 2.1.4
matplotlib: 3.7.2
matplotlib-inline: 0.1.6
msgpack: 1.0.4
nest-asyncio: 1.6.0
netCDF4: 1.6.2
networkx: 3.1
nibabel: 5.0.1
nptyping: 2.5.0
numexpr: 2.8.8
numpy: 1.25.1
openvr: 1.23.701
packaging: 21.3
ParmEd: 3.4.3
parso: 0.8.3
pep517: 0.13.0
pexpect: 4.9.0
pickleshare: 0.7.5
pillow: 10.2.0
pip: 23.0
pkginfo: 1.9.6
platformdirs: 4.1.0
prompt-toolkit: 3.0.43
psutil: 5.9.5
ptyprocess: 0.7.0
pure-eval: 0.2.2
py-cpuinfo: 9.0.0
pycollada: 0.7.2
pydicom: 2.3.0
Pygments: 2.16.1
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.2801
pyparsing: 3.0.9
pyproject-hooks: 1.0.0
PyQt6-commercial: 6.3.1
PyQt6-Qt6: 6.3.2
PyQt6-sip: 13.4.0
PyQt6-WebEngine-commercial: 6.3.1
PyQt6-WebEngine-Qt6: 6.3.2
python-dateutil: 2.8.2
pytz: 2023.3.post1
pyzmq: 25.1.2
qtconsole: 5.4.3
QtPy: 2.4.1
RandomWords: 0.4.0
requests: 2.31.0
scipy: 1.11.1
setuptools: 67.4.0
setuptools-scm: 7.0.5
sfftk-rw: 0.7.3
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.5
sphinx: 6.1.3
sphinx-autodoc-typehints: 1.22
sphinxcontrib-applehelp: 1.0.8
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.6
sphinxcontrib-htmlhelp: 2.0.5
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.7
sphinxcontrib-serializinghtml: 1.1.10
stack-data: 0.6.3
superqt: 0.5.0
tables: 3.8.0
tcia-utils: 1.5.1
tifffile: 2023.7.18
tinyarray: 1.2.4
tomli: 2.0.1
tornado: 6.4
traitlets: 5.9.0
typing-extensions: 4.9.0
tzdata: 2023.4
urllib3: 2.1.0
wcwidth: 0.2.13
webcolors: 1.12
wheel: 0.38.4
wheel-filename: 1.4.1
widgetsnbextension: 4.0.9
Change History (2)
comment:1 by , 18 months ago
| Component: | Unassigned → Core |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash in garbage collection |
comment:2 by , 18 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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Duplicate of #15037