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Opened 7 years ago
Last modified 7 years ago
#1313 closed enhancement
ChimeraX bug report submission — at Initial Version
| Reported by: | Owned by: | ||
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Command Line | Version: | |
| Keywords: | Cc: | Tom Goddard, Eric Pettersen | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted: Platform: Windows-10-10.0.17134 ChimeraX Version: 0.8 (2018-09-15) Description Cant save any images. Says Expected a models specifier or a keyword. Neither the symbol nor command line works Log: Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 0.8 (2018-09-15) How to cite UCSF ChimeraX open "C:\Users\HUT Privat\Desktop\bookchapter\translocation\efgaction.cxs" ↵ File not found: C:\Users\HUT Privat\Desktopookchapter ranslocation\efgaction.cxs open "C:/Users/HUT Privat/Desktop/bookchapter/translocation/efgaction.cxs" ↵ Summary of feedback from opening C:/Users/HUT Privat/Desktop/bookchapter/translocation/efgaction.cxs --- error | Unable to restore session, resetting. Traceback (most recent call last): File "C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py", line 584, in restore obj = sm.restore_snapshot(self, data) File "C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\atomic\bond_rot\manager.py", line 154, in restore_snapshot mgr._ses_restore(data) File "C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\atomic\bond_rot\manager.py", line 168, in _ses_restore self.bond_rotations = data['rotations'] KeyError: 'rotations' opened ChimeraX session open "C:/Users/HUT Privat/Desktop/bookchapter/translocation/4v7d-pdb- bundle_brilotandEFG.tar/4v7d-pdb-bundle/4v7d-pdb-bundle2.pdb" ↵ Summary of feedback from opening C:/Users/HUT Privat/Desktop/bookchapter/translocation/4v7d-pdb- bundle_brilotandEFG.tar/4v7d-pdb-bundle/4v7d-pdb-bundle2.pdb --- warning | Ignored bad PDB record found on line 1 HEADER TRANSLATION/ANTIBIOTIC 2013-11-21 XXXX Chain information for 4v7d-pdb-bundle2.pdb #1 --- Chain | Description A | No description available B | No description available C | No description available D | No description available E | No description available F | No description available G | No description available H | No description available I | No description available J | No description available K | No description available L | No description available M | No description available N | No description available O | No description available P | No description available Q | No description available R | No description available S | No description available T | No description available U | No description available V W | No description available X | No description available Y | No description available Z | No description available color #1/A yellow ↵ color #1/A & sideonly khaki ↵ select #1/B-U ↵ 18543 atoms, 18811 bonds selected hide selAtoms ↵ select #1/Y ↵ 5301 atoms, 5400 bonds selected color #1/Y ↵ color #1/Y red ↵ show selAtoms ribbons ↵ hide selAtoms ↵ set silhouettes false ↵ set silhouettes true ↵ color #1/V sienna ↵ color #1/V & sideonly tan ↵ color #1/W salmon ↵ color #1/W & sideonly pink ↵ select #1/X cyan Expected a keyword color #1/X cyan ↵ color #1/X & sideonly aquamarine ↵ hide #1/A ↵ open "C:/Users/HUT Privat/Desktop/bookchapter/translocation/4v7b-pdb- bundle_ApP_pePnew.tar/4v7b-pdb-bundle/4v7b-pdb- bundle1-coot-0_aligned4v7dSSU.pdb" ↵ Summary of feedback from opening C:/Users/HUT Privat/Desktop/bookchapter/translocation/4v7b-pdb- bundle_ApP_pePnew.tar/4v7b-pdb-bundle/4v7b-pdb- bundle1-coot-0_aligned4v7dSSU.pdb --- warning | Ignored bad PDB record found on line 65057 END Chain information for 4v7b-pdb-bundle1-coot-0_aligned4v7dSSU.pdb #2 --- Chain | Description A | No description available B | No description available C | No description available D | No description available E | No description available F | No description available G | No description available H | No description available I | No description available J | No description available K | No description available L | No description available M | No description available N | No description available O | No description available P | No description available Q | No description available R | No description available S | No description available T | No description available U | No description available V W | No description available X | No description available Y | No description available Z | No description available a | No description available hide #!1 models ↵ select #2/B-U ↵ 18558 atoms, 18827 bonds selected hide selAtoms ↵ select #2/Z ↵ 2529 atoms, 2828 bonds selected hide selAtoms ↵ select #2/a ↵ 2082 atoms, 2121 bonds selected hide selAtoms ↵ color #27A yellow Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword color #2/A yellow ↵ color #2/A & sideonly tan ↵ color #2/Y red ↵ select #2/Y ↵ 5259 atoms, 5362 bonds selected show selAtoms ribbons ↵ hide selAtoms ↵ select #2/V ↵ 1640 atoms, 1832 bonds selected color#2/V sienna Unknown command: color#2/V sienna color #2/V sienna ↵ color #2/V & sideonly tan ↵ color #2/W salmon ↵ color #2/W & sideonly pink ↵ hide #2/A ↵ color #2/X cyan ↵ color #2/X & sideonly aquamarine ↵ select #2/A:1485-1500 ↵ 349 atoms, 391 bonds selected show selAtoms ribbons ↵ select up ↵ 23 atoms, 25 bonds selected select up ↵ 1640 atoms, 1832 bonds selected show selAtoms ribbons ↵ hide selAtoms ↵ color #2/V sienna ↵ color #2/W salmon ↵ select up ↵ 65014 atoms, 70100 bonds selected show selAtoms ribbons ↵ hide selAtoms ↵ select up ↵ 20 atoms, 21 bonds selected select up ↵ 1635 atoms, 1827 bonds selected show selAtoms ribbons ↵ hide selAtoms ↵ select up ↵ 22 atoms, 24 bonds selected select up ↵ 416 atoms, 469 bonds selected show selAtoms ribbons ↵ hide selAtoms ↵ color #2/X cyan ↵ lighting full ↵ lighting shadows false ↵ lighting soft ↵ lighting full ↵ lighting soft ↵ lighting full ↵ lighting simple ↵ lighting shadows true ↵ lighting soft ↵ style selAtoms sphere ↵ Changed 44 atom styles show selAtoms ↵ style selAtoms stick ↵ Changed 44 atom styles select up ↵ 22 atoms, 24 bonds selected select up ↵ 32895 atoms, 36834 bonds selected select up ↵ 32895 atoms, 36834 bonds selected color sel yellow ↵ color sel khaki ↵ show #1/W ↵ show #!1 models ↵ hide #1 ↵ show #1/w ↵ select up ↵ 20 atoms, 21 bonds selected select up ↵ 1622 atoms, 1812 bonds selected show selAtoms ribbons ↵ hide selAtoms ↵ hide #1/w ↵ select up ↵ 1622 atoms, 1812 bonds selected hide selAtoms ribbons ↵ show #2/A:1335-1345 ↵ select #2/A:1335-1345 ↵ 233 atoms, 259 bonds selected show selAtoms ribbons ↵ hide selAtoms ↵ select #1/A:1335-1345 ↵ 233 atoms, 259 bonds selected show selAtoms ribbons ↵ select #1/A:1330-1345 ↵ 343 atoms, 383 bonds selected show selAtoms ribbons ↵ color #1/A:1330-1345 khaki ↵ color #1/A:1330-1345 grey ↵ color #1/A:1330-1345 light grey ↵ select #1/1485-1500 ↵ Nothing selected select #1/A:1485-1500 ↵ 349 atoms, 391 bonds selected show selAtoms ribbons ↵ style selAtoms stick ↵ Changed 44 atom styles show selAtoms ↵ hide#1/A:1485-1500 Unknown command: hide#1/A:1485-1500 hide #1/A:1485-1500 ↵ select #1/A:1485-1500 ↵ 349 atoms, 391 bonds selected hide selAtoms ribbons ↵ style selAtoms stick ↵ Changed 42 atom styles show selAtoms ↵ style selAtoms stick ↵ Changed 22 atom styles show selAtoms ↵ hide selAtoms ↵ select #1/W ↵ 1622 atoms, 1812 bonds selected show selAtoms ribbons ↵ hide selAtoms ribbons ↵ select #1/V ↵ 1619 atoms, 1809 bonds selected show selAtoms ribbons ↵ select #1/W ↵ 1622 atoms, 1812 bonds selected show selAtoms ribbons ↵ hide selAtoms ribbons ↵ select #1/V ↵ 1619 atoms, 1809 bonds selected hide selAtoms ribbons ↵ toolshed show "Side View" save C:\Users\HUT Privat/Desktop\image13.png supersample 3 Expected a models specifier or a keyword Expected a models specifier or a keyword save C:\Users\HUT Privat/Desktop\image13.png supersample 3 Expected a models specifier or a keyword Expected a models specifier or a keyword save image efgaction.png ↵ save C:\Users\HUT Privat/Desktop\image13.png supersample 3 Expected a models specifier or a keyword Expected a models specifier or a keyword save image yolo.png ↵ save image C:\Users\HUT Privat\Desktop\yolo.png Expected a keyword save image C:\Users\HUTPrivat\Desktop\yolo.png ↵ Directory "C:\Users\HUTPrivat\Desktop" does not exist save image C:\Users\HUT Privat\Desktop\yolo.png Expected a keyword save image C:\Users\HUT Privat\Desktop\yolo.png supersample 3 Expected a keyword save C:\Users\HUT Privat/Desktop\image13.png supersample 3 Expected a models specifier or a keyword Expected a models specifier or a keyword OpenGL version: 3.3.0 - Build 10.18.10.4425 OpenGL renderer: Intel(R) HD Graphics 4000 OpenGL vendor: Intel
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