![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 3 years ago
Closed 3 years ago
#7297 closed defect (can't reproduce)
glClear: invalid framebuffer operation
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Graphics | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-10.16-x86_64-i386-64bit
ChimeraX Version: 1.4 (2022-06-03 23:39:42 UTC)
Description
using an EGPU, opening a session saved in catalina after updating to monterey.
Log:
UCSF ChimeraX version: 1.4 (2022-06-03)
© 2016-2022 Regents of the University of California. All rights reserved.
> open
> /Users/Dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/rank_25_mm.cxs
Log from Mon Jul 18 11:51:41 2022 Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.4 (2022-06-03)
© 2016-2022 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_0.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_9.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_8.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_7.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_6.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_5.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_4.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_3.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_24.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_23.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_22.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_21.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_20.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_2.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_19.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_18.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_17.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_16.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_15.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_14.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_13.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_12.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_11.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_10.pdb
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/ranked_1.pdb
Chain information for ranked_0.pdb #1
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_9.pdb #2
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_8.pdb #3
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_7.pdb #4
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_6.pdb #5
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_5.pdb #6
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_4.pdb #7
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_3.pdb #8
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_24.pdb #9
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_23.pdb #10
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_22.pdb #11
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_21.pdb #12
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_20.pdb #13
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_2.pdb #14
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_19.pdb #15
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_18.pdb #16
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_17.pdb #17
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_16.pdb #18
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_15.pdb #19
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_14.pdb #20
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_13.pdb #21
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_12.pdb #22
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_11.pdb #23
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_10.pdb #24
---
Chain | Description
A | No description available
B | No description available
Chain information for ranked_1.pdb #25
---
Chain | Description
A | No description available
B | No description available
> ui tool show "Model Panel"
> mmaker #25 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1890.4
RMSD between 325 pruned atom pairs is 0.351 angstroms; (across all 360 pairs:
2.770)
> mmaker #25 to #2
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_9.pdb, chain A (#2) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1890.4
RMSD between 313 pruned atom pairs is 0.271 angstroms; (across all 360 pairs:
3.449)
> mmaker #25 to #3
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_8.pdb, chain A (#3) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1897
RMSD between 334 pruned atom pairs is 0.313 angstroms; (across all 360 pairs:
1.524)
> mmaker #25 to #4
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_7.pdb, chain A (#4) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1887.4
RMSD between 316 pruned atom pairs is 0.319 angstroms; (across all 360 pairs:
3.455)
> mmaker #25 to #4
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_7.pdb, chain A (#4) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1887.4
RMSD between 316 pruned atom pairs is 0.319 angstroms; (across all 360 pairs:
3.455)
> mmaker #25 to #5
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_6.pdb, chain A (#5) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1904.2
RMSD between 337 pruned atom pairs is 0.340 angstroms; (across all 360 pairs:
1.298)
> mmaker #25 to #5
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_6.pdb, chain A (#5) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1904.2
RMSD between 337 pruned atom pairs is 0.340 angstroms; (across all 360 pairs:
1.298)
> mmaker #25 to #6
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_5.pdb, chain A (#6) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1890.4
RMSD between 320 pruned atom pairs is 0.312 angstroms; (across all 360 pairs:
1.951)
> mmaker #25 to #7
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_4.pdb, chain A (#7) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1890.4
RMSD between 334 pruned atom pairs is 0.431 angstroms; (across all 360 pairs:
1.473)
> mmaker #25 to #8
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_3.pdb, chain A (#8) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1878.4
RMSD between 311 pruned atom pairs is 0.270 angstroms; (across all 360 pairs:
4.802)
> mmaker #25 to #9
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_24.pdb, chain A (#9) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1875.4
RMSD between 289 pruned atom pairs is 0.502 angstroms; (across all 360 pairs:
4.533)
> mmaker #25 to #10
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_23.pdb, chain A (#10) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1886.2
RMSD between 308 pruned atom pairs is 0.446 angstroms; (across all 360 pairs:
6.049)
> mmaker #25 to #11
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_22.pdb, chain A (#11) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1891.6
RMSD between 324 pruned atom pairs is 0.455 angstroms; (across all 360 pairs:
3.265)
> mmaker #25 to #12
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_21.pdb, chain A (#12) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1887.4
RMSD between 316 pruned atom pairs is 0.529 angstroms; (across all 360 pairs:
3.850)
> mmaker #25 to #13
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_20.pdb, chain A (#13) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1887.4
RMSD between 315 pruned atom pairs is 0.303 angstroms; (across all 360 pairs:
3.988)
> mmaker #25 to #14
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_2.pdb, chain A (#14) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1887.4
RMSD between 319 pruned atom pairs is 0.308 angstroms; (across all 360 pairs:
2.822)
> mmaker #25 to #15
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_19.pdb, chain A (#15) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1899.4
RMSD between 314 pruned atom pairs is 0.358 angstroms; (across all 360 pairs:
4.709)
> mmaker #25 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1890.4
RMSD between 325 pruned atom pairs is 0.351 angstroms; (across all 360 pairs:
2.770)
> mmaker #25 to #16
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_18.pdb, chain A (#16) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1887.4
RMSD between 313 pruned atom pairs is 0.362 angstroms; (across all 360 pairs:
3.738)
> mmaker #25 to #17
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_17.pdb, chain A (#17) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1889.8
RMSD between 313 pruned atom pairs is 0.368 angstroms; (across all 360 pairs:
1.979)
> mmaker #25 to #18
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_16.pdb, chain A (#18) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1880.8
RMSD between 323 pruned atom pairs is 0.406 angstroms; (across all 360 pairs:
3.026)
> mmaker #25 to #19
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_15.pdb, chain A (#19) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1899.4
RMSD between 325 pruned atom pairs is 0.392 angstroms; (across all 360 pairs:
2.637)
> mmaker #25 to #20
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_14.pdb, chain A (#20) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1877.2
RMSD between 317 pruned atom pairs is 0.476 angstroms; (across all 360 pairs:
2.634)
> mmaker #25 to #21
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_13.pdb, chain A (#21) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1920.4
RMSD between 347 pruned atom pairs is 0.291 angstroms; (across all 360 pairs:
2.170)
> mmaker #25 to #22
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_12.pdb, chain A (#22) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1887.4
RMSD between 316 pruned atom pairs is 0.387 angstroms; (across all 360 pairs:
2.800)
> mmaker #25 to #23
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_11.pdb, chain A (#23) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1892.8
RMSD between 316 pruned atom pairs is 0.371 angstroms; (across all 360 pairs:
3.164)
> mmaker #25 to #24
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_10.pdb, chain A (#24) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1918
RMSD between 352 pruned atom pairs is 0.285 angstroms; (across all 360 pairs:
0.895)
> mmaker #25 to #25
Must use different reference and match structures
> hide #1 models
> hide #24 models
> show #24 models
> show #1 models
> hide #1-24 target m
> mmaker #1 to #2
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_9.pdb, chain A (#2) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1926.4
RMSD between 317 pruned atom pairs is 0.327 angstroms; (across all 360 pairs:
5.415)
> mmaker #1 to #3
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_8.pdb, chain A (#3) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1900
RMSD between 314 pruned atom pairs is 0.342 angstroms; (across all 360 pairs:
3.801)
> mmaker #1 to #4
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_7.pdb, chain A (#4) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1923.4
RMSD between 343 pruned atom pairs is 0.175 angstroms; (across all 360 pairs:
2.581)
> mmaker #1 to #5
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_6.pdb, chain A (#5) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1907.2
RMSD between 313 pruned atom pairs is 0.314 angstroms; (across all 360 pairs:
3.594)
> mmaker #1 to #
> matchmaker #1 to #
Invalid "to" argument: invalid atoms specifier
> mmaker #1 to #6
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_5.pdb, chain A (#6) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1926.4
RMSD between 323 pruned atom pairs is 0.386 angstroms; (across all 360 pairs:
3.663)
> mmaker #1 to #6
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_5.pdb, chain A (#6) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1926.4
RMSD between 323 pruned atom pairs is 0.386 angstroms; (across all 360 pairs:
3.663)
> mmaker #1 to #7
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_4.pdb, chain A (#7) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1926.4
RMSD between 345 pruned atom pairs is 0.317 angstroms; (across all 360 pairs:
2.214)
> mmaker #1 to #8
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_3.pdb, chain A (#8) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1914.4
RMSD between 314 pruned atom pairs is 0.322 angstroms; (across all 360 pairs:
6.631)
> mmaker #1 to #9
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_24.pdb, chain A (#9) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1904.8
RMSD between 298 pruned atom pairs is 0.522 angstroms; (across all 360 pairs:
2.717)
> mmaker #1 to #10
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_23.pdb, chain A (#10) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1909
RMSD between 317 pruned atom pairs is 0.451 angstroms; (across all 360 pairs:
3.846)
> mmaker #1 to #11
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_22.pdb, chain A (#11) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1894.6
RMSD between 326 pruned atom pairs is 0.415 angstroms; (across all 360 pairs:
1.355)
> mmaker #1 to #12
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_21.pdb, chain A (#12) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1923.4
RMSD between 329 pruned atom pairs is 0.559 angstroms; (across all 360 pairs:
1.733)
> mmaker #1 to #13
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_20.pdb, chain A (#13) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1923.4
RMSD between 340 pruned atom pairs is 0.351 angstroms; (across all 360 pairs:
1.756)
> mmaker #1 to #14
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_2.pdb, chain A (#14) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1923.4
RMSD between 343 pruned atom pairs is 0.226 angstroms; (across all 360 pairs:
1.444)
> mmaker #1 to #15
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_19.pdb, chain A (#15) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1915.6
RMSD between 319 pruned atom pairs is 0.394 angstroms; (across all 360 pairs:
5.114)
> mmaker #1 to #1
Must use different reference and match structures
> mmaker #1 to #16
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_18.pdb, chain A (#16) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1903.6
RMSD between 320 pruned atom pairs is 0.390 angstroms; (across all 360 pairs:
3.278)
> mmaker #1 to #17
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_17.pdb, chain A (#17) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1906
RMSD between 325 pruned atom pairs is 0.428 angstroms; (across all 360 pairs:
2.417)
> mmaker #1 to #18
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_16.pdb, chain A (#18) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1897
RMSD between 321 pruned atom pairs is 0.354 angstroms; (across all 360 pairs:
4.933)
> mmaker #1 to #19
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_15.pdb, chain A (#19) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1915.6
RMSD between 321 pruned atom pairs is 0.323 angstroms; (across all 360 pairs:
4.504)
> mmaker #1 to #20
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_14.pdb, chain A (#20) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1913.2
RMSD between 319 pruned atom pairs is 0.359 angstroms; (across all 360 pairs:
4.517)
> mmaker #1 to #21
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_13.pdb, chain A (#21) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1883.8
RMSD between 319 pruned atom pairs is 0.345 angstroms; (across all 360 pairs:
1.966)
> mmaker #1 to #22
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_12.pdb, chain A (#22) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1923.4
RMSD between 336 pruned atom pairs is 0.417 angstroms; (across all 360 pairs:
1.903)
> mmaker #1 to #23
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_11.pdb, chain A (#23) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1909
RMSD between 334 pruned atom pairs is 0.417 angstroms; (across all 360 pairs:
3.133)
> mmaker #1 to #2
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_9.pdb, chain A (#2) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1926.4
RMSD between 317 pruned atom pairs is 0.327 angstroms; (across all 360 pairs:
5.415)
> mmaker #1 to #24
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_10.pdb, chain A (#24) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1901.2
RMSD between 322 pruned atom pairs is 0.392 angstroms; (across all 360 pairs:
2.381)
> mmaker #1 to #25
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_1.pdb, chain A (#25) with ranked_0.pdb, chain A (#1),
sequence alignment score = 1890.4
RMSD between 325 pruned atom pairs is 0.351 angstroms; (across all 360 pairs:
2.770)
> hide #25 models
> show #1 models
> show #2 models
> show #3 models
> show #4 models
> hide #4 models
> hide #3 models
> hide #2 models
> show #25 models
> hide #25 models
> show #2 models
> hide #2 models
> mmaker #2 to #
> matchmaker #2 to #
Invalid "to" argument: invalid atoms specifier
> mmaker #2 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_9.pdb, chain A (#2),
sequence alignment score = 1926.4
RMSD between 317 pruned atom pairs is 0.327 angstroms; (across all 360 pairs:
5.415)
> mmaker #3 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_8.pdb, chain A (#3),
sequence alignment score = 1900
RMSD between 314 pruned atom pairs is 0.342 angstroms; (across all 360 pairs:
3.801)
> mmaker #3 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_8.pdb, chain A (#3),
sequence alignment score = 1900
RMSD between 314 pruned atom pairs is 0.342 angstroms; (across all 360 pairs:
3.801)
> mmaker #4 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_7.pdb, chain A (#4),
sequence alignment score = 1923.4
RMSD between 343 pruned atom pairs is 0.175 angstroms; (across all 360 pairs:
2.581)
> mmaker #5 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_6.pdb, chain A (#5),
sequence alignment score = 1907.2
RMSD between 313 pruned atom pairs is 0.314 angstroms; (across all 360 pairs:
3.594)
> mmaker #6 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_5.pdb, chain A (#6),
sequence alignment score = 1926.4
RMSD between 323 pruned atom pairs is 0.386 angstroms; (across all 360 pairs:
3.663)
> mmaker #7 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_4.pdb, chain A (#7),
sequence alignment score = 1926.4
RMSD between 345 pruned atom pairs is 0.317 angstroms; (across all 360 pairs:
2.214)
> mmaker #8 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_3.pdb, chain A (#8),
sequence alignment score = 1914.4
RMSD between 314 pruned atom pairs is 0.322 angstroms; (across all 360 pairs:
6.631)
> mmaker #9 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_24.pdb, chain A (#9),
sequence alignment score = 1904.8
RMSD between 298 pruned atom pairs is 0.522 angstroms; (across all 360 pairs:
2.717)
> mmaker #10 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_23.pdb, chain A (#10),
sequence alignment score = 1909
RMSD between 317 pruned atom pairs is 0.451 angstroms; (across all 360 pairs:
3.846)
> mmaker #11 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_22.pdb, chain A (#11),
sequence alignment score = 1894.6
RMSD between 326 pruned atom pairs is 0.415 angstroms; (across all 360 pairs:
1.355)
> mmaker #12 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_21.pdb, chain A (#12),
sequence alignment score = 1923.4
RMSD between 329 pruned atom pairs is 0.559 angstroms; (across all 360 pairs:
1.733)
> mmaker #13 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_20.pdb, chain A (#13),
sequence alignment score = 1923.4
RMSD between 340 pruned atom pairs is 0.351 angstroms; (across all 360 pairs:
1.756)
> mmaker #14 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_2.pdb, chain A (#14),
sequence alignment score = 1923.4
RMSD between 343 pruned atom pairs is 0.226 angstroms; (across all 360 pairs:
1.444)
> mmaker #15to #1
> matchmaker #15to #1
Missing or invalid "matchAtoms" argument: only initial part "#15" of atom
specifier valid
> mmaker #15 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_19.pdb, chain A (#15),
sequence alignment score = 1915.6
RMSD between 319 pruned atom pairs is 0.394 angstroms; (across all 360 pairs:
5.114)
> mmaker #16 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_18.pdb, chain A (#16),
sequence alignment score = 1903.6
RMSD between 320 pruned atom pairs is 0.390 angstroms; (across all 360 pairs:
3.278)
> mmaker #17 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_17.pdb, chain A (#17),
sequence alignment score = 1906
RMSD between 325 pruned atom pairs is 0.428 angstroms; (across all 360 pairs:
2.417)
> mmaker #18 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_16.pdb, chain A (#18),
sequence alignment score = 1897
RMSD between 321 pruned atom pairs is 0.354 angstroms; (across all 360 pairs:
4.933)
> mmaker #19 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_15.pdb, chain A (#19),
sequence alignment score = 1915.6
RMSD between 321 pruned atom pairs is 0.323 angstroms; (across all 360 pairs:
4.504)
> mmaker #20 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_14.pdb, chain A (#20),
sequence alignment score = 1913.2
RMSD between 319 pruned atom pairs is 0.359 angstroms; (across all 360 pairs:
4.517)
> mmaker #21 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_13.pdb, chain A (#21),
sequence alignment score = 1883.8
RMSD between 319 pruned atom pairs is 0.345 angstroms; (across all 360 pairs:
1.966)
> mmaker #22 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_12.pdb, chain A (#22),
sequence alignment score = 1923.4
RMSD between 336 pruned atom pairs is 0.417 angstroms; (across all 360 pairs:
1.903)
> mmaker #23 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_11.pdb, chain A (#23),
sequence alignment score = 1909
RMSD between 334 pruned atom pairs is 0.417 angstroms; (across all 360 pairs:
3.133)
> mmaker #24 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_10.pdb, chain A (#24),
sequence alignment score = 1901.2
RMSD between 322 pruned atom pairs is 0.392 angstroms; (across all 360 pairs:
2.381)
> mmaker #25 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ranked_0.pdb, chain A (#1) with ranked_1.pdb, chain A (#25),
sequence alignment score = 1890.4
RMSD between 325 pruned atom pairs is 0.351 angstroms; (across all 360 pairs:
2.770)
> show #2 models
> show #3 models
> show #4 models
> show #5 models
> show #6 models
> show #7 models
> show #8 models
> show #9 models
> show #10 models
> show #11 models
> show #13 models
> show #14 models
> hide #13 models
> show #12 models
> show #13 models
> show #15 models
> show #16 models
> show #17 models
> show #18 models
> show #19 models
> show #20 models
> show #21 models
> show #22 models
> show #23 models
> show #24 models
> show #25 models
> save
> /Users/dawson/Workspace/SD/AF/2022-07-14_CCR2_CCl2_FDB_MM/AF2ou/CCR2_CCL2_multi/rank_25_mm.cxs
——— End of log from Mon Jul 18 11:51:41 2022 ———
opened ChimeraX session
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/ui/gui.py", line 284, in event
_open_dropped_file(self.session, event.file())
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/ui/gui.py", line 1945, in _open_dropped_file
run(session, 'open %s' % FileNameArg.unparse(path))
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 38, in run
results = command.run(text, log=log, return_json=return_json)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 118, in cmd_open
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 263, in provider_open
session.logger.status(status, log=status)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/logger.py", line 459, in status
StatusLogger.status(self, msg, **kw)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/logger.py", line 199, in status
if l.status(msg, color, secondary) and getattr(l, "excludes_other_logs",
True):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/ui/gui.py", line 910, in status
sbar.status(msg, color, secondary)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/ui/statusbar.py", line 150, in status
r.draw_background()
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/graphics/opengl.py", line 1168, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 58, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 58, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
An error occurred in drawing the scene. Redrawing graphics is now stopped to
avoid a continuous stream of error messages. To restart graphics use the
command "graphics restart" after changing the settings that caused the error.
GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/updateloop.py", line 73, in draw_new_frame
view.draw(check_for_changes = False)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/graphics/view.py", line 165, in draw
self._draw_scene(camera, drawings)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/graphics/view.py", line 215, in _draw_scene
camera.draw_background(vnum, r)
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/graphics/camera.py", line 184, in draw_background
render.draw_background()
File
"/Applications/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/graphics/opengl.py", line 1168, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 58, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL version: 4.1 ATI-4.8.54
OpenGL renderer: AMD Radeon RX Vega 56 OpenGL Engine
OpenGL vendor: ATI Technologies Inc.
Python: 3.9.11
Locale: UTF-8
Qt version: PyQt6 6.3.0, Qt 6.3.0
Qt runtime version: 6.3.0
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro14,2
Processor Name: Dual-Core Intel Core i7
Processor Speed: 3.5 GHz
Number of Processors: 1
Total Number of Cores: 2
L2 Cache (per Core): 256 KB
L3 Cache: 4 MB
Hyper-Threading Technology: Enabled
Memory: 16 GB
System Firmware Version: 451.120.7.0.0
OS Loader Version: 540.120.3~6
SMC Version (system): 2.44f6
Software:
System Software Overview:
System Version: macOS 12.4 (21F79)
Kernel Version: Darwin 21.5.0
Time since boot: 2:28
Graphics/Displays:
Intel Iris Plus Graphics 650:
Chipset Model: Intel Iris Plus Graphics 650
Type: GPU
Bus: Built-In
VRAM (Dynamic, Max): 1536 MB
Vendor: Intel
Device ID: 0x5927
Revision ID: 0x0006
Metal Family: Supported, Metal GPUFamily macOS 2
Displays:
Color LCD:
Display Type: Built-In Retina LCD
Resolution: 2560 x 1600 Retina
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
LG UltraFine:
Resolution: 4096 x 2304
UI Looks like: 2048 x 1152 @ 60.00Hz
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Display Serial Number: 806NTSU9V518
Mirror: Off
Online: Yes
Rotation: Supported
Automatically Adjust Brightness: Yes
Connection Type: Thunderbolt/DisplayPort
LG UltraFine:
Resolution: 5120 x 2880 (5K/UHD+ - Ultra High Definition Plus)
UI Looks like: 2560 x 1440
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Display Serial Number: 706NTZN4S701
Main Display: Yes
Mirror: Off
Online: Yes
Rotation: Supported
Automatically Adjust Brightness: Yes
Connection Type: Thunderbolt/DisplayPort
AMD Radeon RX Vega 56:
Chipset Model: AMD Radeon RX Vega 56
Type: External GPU
Bus: PCIe
PCIe Lane Width: x16
VRAM (Total): 8 GB
Vendor: AMD (0x1002)
Device ID: 0x687f
Revision ID: 0x00c3
Metal Family: Supported, Metal GPUFamily macOS 2
GPU is Removable: Yes
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
appnope: 0.1.3
Babel: 2.10.1
backcall: 0.2.0
blockdiag: 3.0.0
certifi: 2021.10.8
cftime: 1.6.0
charset-normalizer: 2.0.12
ChimeraX-AddCharge: 1.2.3
ChimeraX-AddH: 2.1.11
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2.1
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.4.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.39.1
ChimeraX-AtomicLibrary: 7.0
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.1
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.1.1
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.7
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.2
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.2.4
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.1
ChimeraX-CommandLine: 1.2.3
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.4
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.2
ChimeraX-Dicom: 1.1
ChimeraX-DistMonitor: 1.1.5
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.2
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.2
ChimeraX-Help: 1.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0
ChimeraX-Label: 1.1.1
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.5
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 2.0.6
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.7
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.5.5
ChimeraX-ModelPanel: 1.3.2
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.2
ChimeraX-OpenCommand: 1.9
ChimeraX-PDB: 2.6.6
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0.1
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.6
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.8
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.0.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.1
ChimeraX-ToolshedUtils: 1.2.1
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.18.3
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.1.2
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.1.0
ChimeraX-Zone: 1.0
colorama: 0.4.4
cxservices: 1.2
cycler: 0.11.0
Cython: 0.29.26
debugpy: 1.6.0
decorator: 5.1.1
docutils: 0.17.1
entrypoints: 0.4
filelock: 3.4.2
fonttools: 4.33.3
funcparserlib: 1.0.0
grako: 3.16.5
h5py: 3.7.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.27
imagecodecs: 2021.11.20
imagesize: 1.3.0
ipykernel: 6.6.1
ipython: 7.31.1
ipython-genutils: 0.2.0
jedi: 0.18.1
Jinja2: 3.0.3
jupyter-client: 7.1.0
jupyter-core: 4.10.0
kiwisolver: 1.4.2
line-profiler: 3.4.0
lxml: 4.7.1
lz4: 3.1.10
MarkupSafe: 2.1.1
matplotlib: 3.5.1
matplotlib-inline: 0.1.3
msgpack: 1.0.3
nest-asyncio: 1.5.5
netCDF4: 1.5.8
networkx: 2.6.3
numexpr: 2.8.1
numpy: 1.22.1
openvr: 1.16.802
packaging: 21.0
ParmEd: 3.4.3
parso: 0.8.3
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 9.0.1
pip: 21.3.1
pkginfo: 1.8.2
prompt-toolkit: 3.0.29
psutil: 5.9.0
ptyprocess: 0.7.0
pycollada: 0.7.2
pydicom: 2.2.2
Pygments: 2.11.2
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.9
PyQt6-commercial: 6.3.0
PyQt6-Qt6: 6.3.0
PyQt6-sip: 13.3.1
PyQt6-WebEngine-commercial: 6.3.0
PyQt6-WebEngine-Qt6: 6.3.0
python-dateutil: 2.8.2
pytz: 2022.1
pyzmq: 23.1.0
qtconsole: 5.3.0
QtPy: 2.1.0
RandomWords: 0.3.0
requests: 2.27.1
scipy: 1.7.3
setuptools: 59.8.0
sfftk-rw: 0.7.2
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
Sphinx: 4.3.2
sphinx-autodoc-typehints: 1.15.2
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
suds-community: 1.0.0
tables: 3.7.0
tifffile: 2021.11.2
tinyarray: 1.2.4
tornado: 6.1
traitlets: 5.1.1
urllib3: 1.26.9
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.1
wheel-filename: 1.3.0
Change History (2)
comment:1 by , 3 years ago
| Component: | Unassigned → Graphics |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → glClear: invalid framebuffer operation |
comment:2 by , 3 years ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | assigned → closed |
Note:
See TracTickets
for help on using tickets.
OpenGL error drawing status line. Reporter says they are using eGPU, and they have 3 displays. It appears that all 3 displays are being driven by the Intel graphics, with no displays on the eGPU. But ChimeraX reports the graphics driver as the AMD Radeon RX Vega 56 driver. So it is not surprising that OpenGL fails to render. Maybe the user had ChimeraX on a display hooked to the eGPU but reconfigured their displays. No reporter email.