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Opened 4 years ago
Last modified 4 years ago
#6493 accepted defect
Matchmaker: 'NoneType' object has no attribute 'setChecked'
| Reported by: | Owned by: | pett | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Structure Comparison | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: Windows-10-10.0.22000
ChimeraX Version: 1.4.dev202111051143 (2021-11-05 11:43:37 UTC)
Description
(Describe the actions that caused this problem to occur here)
Log:
UCSF ChimeraX version: 1.4.dev202111051143 (2021-11-05)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "C:/Users/Wayne/Desktop/AF2 advanced/CAV1 n-mer/Human CAV1 D1
> AF-Q03135-F1-model_v1.pdb"
Human CAV1 D1 AF-Q03135-F1-model_v1.pdb title:
Alphafold V2.0 prediction for caveolin-1 (Q03135) [more info...]
Chain information for Human CAV1 D1 AF-Q03135-F1-model_v1.pdb #1
---
Chain | Description | UniProt
A | caveolin-1 | CAV1_HUMAN
> open "C:/Users/Wayne/Desktop/AF2 advanced/CAV1
> n-mer/prediction_CAV12mer_67612/prediction_CAV12mer_67612/rank_1_model_2_ptm_seed_0_unrelaxed.pdb"
Chain information for rank_1_model_2_ptm_seed_0_unrelaxed.pdb #2
---
Chain | Description
A B | No description available
> open "C:/Users/Wayne/Desktop/AF2 advanced/CAV1
> n-mer/prediction_CAV13mer_e4bdc/prediction_CAV13mer_e4bdc/rank_1_model_2_ptm_seed_0_unrelaxed.pdb"
Chain information for rank_1_model_2_ptm_seed_0_unrelaxed.pdb #3
---
Chain | Description
A B C | No description available
> open "C:/Users/Wayne/Desktop/AF2 advanced/CAV1
> n-mer/prediction_CAV14mer_b8e9c/prediction_CAV14mer_b8e9c/rank_1_model_3_ptm_seed_0_unrelaxed.pdb"
Chain information for rank_1_model_3_ptm_seed_0_unrelaxed.pdb #4
---
Chain | Description
A B C D | No description available
> open "C:/Users/Wayne/Desktop/AF2 advanced/CAV1
> n-mer/prediction_CAV15mer_a8d84/prediction_CAV15mer_a8d84/rank_1_model_3_ptm_seed_0_unrelaxed.pdb"
Chain information for rank_1_model_3_ptm_seed_0_unrelaxed.pdb #5
---
Chain | Description
A B C D E | No description available
> show cartoons
> hide atoms
> open "C:/Users/Wayne/Desktop/AF2 advanced/CAV1
> n-mer/prediction_CAV16mer_c66b4/prediction_CAV16mer_c66b4/rank_1_model_4_ptm_seed_0_unrelaxed.pdb"
Chain information for rank_1_model_4_ptm_seed_0_unrelaxed.pdb #6
---
Chain | Description
A B C D E F | No description available
> show cartoons
> hide atoms
> open "C:/Users/Wayne/Desktop/AF2 advanced/CAV1
> n-mer/prediction_CAV17mer_0856b/prediction_CAV17mer_0856b/rank_2_model_3_ptm_seed_0_unrelaxed.pdb"
Chain information for rank_2_model_3_ptm_seed_0_unrelaxed.pdb #7
---
Chain | Description
A B C D E F G | No description available
> show cartoons
> hide atoms
> rainbow
> color bfactor palette alphafold
40517 atoms, 4984 residues, atom bfactor range 19.9 to 96.3
> ui tool show Matchmaker
> matchmaker #2-7 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 Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_1_model_2_ptm_seed_0_unrelaxed.pdb, chain A (#2), sequence alignment
score = 898.6
RMSD between 101 pruned atom pairs is 0.731 angstroms; (across all 178 pairs:
19.904)
Matchmaker Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_1_model_2_ptm_seed_0_unrelaxed.pdb, chain A (#3), sequence alignment
score = 884.2
RMSD between 94 pruned atom pairs is 0.899 angstroms; (across all 178 pairs:
16.853)
Matchmaker Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain D (#4), sequence alignment
score = 882.4
RMSD between 97 pruned atom pairs is 0.846 angstroms; (across all 178 pairs:
10.264)
Matchmaker Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain D (#5), sequence alignment
score = 884.8
RMSD between 86 pruned atom pairs is 1.001 angstroms; (across all 178 pairs:
8.308)
Matchmaker Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_1_model_4_ptm_seed_0_unrelaxed.pdb, chain F (#6), sequence alignment
score = 895.6
RMSD between 104 pruned atom pairs is 0.830 angstroms; (across all 178 pairs:
9.931)
Matchmaker Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_2_model_3_ptm_seed_0_unrelaxed.pdb, chain A (#7), sequence alignment
score = 875.2
RMSD between 25 pruned atom pairs is 0.959 angstroms; (across all 178 pairs:
14.576)
> set bgColor white
> hide #1 models
> show #1 models
> hide #7 models
> hide #6 models
> hide #5 models
> hide #4 models
> hide #3 models
> hide #2 models
> hide #1 models
> show #2 models
> show #1 models
> hide #2 models
> show #3 models
> show #2 models
> hide #3 models
> show #3 models
> show #4 models
> show #5 models
> hide #5 models
> show #5 models
> hide #5 models
> show #5 models
> hide #5 models
> show #5 models
> show #6 models
> hide #6 models
> hide #5 models
> show #6 models
> show #7 models
> hide #7 models
> show #7 models
> hide #7 models
> show #7 models
> hide #7 models
> show #7 models
> hide #7 models
> hide #6 models
> show #5 models
> hide #5 models
> show #5 models
> hide #5 models
> show #5 models
> hide #5 models
> show #5 models
> hide #5 models
> show #5 models
> hide #5 models
> show #5 models
> show #6 models
> show #7 models
> ui tool show Matchmaker
No reference and/or match structure/chain chosen
[Repeated 1 time(s)]
> matchmaker #2/A#1/A#1/A#1/A#1/A to #1/A#2/A#3/A#4/A#5/A pairing ss
Different number of reference/match chains (3 ref, 2 match)
> matchmaker #2/A#1/A#1/A#1/A#1/A#1/A#1/A to #1/A#2/A#3/A#4/A#5/A#6/A#7/A
> pairing ss
Different number of reference/match chains (5 ref, 2 match)
> ui tool show Matchmaker
No reference and/or match structure/chain chosen
> matchmaker #5/A to #1/A pairing ss
Parameters
---
Chain pairing | ss
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 Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain A (#5), sequence alignment
score = 881.2
RMSD between 104 pruned atom pairs is 0.940 angstroms; (across all 178 pairs:
9.079)
> hide #7 models
> hide #6 models
> hide #5 models
> hide #4 models
> hide #3 models
> hide #2 models
> save "C:/Users/Wayne/Desktop/For Human CAV1 animation 20220329/1-mer.tif"
> width 9000 height 5544 supersample 3
> hide #1 models
> show #2 models
> save "C:/Users/Wayne/Desktop/For Human CAV1 animation 20220329/2-mer.tif"
> width 9000 height 5544 supersample 3
> hide #2 models
> show #2 models
> hide #2 models
> show #3 models
> save "C:/Users/Wayne/Desktop/For Human CAV1 animation 20220329/3-mer.tif"
> width 9000 height 5544 supersample 3
> show #4 models
> hide #3 models
> save "C:/Users/Wayne/Desktop/For Human CAV1 animation 20220329/4-mer.tif"
> width 9000 height 5544 supersample 3
> hide #4 models
> show #5 models
> save "C:/Users/Wayne/Desktop/For Human CAV1 animation 20220329/5-mer.tif"
> width 9000 height 5544 supersample 3
> hide #5 models
> show #6 models
> save "C:/Users/Wayne/Desktop/For Human CAV1 animation 20220329/6-mer.tif"
> width 9000 height 5544 supersample 3
> hide #6 models
> show #7 models
> save "C:/Users/Wayne/Desktop/For Human CAV1 animation 20220329/7-mer.tif"
> width 9000 height 5544 supersample 3
> ui tool show Matchmaker
> show #5 models
> hide #7 models
> show #1 models
> matchmaker #1/A to #5/A pairing ss
Parameters
---
Chain pairing | ss
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 rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain A (#5) with Human
CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1), sequence alignment score =
881.2
RMSD between 104 pruned atom pairs is 0.940 angstroms; (across all 178 pairs:
9.079)
> matchmaker #2/A to #5/A pairing ss
Parameters
---
Chain pairing | ss
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 rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain A (#5) with
rank_1_model_2_ptm_seed_0_unrelaxed.pdb, chain A (#2), sequence alignment
score = 909.4
RMSD between 106 pruned atom pairs is 0.813 angstroms; (across all 178 pairs:
15.345)
> show #2 models
> matchmaker #1/A to #5/E pairing ss
Parameters
---
Chain pairing | ss
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 rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain E (#5) with Human
CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1), sequence alignment score =
881.2
RMSD between 90 pruned atom pairs is 0.905 angstroms; (across all 178 pairs:
10.094)
> show #4 models
> show #3 models
> show #6 models
> show #7 models
> hide #7 models
> hide #6 models
> hide #5 models
> hide #4 models
> hide #3 models
> hide #2 models
> hide #1 models
> show #1 models
> hide #1 models
> show #1 models
> show #2 models
> hide #1 models
> hide #2 models
> show #1 models
> show #2 models
> show #3 models
> show #4 models
> show #5 models
> show #6 models
> show #7 models
> ui tool show Matchmaker
> matchmaker #2-7 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 Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_1_model_2_ptm_seed_0_unrelaxed.pdb, chain A (#2), sequence alignment
score = 898.6
RMSD between 101 pruned atom pairs is 0.731 angstroms; (across all 178 pairs:
19.904)
Matchmaker Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_1_model_2_ptm_seed_0_unrelaxed.pdb, chain A (#3), sequence alignment
score = 884.2
RMSD between 94 pruned atom pairs is 0.899 angstroms; (across all 178 pairs:
16.853)
Matchmaker Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain D (#4), sequence alignment
score = 882.4
RMSD between 97 pruned atom pairs is 0.846 angstroms; (across all 178 pairs:
10.264)
Matchmaker Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain D (#5), sequence alignment
score = 884.8
RMSD between 86 pruned atom pairs is 1.001 angstroms; (across all 178 pairs:
8.308)
Matchmaker Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_1_model_4_ptm_seed_0_unrelaxed.pdb, chain F (#6), sequence alignment
score = 895.6
RMSD between 104 pruned atom pairs is 0.830 angstroms; (across all 178 pairs:
9.931)
Matchmaker Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_2_model_3_ptm_seed_0_unrelaxed.pdb, chain A (#7), sequence alignment
score = 875.2
RMSD between 25 pruned atom pairs is 0.959 angstroms; (across all 178 pairs:
14.576)
> hide #7 models
> hide #6 models
> hide #5 models
> hide #4 models
> hide #3 models
> hide #2 models
> hide #1 models
> show #1 models
> show #2 models
> hide #2 models
> show #3 models
> hide #3 models
> show #4 models
> hide #4 models
> show #5 models
> ui tool show Matchmaker
> matchmaker #5 to #1/A pairing bs
Parameters
---
Chain pairing | bs
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 Human CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1) with
rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain D (#5), sequence alignment
score = 884.8
RMSD between 86 pruned atom pairs is 1.001 angstroms; (across all 178 pairs:
8.308)
> matchmaker #1-4,6-7 to #5/E pairing bs
Parameters
---
Chain pairing | bs
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 rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain E (#5) with Human
CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1), sequence alignment score =
881.2
RMSD between 90 pruned atom pairs is 0.905 angstroms; (across all 178 pairs:
10.094)
Matchmaker rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain E (#5) with
rank_1_model_2_ptm_seed_0_unrelaxed.pdb, chain B (#2), sequence alignment
score = 944.8
RMSD between 105 pruned atom pairs is 0.957 angstroms; (across all 178 pairs:
15.443)
Matchmaker rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain E (#5) with
rank_1_model_2_ptm_seed_0_unrelaxed.pdb, chain B (#3), sequence alignment
score = 928.6
RMSD between 122 pruned atom pairs is 0.770 angstroms; (across all 178 pairs:
9.109)
Matchmaker rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain E (#5) with
rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain A (#4), sequence alignment
score = 934
RMSD between 133 pruned atom pairs is 0.572 angstroms; (across all 178 pairs:
6.658)
Matchmaker rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain E (#5) with
rank_1_model_4_ptm_seed_0_unrelaxed.pdb, chain B (#6), sequence alignment
score = 920.8
RMSD between 129 pruned atom pairs is 0.566 angstroms; (across all 178 pairs:
8.975)
Matchmaker rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain E (#5) with
rank_2_model_3_ptm_seed_0_unrelaxed.pdb, chain A (#7), sequence alignment
score = 932.2
RMSD between 49 pruned atom pairs is 1.220 angstroms; (across all 178 pairs:
7.894)
> matchmaker #1 to #5/E pairing bs
Parameters
---
Chain pairing | bs
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 rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain E (#5) with Human
CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1), sequence alignment score =
881.2
RMSD between 90 pruned atom pairs is 0.905 angstroms; (across all 178 pairs:
10.094)
> matchmaker #1/A to #5/A pairing ss
Parameters
---
Chain pairing | ss
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 rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain A (#5) with Human
CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1), sequence alignment score =
881.2
RMSD between 104 pruned atom pairs is 0.940 angstroms; (across all 178 pairs:
9.079)
> hide #5 models
> hide #1 models
> show #1 models
> show #5 models
> hide #1 models
> hide #5 models
> show #1 models
> show #2 models
> hide #2 models
> show #5 models
> matchmaker #1/A to #5/E pairing ss
Parameters
---
Chain pairing | ss
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 rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain E (#5) with Human
CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1), sequence alignment score =
881.2
RMSD between 90 pruned atom pairs is 0.905 angstroms; (across all 178 pairs:
10.094)
No reference and/or match structure/chain chosen
> matchmaker #1/A to #5/D pairing ss
Parameters
---
Chain pairing | ss
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 rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain D (#5) with Human
CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1), sequence alignment score =
884.8
RMSD between 86 pruned atom pairs is 1.001 angstroms; (across all 178 pairs:
8.308)
> show #2 models
> show #3 models
> hide #3 models
> show #3 models
> show #4 models
> show #6 models
> show #7 models
> hide #7 models
> hide #6 models
> hide #5 models
> hide #4 models
> hide #3 models
> hide #2 models
> hide #1 models
> show #1 models
> show #2 models
> hide #2 models
> show #2 models
> ui tool show Matchmaker
> matchmaker #1/A to #2/B pairing ss
Parameters
---
Chain pairing | ss
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 rank_1_model_2_ptm_seed_0_unrelaxed.pdb, chain B (#2) with Human
CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1), sequence alignment score =
881.2
RMSD between 112 pruned atom pairs is 0.920 angstroms; (across all 178 pairs:
15.322)
> matchmaker #1/A to #2/B pairing ss
Parameters
---
Chain pairing | ss
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 rank_1_model_2_ptm_seed_0_unrelaxed.pdb, chain B (#2) with Human
CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1), sequence alignment score =
881.2
RMSD between 112 pruned atom pairs is 0.920 angstroms; (across all 178 pairs:
15.322)
> matchmaker #1/A to #5/D pairing ss
Parameters
---
Chain pairing | ss
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 rank_1_model_3_ptm_seed_0_unrelaxed.pdb, chain D (#5) with Human
CAV1 D1 AF-Q03135-F1-model_v1.pdb, chain A (#1), sequence alignment score =
884.8
RMSD between 86 pruned atom pairs is 1.001 angstroms; (across all 178 pairs:
8.308)
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> show #3 models
> hide #3 models
> show #4 models
> hide #4 models
> show #5 models
> hide #5 models
> hide #2 models
> show #2 models
> show #3 models
> show #4 models
> show #5 models
> show #6 models
> show #7 models
> ui tool show Matchmaker
> matchmaker #2/A#1/A#1/A#1/A#1/A#1/A#1/A to #1/A#2/A#3/A#4/A#5/D#6/A#7/A
> pairing ss
Different number of reference/match chains (5 ref, 2 match)
> matchmaker #2/A#1/A#1/A#1/A#1/A#1/A#1/A & sel to
> #1/A#2/A#3/A#4/A#5/D#6/A#7/A & sel pairing ss
No 'to' chains specified
> ui tool show Matchmaker
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.4.dev202111051143\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.4.dev202111051143\bin\lib\site-
packages\chimerax\ui\options\options.py", line 50, in <lambda>
data[0] == pself.attr_name and setattr(pself, "value", pself.get_attribute()))
File "C:\Program Files\ChimeraX 1.4.dev202111051143\bin\lib\site-
packages\chimerax\ui\options\options.py", line 339, in set_value
self.__button_group.button(self.values.index(value)).setChecked(True)
AttributeError: 'NoneType' object has no attribute 'setChecked'
Error processing trigger "setting changed":
AttributeError: 'NoneType' object has no attribute 'setChecked'
File "C:\Program Files\ChimeraX 1.4.dev202111051143\bin\lib\site-
packages\chimerax\ui\options\options.py", line 339, in set_value
self.__button_group.button(self.values.index(value)).setChecked(True)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.4.dev202111051143\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.4.dev202111051143\bin\lib\site-
packages\chimerax\ui\options\options.py", line 50, in <lambda>
data[0] == pself.attr_name and setattr(pself, "value", pself.get_attribute()))
File "C:\Program Files\ChimeraX 1.4.dev202111051143\bin\lib\site-
packages\chimerax\ui\options\options.py", line 339, in set_value
self.__button_group.button(self.values.index(value)).setChecked(True)
AttributeError: 'NoneType' object has no attribute 'setChecked'
Error processing trigger "setting changed":
AttributeError: 'NoneType' object has no attribute 'setChecked'
File "C:\Program Files\ChimeraX 1.4.dev202111051143\bin\lib\site-
packages\chimerax\ui\options\options.py", line 339, in set_value
self.__button_group.button(self.values.index(value)).setChecked(True)
See log for complete Python traceback.
OpenGL version: 3.3.0 NVIDIA 471.41
OpenGL renderer: NVIDIA GeForce MX330/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: Dell Inc.
Model: Inspiron 7700 AIO
OS: Microsoft Windows 11 Home (Build 22000)
Memory: 16,793,460,736
MaxProcessMemory: 137,438,953,344
CPU: 8 11th Gen Intel(R) Core(TM) i7-1165G7 @ 2.80GHz
OSLanguage: en-US
Locale: ('en_US', 'cp1252')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
Babel: 2.9.1
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2021.10.8
cftime: 1.5.1.1
charset-normalizer: 2.0.7
ChimeraX-AddCharge: 1.1.5
ChimeraX-AddH: 2.1.10
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.2.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.31
ChimeraX-AtomicLibrary: 4.1.7
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.1
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.0
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.6
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.2
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.2.2
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5
ChimeraX-CommandLine: 1.1.5
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.4.dev202111051143
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.1
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.2
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1.5
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.2
ChimeraX-Help: 1.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0
ChimeraX-Label: 1.1
ChimeraX-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: 2.0.3
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.4
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.3.2
ChimeraX-ModelPanel: 1.2.1
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.2
ChimeraX-OpenCommand: 1.8
ChimeraX-PDB: 2.6.5
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.4.6
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.6
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1
ChimeraX-ToolshedUtils: 1.2
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.14
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.0.1
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.4
comtypes: 1.1.10
cxservices: 1.1
cycler: 0.11.0
Cython: 0.29.24
decorator: 5.1.0
docutils: 0.17.1
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 3.5.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.21
imagecodecs: 2021.4.28
imagesize: 1.2.0
ipykernel: 5.5.5
ipython: 7.23.1
ipython-genutils: 0.2.0
jedi: 0.18.0
Jinja2: 3.0.1
jupyter-client: 6.1.12
jupyter-core: 4.9.1
kiwisolver: 1.3.2
lxml: 4.6.3
lz4: 3.1.3
MarkupSafe: 2.0.1
matplotlib: 3.4.3
matplotlib-inline: 0.1.3
msgpack: 1.0.2
netCDF4: 1.5.7
networkx: 2.6.3
numexpr: 2.7.3
numpy: 1.21.2
openvr: 1.16.801
packaging: 21.2
ParmEd: 3.2.0
parso: 0.8.2
pickleshare: 0.7.5
Pillow: 8.3.2
pip: 21.2.4
pkginfo: 1.7.1
prompt-toolkit: 3.0.22
psutil: 5.8.0
pycollada: 0.7.1
pydicom: 2.1.2
Pygments: 2.10.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 2.4.7
PyQt5-commercial: 5.15.2
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.2
python-dateutil: 2.8.2
pytz: 2021.3
pywin32: 228
pyzmq: 22.3.0
qtconsole: 5.1.1
QtPy: 1.11.2
RandomWords: 0.3.0
requests: 2.26.0
scipy: 1.7.1
setuptools: 57.5.0
sfftk-rw: 0.7.1
six: 1.16.0
snowballstemmer: 2.1.0
sortedcontainers: 2.4.0
Sphinx: 4.2.0
sphinx-autodoc-typehints: 1.12.0
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
suds-jurko: 0.6
tables: 3.6.1
tifffile: 2021.4.8
tinyarray: 1.2.3
tornado: 6.1
traitlets: 5.1.1
urllib3: 1.26.7
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.0
wheel-filename: 1.3.0
WMI: 1.5.1
Change History (2)
comment:1 by , 4 years ago
| Component: | Unassigned → Structure Comparison |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Matchmaker: 'NoneType' object has no attribute 'setChecked' |
comment:2 by , 4 years ago
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"Duplicate" of #5207, but actually finally fixed by https://github.com/RBVI/ChimeraX/commit/47a3352241395888390f4629f636d2810e02ba84