Unable to open file for writing PDB

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.19041
ChimeraX Version: 1.2.5 (2021-05-24 04:13:57 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
UCSF ChimeraX version: 1.2.5 (2021-05-24)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open "G:/My Drive/# DrivWork@Mahidol_2020/My SC lab students/Bee
> Wichuda/Endolysin manuscript/Others/CD1650CBDonly.cxs"

Log from Mon Sep 20 09:53:20 2021UCSF ChimeraX version: 1.2.5 (2021-05-24)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open "C:\Users\SC\Downloads\Superimpose CBD from different model tools
> (1).cxs" format session

Log from Sun Sep 5 23:26:28 2021UCSF ChimeraX version: 1.2.5 (2021-05-24)  
© 2016-2021 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "/Users/wichuda/Downloads/CD16:50L CBD Hhpred.pdb"

Chain information for CD16:50L CBD Hhpred.pdb #1  
---  
Chain | Description  
X | No description available  
  

> open "/Users/wichuda/Library/Containers/com.apple.mail/Data/Library/Mail
> Downloads/DB935D33-5A41-462C-80F2-730C24C78284/model_1_unrelaxed.pdb"

Chain information for model_1_unrelaxed.pdb #2  
---  
Chain | Description  
A | No description available  
  

> ui tool show Matchmaker

> matchmaker #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 CD16:50L CBD Hhpred.pdb, chain X (#1) with model_1_unrelaxed.pdb,
chain A (#2), sequence alignment score = 445.2  
RMSD between 76 pruned atom pairs is 0.732 angstroms; (across all 88 pairs:
2.502)  
  

> open "/Volumes/GoogleDrive/My Drive/phage/Endolysin/Chrimera/CD16:50L CBD
> head on.pdb"

CD16:50L CBD head on.pdb title:  
SWISS-MODEL SERVER (https://swissmodel.expasy.org) Untitled Project [more
info...]  
  
Chain information for CD16:50L CBD head on.pdb #3  
---  
Chain | Description  
A B | No description available  
  

> ui tool show Matchmaker

> matchmaker #2-3 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 CD16:50L CBD Hhpred.pdb, chain X (#1) with model_1_unrelaxed.pdb,
chain A (#2), sequence alignment score = 445.2  
RMSD between 76 pruned atom pairs is 0.732 angstroms; (across all 88 pairs:
2.502)  
  
Matchmaker CD16:50L CBD Hhpred.pdb, chain X (#1) with CD16:50L CBD head
on.pdb, chain A (#3), sequence alignment score = 436.8  
RMSD between 78 pruned atom pairs is 0.474 angstroms; (across all 88 pairs:
1.576)  
  

> save "/Volumes/GoogleDrive/My Drive/phage/Endolysin/Chrimera/Superimpose CBD
> from different model tools.cxs"

——— End of log from Sun Sep 5 23:26:28 2021 ———

opened ChimeraX session  

> hide #3 models

> hide #2 models

> select /X:257

Nothing selected  

> select #1/X:257

Nothing selected  

> select #1/X:37

9 atoms, 8 bonds, 1 residue, 1 model selected  

> ui tool show "Show Sequence Viewer"

> sequence chain #1/X

Alignment identifier is 1/X  

> select #1/X:78

14 atoms, 15 bonds, 1 residue, 1 model selected  

> select #1/X:78

14 atoms, 15 bonds, 1 residue, 1 model selected  

> select #1/X:39

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:39

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:48

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:48

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:39

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:39

12 atoms, 12 bonds, 1 residue, 1 model selected  

> show #2 models

> hide #2 models

> show #3 models

> select #1/X:257

Nothing selected  

> select #1/X:37

9 atoms, 8 bonds, 1 residue, 1 model selected  

> ui tool show "Show Sequence Viewer"

> sequence chain #1/X

Alignment identifier is 1/X  

> select #1/X:78

14 atoms, 15 bonds, 1 residue, 1 model selected  

> select #1/X:78

14 atoms, 15 bonds, 1 residue, 1 model selected  

> show sel atoms

> select #1/X:74

4 atoms, 3 bonds, 1 residue, 1 model selected  

> select #1/X:73-74

16 atoms, 16 bonds, 2 residues, 1 model selected  

> select #1/X:47-48

20 atoms, 20 bonds, 2 residues, 1 model selected  

> select #1/X:47-48

20 atoms, 20 bonds, 2 residues, 1 model selected  

> select #1/X:38-39

20 atoms, 20 bonds, 2 residues, 1 model selected  

> select #1/X:38-39

20 atoms, 20 bonds, 2 residues, 1 model selected  

> select #1/X:24

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:24

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:23

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:23

12 atoms, 12 bonds, 1 residue, 1 model selected  

> show sel atoms

> select #1/X:24

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:24

12 atoms, 12 bonds, 1 residue, 1 model selected  

> show sel atoms

> select #1/X:9

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:9

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:3-4

21 atoms, 21 bonds, 2 residues, 1 model selected  

> select #1/X:3

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:9

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:9

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:23-24

24 atoms, 25 bonds, 2 residues, 1 model selected  

> select #1/X:23-24

24 atoms, 25 bonds, 2 residues, 1 model selected  

> select #1/X:39

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:39

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:31

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:31

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:39

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1/X:39-48

93 atoms, 96 bonds, 10 residues, 1 model selected  

> select #1/X:52

4 atoms, 3 bonds, 1 residue, 1 model selected  

> select #1/X:52

4 atoms, 3 bonds, 1 residue, 1 model selected  

> select #1/X:54

7 atoms, 6 bonds, 1 residue, 1 model selected  

> select #1/X:54-59

47 atoms, 46 bonds, 6 residues, 1 model selected  

> select #1/X:65

7 atoms, 6 bonds, 1 residue, 1 model selected  

> select #1/X:65-69

40 atoms, 40 bonds, 5 residues, 1 model selected  

> select #1/X:70-71

16 atoms, 15 bonds, 2 residues, 1 model selected  

> select #1/X:70-74

40 atoms, 40 bonds, 5 residues, 1 model selected  

> select #1/X:85

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1/X:78-85

65 atoms, 66 bonds, 8 residues, 1 model selected  

> select #1/X:90

10 atoms, 9 bonds, 1 residue, 1 model selected  

> select #1/X:86-90

46 atoms, 46 bonds, 5 residues, 1 model selected  

> select #1/X:11

4 atoms, 3 bonds, 1 residue, 1 model selected  

> select #1/X:11-16

42 atoms, 41 bonds, 6 residues, 1 model selected  

> select #1/X:19

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1/X:19-21

20 atoms, 19 bonds, 3 residues, 1 model selected  

> select #1/X:18-19

16 atoms, 15 bonds, 2 residues, 1 model selected  

> select #1/X:18-19

16 atoms, 15 bonds, 2 residues, 1 model selected  

> select #1/X:20-21

12 atoms, 11 bonds, 2 residues, 1 model selected  

> select #1/X:20-22

20 atoms, 19 bonds, 3 residues, 1 model selected  

> select #1/X:15

7 atoms, 6 bonds, 1 residue, 1 model selected  

> select #1/X:15-16

13 atoms, 12 bonds, 2 residues, 1 model selected  

> select #1/X:14

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select #1/X:14-18

35 atoms, 34 bonds, 5 residues, 1 model selected  

> ui tool show "Show Sequence Viewer"

> sequence chain #2/A #3/A #3/B

Alignment identifier is 1  

> select #2/A:72-89 #3/A-B:73-90

449 atoms, 458 bonds, 54 residues, 2 models selected  

> select #2/A:72-89 #3/A-B:73-90

449 atoms, 458 bonds, 54 residues, 2 models selected  

> select #2/A:77 #3/A-B:78

42 atoms, 45 bonds, 3 residues, 2 models selected  

> select #2/A:77-89 #3/A-B:78-90

332 atoms, 338 bonds, 39 residues, 2 models selected  

> select #2/A:77 #3/A-B:78

42 atoms, 45 bonds, 3 residues, 2 models selected  

> select #2/A:77 #3/A-B:78

42 atoms, 45 bonds, 3 residues, 2 models selected  

> show sel & #3 atoms

> select #2/A:38 #3/A-B:39

36 atoms, 36 bonds, 3 residues, 2 models selected  

> select #2/A:38 #3/A-B:39

36 atoms, 36 bonds, 3 residues, 2 models selected  

> select #2/A:30 #3/A-B:31

36 atoms, 36 bonds, 3 residues, 2 models selected  

> select #2/A:30 #3/A-B:31

36 atoms, 36 bonds, 3 residues, 2 models selected  

> select #2/A:22 #3/A-B:23

36 atoms, 36 bonds, 3 residues, 2 models selected  

> select #2/A:22-23 #3/A-B:23-24

72 atoms, 75 bonds, 6 residues, 2 models selected  

> show sel & #3 atoms

> hide #1 models

> select #2/A:22 #3/A-B:23

36 atoms, 36 bonds, 3 residues, 2 models selected  

> select #2/A:22 #3/A-B:23

36 atoms, 36 bonds, 3 residues, 2 models selected  

> hide sel & #3 atoms

> select #2/A:23 #3/A-B:24

36 atoms, 36 bonds, 3 residues, 2 models selected  

> select #2/A:23 #3/A-B:24

36 atoms, 36 bonds, 3 residues, 2 models selected  

> hide sel & #3 atoms

> select #2/A:22 #3/A-B:23

36 atoms, 36 bonds, 3 residues, 2 models selected  

> select #2/A:22 #3/A-B:23

36 atoms, 36 bonds, 3 residues, 2 models selected  

> show sel & #3 atoms

> select #1/X

721 atoms, 735 bonds, 88 residues, 1 model selected  

> select #3/A

732 atoms, 746 bonds, 89 residues, 1 model selected  

> mlp sel

Map values for surface "CD16:50L CBD head on.pdb_A SES surface": minimum
-24.05, mean -4.069, maximum 21.7  
To also show corresponding color key, enter the above mlp command and add key
true  

> mlp sel

Map values for surface "CD16:50L CBD head on.pdb_A SES surface": minimum
-24.05, mean -4.069, maximum 21.7  
To also show corresponding color key, enter the above mlp command and add key
true  

> hide sel surfaces

> mlp sel

Map values for surface "CD16:50L CBD head on.pdb_A SES surface": minimum
-24.05, mean -4.069, maximum 21.7  
To also show corresponding color key, enter the above mlp command and add key
true  

> color bfactor sel

732 atoms, 89 residues, 1 surfaces, atom bfactor range 0.34 to 0.86  

> mlp sel

Map values for surface "CD16:50L CBD head on.pdb_A SES surface": minimum
-24.05, mean -4.069, maximum 21.7  
To also show corresponding color key, enter the above mlp command and add key
true  

> coulombic sel

Using Amber 20 recommended default charges and atom types for standard
residues  
Coulombic values for CD16:50L CBD head on.pdb_A SES surface #3.1: minimum,
-15.23, mean -0.05, maximum 15.90  
To also show corresponding color key, enter the above coulombic command and
add key true  

> coulombic sel

Coulombic values for CD16:50L CBD head on.pdb_A SES surface #3.1: minimum,
-15.23, mean -0.05, maximum 15.90  
To also show corresponding color key, enter the above coulombic command and
add key true  

> mlp sel

Map values for surface "CD16:50L CBD head on.pdb_A SES surface": minimum
-24.05, mean -4.069, maximum 21.7  
To also show corresponding color key, enter the above mlp command and add key
true  

> color sel byhetero

> rainbow sel

> color sel bychain

> mlp sel

Map values for surface "CD16:50L CBD head on.pdb_A SES surface": minimum
-24.05, mean -4.069, maximum 21.7  
To also show corresponding color key, enter the above mlp command and add key
true  

> ui tool show "Show Sequence Viewer"

> sequence chain #1/X

Alignment identifier is 1/X  

> select #1/X:11-23,36-38,52-59,61-63,77-88

300 atoms, 299 bonds, 39 residues, 1 model selected  

> select #3/A

732 atoms, 746 bonds, 89 residues, 1 model selected  

> hide sel surfaces

> select #1/X:5-9,33-35,46-50,70-72

133 atoms, 132 bonds, 16 residues, 1 model selected  

> select #1/X:3-5

31 atoms, 32 bonds, 3 residues, 1 model selected  

> select #1/X:3-9

65 atoms, 67 bonds, 7 residues, 1 model selected  

> select #1/X:3-4

21 atoms, 21 bonds, 2 residues, 1 model selected  

> select #1/X:3-7

46 atoms, 47 bonds, 5 residues, 1 model selected  

> select #1/X:11-12

12 atoms, 11 bonds, 2 residues, 1 model selected  

> select #1/X:11-12

12 atoms, 11 bonds, 2 residues, 1 model selected  

> select #1/X:12-15

32 atoms, 31 bonds, 4 residues, 1 model selected  

> select #1/X:12-17

43 atoms, 42 bonds, 6 residues, 1 model selected  

> select #1/X:21

4 atoms, 3 bonds, 1 residue, 1 model selected  

> select #1/X:21-44

212 atoms, 217 bonds, 24 residues, 1 model selected  

> select #1/X:21-22

12 atoms, 11 bonds, 2 residues, 1 model selected  

> select #1/X:21-25

45 atoms, 46 bonds, 5 residues, 1 model selected  

> select #1/X:71

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select #1/X:18-71

445 atoms, 452 bonds, 54 residues, 1 model selected  

> select #3/A

732 atoms, 746 bonds, 89 residues, 1 model selected  

> select #3/A:39

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #3/A:36

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #3/A:37

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select #1/X:18

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1/X:18-19

16 atoms, 15 bonds, 2 residues, 1 model selected  

> ui tool show "Show Sequence Viewer"

> sequence chain #2/A #3/A #3/B

Alignment identifier is 1  

> select #2/A:10-11 #3/A-B:11-12

36 atoms, 33 bonds, 6 residues, 2 models selected  

> select #2/A:10-14 #3/A-B:11-15

108 atoms, 105 bonds, 15 residues, 2 models selected  

> select #2/A:14 #3/A-B:15

21 atoms, 18 bonds, 3 residues, 2 models selected  

> select #2/A:14 #3/A-B:15

21 atoms, 18 bonds, 3 residues, 2 models selected  

> select #2/A:1 #3/A-B:2

33 atoms, 30 bonds, 3 residues, 2 models selected  

> select #2/A:1-8 #3/A-B:2-9

228 atoms, 234 bonds, 24 residues, 2 models selected  

> select #2/A:9-10 #3/A-B:10-11

30 atoms, 27 bonds, 6 residues, 2 models selected  

> select #2/A:9-14 #3/A-B:10-15

126 atoms, 123 bonds, 18 residues, 2 models selected  

> select #2/A:14 #3/A-B:15

21 atoms, 18 bonds, 3 residues, 2 models selected  

> select #2/A:14 #3/A-B:15

21 atoms, 18 bonds, 3 residues, 2 models selected  

> show sel & #!3 atoms

> select #2/A:16 #3/A-B:17

15 atoms, 12 bonds, 3 residues, 2 models selected  

> select #2/A:16 #3/A-B:17

15 atoms, 12 bonds, 3 residues, 2 models selected  

> select #2/A:18 #3/A-B:19

24 atoms, 21 bonds, 3 residues, 2 models selected  

> select #2/A:18 #3/A-B:19

24 atoms, 21 bonds, 3 residues, 2 models selected  

> show sel & #!3 atoms

> select #2/A:20 #3/A-B:21

12 atoms, 9 bonds, 3 residues, 2 models selected  

> select #2/A:20 #3/A-B:21

12 atoms, 9 bonds, 3 residues, 2 models selected  

> select #2/A:21 #3/A-B:22

24 atoms, 21 bonds, 3 residues, 2 models selected  

> select #2/A:21 #3/A-B:22

24 atoms, 21 bonds, 3 residues, 2 models selected  

> show sel & #!3 atoms

> select #2/A:22-23 #3/A-B:23-24

72 atoms, 75 bonds, 6 residues, 2 models selected  

> select #2/A:22-23 #3/A-B:23-24

72 atoms, 75 bonds, 6 residues, 2 models selected  

> select #2/A:10-25,27-29,35-37,51-64,76-88
> #3/A-B:11-26,28-30,36-38,52-65,77-89

1164 atoms, 1164 bonds, 147 residues, 2 models selected  

> select #2/A:1-2 #3/A-B:2-3

69 atoms, 69 bonds, 6 residues, 2 models selected  

> select #2/A:2-27 #3/A-B:3-28

648 atoms, 660 bonds, 78 residues, 2 models selected  

> select #2/A:10-25,27-29,35-37,51-64,76-88
> #3/A-B:11-26,28-30,36-38,52-65,77-89

1164 atoms, 1164 bonds, 147 residues, 2 models selected  

> select #2/A:4-8,30-34,45-49,69-71 #3/A-B:5-9,31-35,46-50,70-72

459 atoms, 459 bonds, 54 residues, 2 models selected  

> select #2/A:10-25,27-29,35-37,51-64,76-88
> #3/A-B:11-26,28-30,36-38,52-65,77-89

1164 atoms, 1164 bonds, 147 residues, 2 models selected  

> select #2/A:38 #3/A-B:39

36 atoms, 36 bonds, 3 residues, 2 models selected  

> select #2/A:38-44 #3/A-B:39-45

195 atoms, 201 bonds, 21 residues, 2 models selected  

> select #2/A:34 #3/A-B:35

24 atoms, 21 bonds, 3 residues, 2 models selected  

> select #2/A:34-38 #3/A-B:35-39

135 atoms, 135 bonds, 15 residues, 2 models selected  

> select #2/A:44 #3/A-B:45

27 atoms, 24 bonds, 3 residues, 2 models selected  

> select #2/A:44-50 #3/A-B:45-51

168 atoms, 168 bonds, 21 residues, 2 models selected  

> select #2/A:51 #3/A-B:52

12 atoms, 9 bonds, 3 residues, 2 models selected  

> select #2/A:51-59 #3/A-B:52-60

201 atoms, 198 bonds, 27 residues, 2 models selected  

> select #2/A:62 #3/A-B:63

27 atoms, 24 bonds, 3 residues, 2 models selected  

> select #2/A:62-68 #3/A-B:63-69

168 atoms, 168 bonds, 21 residues, 2 models selected  

> select #2/A:67 #3/A-B:68

27 atoms, 24 bonds, 3 residues, 2 models selected  

> select #2/A:67-75 #3/A-B:68-76

228 atoms, 231 bonds, 27 residues, 2 models selected  

> select #2/A:76 #3/A-B:77

21 atoms, 18 bonds, 3 residues, 2 models selected  

> select #2/A:76-77 #3/A-B:77-78

63 atoms, 66 bonds, 6 residues, 2 models selected  

> select #2/A:76 #3/A-B:77

21 atoms, 18 bonds, 3 residues, 2 models selected  

> select #2/A:76 #3/A-B:77

21 atoms, 18 bonds, 3 residues, 2 models selected  

> show sel & #!3 atoms

> show sel & #!3 atoms

> show sel & #!3 atoms

> show sel & #!3 atoms

> select #2/A:79 #3/A-B:80

21 atoms, 18 bonds, 3 residues, 2 models selected  

> select #2/A:79-80 #3/A-B:80-81

45 atoms, 42 bonds, 6 residues, 2 models selected  

> select #2/A:80 #3/A-B:81

24 atoms, 21 bonds, 3 residues, 2 models selected  

> select #2/A:80 #3/A-B:81

24 atoms, 21 bonds, 3 residues, 2 models selected  

> show sel & #!3 atoms

> select #2/A:81 #3/A-B:82

24 atoms, 21 bonds, 3 residues, 2 models selected  

> select #2/A:81 #3/A-B:82

24 atoms, 21 bonds, 3 residues, 2 models selected  

> select #2/A:82-83 #3/A-B:83-84

42 atoms, 39 bonds, 6 residues, 2 models selected  

> select #2/A:82-83 #3/A-B:83-84

42 atoms, 39 bonds, 6 residues, 2 models selected  

> select #2/A:83 #3/A-B:84

15 atoms, 12 bonds, 3 residues, 2 models selected  

> select #2/A:83 #3/A-B:84

15 atoms, 12 bonds, 3 residues, 2 models selected  

> select #2/A:84-85 #3/A-B:85-86

51 atoms, 48 bonds, 6 residues, 2 models selected  

> select #2/A:84-85 #3/A-B:85-86

51 atoms, 48 bonds, 6 residues, 2 models selected  

> select #2/A:85 #3/A-B:86

27 atoms, 24 bonds, 3 residues, 2 models selected  

> select #2/A:84-85 #3/A-B:85-86

51 atoms, 48 bonds, 6 residues, 2 models selected  

> select #2/A:84 #3/A-B:85

24 atoms, 21 bonds, 3 residues, 2 models selected  

> select #2/A:84 #3/A-B:85

24 atoms, 21 bonds, 3 residues, 2 models selected  

> show sel & #!3 atoms

> select #2/A:88 #3/A-B:89

27 atoms, 24 bonds, 3 residues, 2 models selected  

> select #2/A:88 #3/A-B:89

27 atoms, 24 bonds, 3 residues, 2 models selected  

> select #2/A:10-25,27-29,35-37,51-64,76-88
> #3/A-B:11-26,28-30,36-38,52-65,77-89

1164 atoms, 1164 bonds, 147 residues, 2 models selected  

> select #2/A:87 #3/A-B:88

21 atoms, 18 bonds, 3 residues, 2 models selected  

> select #2/A:87 #3/A-B:88

21 atoms, 18 bonds, 3 residues, 2 models selected  

> show sel & #!3 atoms

> hide sel & #!3 atoms

> select #2/A:74-89 #3/A-B:75-90

401 atoms, 407 bonds, 48 residues, 2 models selected  

> select #2/A:1-89 #3/A-B:2-90

2195 atoms, 2237 bonds, 267 residues, 2 models selected  

> select #2/A:89 #3/A-B:90

29 atoms, 26 bonds, 3 residues, 2 models selected  

> select #2/A:1-89 #3/A-B:2-90

2195 atoms, 2237 bonds, 267 residues, 2 models selected  

> select clear

> select #2/A:68-89 #3/A-B:69-90

554 atoms, 566 bonds, 66 residues, 2 models selected  

> select #2/A:1-89 #3/A-B:2-90

2195 atoms, 2237 bonds, 267 residues, 2 models selected  
Alignment identifier is 2  

> select #2/A:10-25,27-29,35-37,51-64,76-88
> #3/A-B:11-26,28-30,36-38,52-65,77-89

1164 atoms, 1164 bonds, 147 residues, 2 models selected  

> select #2/A:89 #3/A-B:90

29 atoms, 26 bonds, 3 residues, 2 models selected  

> select #2/A:1-89 #3/A-B:2-90

2195 atoms, 2237 bonds, 267 residues, 2 models selected  

> select #2/A:42-43 #3/A-B:43-44

54 atoms, 51 bonds, 6 residues, 2 models selected  

> select #2/A:42-43 #3/A-B:43-44

54 atoms, 51 bonds, 6 residues, 2 models selected  

> select #2/A:10-25,27-29,35-37,51-64,76-88
> #3/A-B:11-26,28-30,36-38,52-65,77-89

1164 atoms, 1164 bonds, 147 residues, 2 models selected  

> select #2/A:22-23 #3/A-B:23-24

72 atoms, 75 bonds, 6 residues, 2 models selected  

> select #2/A:22-23 #3/A-B:23-24

72 atoms, 75 bonds, 6 residues, 2 models selected  

> select #2/A:12 #3/A-B:13

24 atoms, 21 bonds, 3 residues, 2 models selected  

> select #2/A:12-21 #3/A-B:13-22

213 atoms, 210 bonds, 30 residues, 2 models selected  

> select clear

> select #3/B:22

8 atoms, 7 bonds, 1 residue, 1 model selected  

> rainbow sel

> select #3/B:23

12 atoms, 12 bonds, 1 residue, 1 model selected  

> rainbow sel

> select #3/B:19

8 atoms, 7 bonds, 1 residue, 1 model selected  

> rainbow sel

> select #3/B:15

7 atoms, 6 bonds, 1 residue, 1 model selected  

> rainbow sel

> select #3/B:78

14 atoms, 15 bonds, 1 residue, 1 model selected  

> rainbow sel

> select #3/B:82

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select clear

> select #3/B:81

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #3/B:85

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #3/B:82

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #3/B:81

8 atoms, 7 bonds, 1 residue, 1 model selected  

> rainbow sel

> select #3/B:85

8 atoms, 7 bonds, 1 residue, 1 model selected  

> rainbow sel

> save "G:/My Drive/# DrivWork@Mahidol_2020/My SC lab students/Bee
> Wichuda/Endolysin manuscript/Others/CD1650CBDonly.cxs"

——— End of log from Mon Sep 20 09:53:20 2021 ———

opened ChimeraX session  

> show #2 models

> show #1 models

> open "G:/My Drive/# DrivWork@Mahidol_2020/My SC lab students/Bee
> Wichuda/Endolysin manuscript/Others/Superimpose of CBD from C. difficile
> endolysin CBD 210915.cxs"

> To Restore session:
>
>   * update Atomic bundle to version 1.29.1 or newer (have 1.13.2)
>

Unable to restore session: need to update bundle  

> hide #2 models

> hide #1 models

No model chosen to save relative to  
No model chosen to save relative to  

> select clear

> save "G:/My Drive/# DrivWork@Mahidol_2020/My SC lab students/Bee
> Wichuda/Endolysin manuscript/Others/CD16:50L CDB.pdb" displayedOnly true
> relModel #1

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 116, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 51, in display  
run(session, cmd)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\run.py", line 36, in run  
results = command.run(text, log=log, return_json=return_json)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2852, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2852, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 87, in provider_save  
provider_info.bundle_info.run_provider(session, provider_info.format_name,  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\\__init__.py", line 73, in save  
pdb.save_pdb(session, path, **kw)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\pdb.py", line 193, in save_pdb  
_pdbio.write_pdb_file([m.cpp_pointer for m in models], output, selected_only,  
OSError: Unable to open file 'G:/My Drive/# DrivWork@Mahidol_2020/My SC lab
students/Bee Wichuda/Endolysin manuscript/Others/CD16:50L CDB.pdb' for writing  
  
OSError: Unable to open file 'G:/My Drive/# DrivWork@Mahidol_2020/My SC lab
students/Bee Wichuda/Endolysin manuscript/Others/CD16:50L CDB.pdb' for writing  
  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\pdb.py", line 193, in save_pdb  
_pdbio.write_pdb_file([m.cpp_pointer for m in models], output, selected_only,  
  
See log for complete Python traceback.  
  

> save "G:/My Drive/# DrivWork@Mahidol_2020/My SC lab students/Bee
> Wichuda/Endolysin manuscript/Others/CD16:50L CBD.pdb" relModel #1

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\toolbar\tool.py", line 162, in callback  
bundle_info.run_provider(session, name, session.toolbar,
display_name=display_name)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\toolshed\info.py", line 379, in run_provider  
return api._api_caller.run_provider(api, session, name, mgr, **kw)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\toolshed\\__init__.py", line 1285, in run_provider  
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\toolbar\\__init__.py", line 37, in run_provider  
providers.run_provider(session, name)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\toolbar\providers.py", line 45, in run_provider  
what(session)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\toolbar\providers.py", line 27, in _file_save  
show_save_file_dialog(session)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 51, in display  
run(session, cmd)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\run.py", line 36, in run  
results = command.run(text, log=log, return_json=return_json)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2852, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2852, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 87, in provider_save  
provider_info.bundle_info.run_provider(session, provider_info.format_name,  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\\__init__.py", line 73, in save  
pdb.save_pdb(session, path, **kw)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\pdb.py", line 193, in save_pdb  
_pdbio.write_pdb_file([m.cpp_pointer for m in models], output, selected_only,  
OSError: Unable to open file 'G:/My Drive/# DrivWork@Mahidol_2020/My SC lab
students/Bee Wichuda/Endolysin manuscript/Others/CD16:50L CBD.pdb' for writing  
  
OSError: Unable to open file 'G:/My Drive/# DrivWork@Mahidol_2020/My SC lab
students/Bee Wichuda/Endolysin manuscript/Others/CD16:50L CBD.pdb' for writing  
  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\pdb.py", line 193, in save_pdb  
_pdbio.write_pdb_file([m.cpp_pointer for m in models], output, selected_only,  
  
See log for complete Python traceback.  
  

> save "G:/My Drive/# DrivWork@Mahidol_2020/My SC lab students/Bee
> Wichuda/Endolysin manuscript/Others/CD16:50L CBD.pdb" displayedOnly true

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 116, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 51, in display  
run(session, cmd)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\run.py", line 36, in run  
results = command.run(text, log=log, return_json=return_json)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2852, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2852, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 87, in provider_save  
provider_info.bundle_info.run_provider(session, provider_info.format_name,  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\\__init__.py", line 73, in save  
pdb.save_pdb(session, path, **kw)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\pdb.py", line 193, in save_pdb  
_pdbio.write_pdb_file([m.cpp_pointer for m in models], output, selected_only,  
OSError: Unable to open file 'G:/My Drive/# DrivWork@Mahidol_2020/My SC lab
students/Bee Wichuda/Endolysin manuscript/Others/CD16:50L CBD.pdb' for writing  
  
OSError: Unable to open file 'G:/My Drive/# DrivWork@Mahidol_2020/My SC lab
students/Bee Wichuda/Endolysin manuscript/Others/CD16:50L CBD.pdb' for writing  
  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\pdb.py", line 193, in save_pdb  
_pdbio.write_pdb_file([m.cpp_pointer for m in models], output, selected_only,  
  
See log for complete Python traceback.  
  

> save /CBD.pdb displayedOnly true

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 116, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 51, in display  
run(session, cmd)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\run.py", line 36, in run  
results = command.run(text, log=log, return_json=return_json)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2852, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2852, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 87, in provider_save  
provider_info.bundle_info.run_provider(session, provider_info.format_name,  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\\__init__.py", line 73, in save  
pdb.save_pdb(session, path, **kw)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\pdb.py", line 193, in save_pdb  
_pdbio.write_pdb_file([m.cpp_pointer for m in models], output, selected_only,  
OSError: Unable to open file '/CBD.pdb' for writing  
  
OSError: Unable to open file '/CBD.pdb' for writing  
  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\pdb.py", line 193, in save_pdb  
_pdbio.write_pdb_file([m.cpp_pointer for m in models], output, selected_only,  
  
See log for complete Python traceback.  
  

> show #2 models

> show #1 models

> save /CBD.pdb displayedOnly true

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 116, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 51, in display  
run(session, cmd)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\run.py", line 36, in run  
results = command.run(text, log=log, return_json=return_json)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2852, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2852, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 87, in provider_save  
provider_info.bundle_info.run_provider(session, provider_info.format_name,  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\\__init__.py", line 73, in save  
pdb.save_pdb(session, path, **kw)  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\pdb.py", line 193, in save_pdb  
_pdbio.write_pdb_file([m.cpp_pointer for m in models], output, selected_only,  
OSError: Unable to open file '/CBD.pdb' for writing  
  
OSError: Unable to open file '/CBD.pdb' for writing  
  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\pdb\pdb.py", line 193, in save_pdb  
_pdbio.write_pdb_file([m.cpp_pointer for m in models], output, selected_only,  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 - Build 27.20.100.8681
OpenGL renderer: Intel(R) HD Graphics 620
OpenGL vendor: Intel
Manufacturer: LENOVO
Model: 20HQS3U800
OS: Microsoft Windows 10 Pro (Build 19043)
Memory: 17,006,473,216
MaxProcessMemory: 137,438,953,344
CPU: 4 Intel(R) Core(TM) i5-7300U CPU @ 2.60GHz
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: 2020.12.5
    cftime: 1.5.0
    chardet: 3.0.4
    ChimeraX-AddCharge: 1.0.1
    ChimeraX-AddH: 2.1.6
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.13.2
    ChimeraX-AtomicLibrary: 3.1.3
    ChimeraX-AtomSearch: 2.0
    ChimeraX-AtomSearchLibrary: 1.0
    ChimeraX-AxesPlanes: 2.0
    ChimeraX-BasicActions: 1.1
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 1.1
    ChimeraX-BondRot: 2.0
    ChimeraX-BugReporter: 1.0
    ChimeraX-BuildStructure: 2.5.2
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.1
    ChimeraX-ButtonPanel: 1.0
    ChimeraX-CageBuilder: 1.0
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.1
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.1
    ChimeraX-ColorActions: 1.0
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.2.1
    ChimeraX-CommandLine: 1.1.4
    ChimeraX-ConnectStructure: 2.0
    ChimeraX-Contacts: 1.0
    ChimeraX-Core: 1.2.5
    ChimeraX-CoreFormats: 1.0
    ChimeraX-coulombic: 1.1.1
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0
    ChimeraX-DataFormats: 1.1
    ChimeraX-Dicom: 1.0
    ChimeraX-DistMonitor: 1.1.3
    ChimeraX-DistUI: 1.0
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ExperimentalCommands: 1.0
    ChimeraX-FileHistory: 1.0
    ChimeraX-FunctionKey: 1.0
    ChimeraX-Geometry: 1.1
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.0
    ChimeraX-Hbonds: 2.1
    ChimeraX-Help: 1.1
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.0
    ChimeraX-ImageFormats: 1.1
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-Label: 1.0
    ChimeraX-ListInfo: 1.1.1
    ChimeraX-Log: 1.1.2
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.8.1
    ChimeraX-Map: 1.0.2
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0
    ChimeraX-MapFilter: 2.0
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.0
    ChimeraX-Markers: 1.0
    ChimeraX-Mask: 1.0
    ChimeraX-MatchMaker: 1.2.1
    ChimeraX-MDcrds: 2.2
    ChimeraX-MedicalToolbar: 1.0.1
    ChimeraX-Meeting: 1.0
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.3
    ChimeraX-MMTF: 2.1
    ChimeraX-Modeller: 1.0.1
    ChimeraX-ModelPanel: 1.0.1
    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: 2.0.1
    ChimeraX-OpenCommand: 1.5
    ChimeraX-PDB: 2.4.1
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.1
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.0.1
    ChimeraX-PubChem: 2.0.1
    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: 1.4
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SeqView: 2.3
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0
    ChimeraX-Shortcuts: 1.0
    ChimeraX-ShowAttr: 1.0
    ChimeraX-ShowSequences: 1.0
    ChimeraX-SideView: 1.0
    ChimeraX-Smiles: 2.0.1
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.3.1
    ChimeraX-STL: 1.0
    ChimeraX-Storm: 1.0
    ChimeraX-Struts: 1.0
    ChimeraX-Surface: 1.0
    ChimeraX-SwapAA: 2.0
    ChimeraX-SwapRes: 2.1
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.0.1
    ChimeraX-ToolshedUtils: 1.2
    ChimeraX-Tug: 1.0
    ChimeraX-UI: 1.7.6
    ChimeraX-uniprot: 2.1
    ChimeraX-UnitCell: 1.0
    ChimeraX-ViewDockX: 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: 0.4.3
    comtypes: 1.1.7
    cxservices: 1.0
    cycler: 0.10.0
    Cython: 0.29.21
    decorator: 5.0.9
    distlib: 0.3.1
    docutils: 0.16
    filelock: 3.0.12
    funcparserlib: 0.3.6
    grako: 3.16.5
    h5py: 2.10.0
    html2text: 2020.1.16
    idna: 2.10
    ihm: 0.17
    imagecodecs: 2020.5.30
    imagesize: 1.2.0
    ipykernel: 5.3.4
    ipython: 7.18.1
    ipython-genutils: 0.2.0
    jedi: 0.17.2
    Jinja2: 2.11.2
    jupyter-client: 6.1.7
    jupyter-core: 4.7.1
    kiwisolver: 1.3.1
    line-profiler: 2.1.2
    lxml: 4.6.2
    lz4: 3.1.0
    MarkupSafe: 2.0.1
    matplotlib: 3.3.2
    msgpack: 1.0.0
    netCDF4: 1.5.4
    networkx: 2.5
    numexpr: 2.7.3
    numpy: 1.19.2
    numpydoc: 1.1.0
    openvr: 1.14.1501
    packaging: 20.9
    ParmEd: 3.2.0
    parso: 0.7.1
    pickleshare: 0.7.5
    Pillow: 7.2.0
    pip: 21.0.1
    pkginfo: 1.5.0.1
    prompt-toolkit: 3.0.18
    psutil: 5.7.2
    pycollada: 0.7.1
    pydicom: 2.0.0
    Pygments: 2.7.1
    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: 2.8.1
    pytz: 2021.1
    pywin32: 228
    pyzmq: 22.0.3
    qtconsole: 4.7.7
    QtPy: 1.9.0
    RandomWords: 0.3.0
    requests: 2.24.0
    scipy: 1.5.2
    setuptools: 50.3.2
    sfftk-rw: 0.6.7.dev1
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    snowballstemmer: 2.1.0
    sortedcontainers: 2.2.2
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    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
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    tables: 3.6.1
    tifffile: 2020.9.3
    tinyarray: 1.2.3
    tornado: 6.1
    traitlets: 5.0.5
    urllib3: 1.25.11
    wcwidth: 0.2.5
    webcolors: 1.11.1
    wheel: 0.36.0
    wheel-filename: 1.3.0
    WMI: 1.5.1