'ModellerScoringJob' object has no attribute 'results'

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.22621
ChimeraX Version: 1.5 (2022-11-24 00:03:27 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
UCSF ChimeraX version: 1.5 (2022-11-24)  
© 2016-2022 Regents of the University of California. All rights reserved.  

> open "D:\研一\CHIMERAX\HBc dimer.cxs" format session

Log from Sat Mar 4 16:01:13 2023UCSF ChimeraX version: 1.5 (2022-11-24)  
© 2016-2022 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open 4BMG format mmcif fromDatabase pdb

4bmg title:  
Crystal structure of hexameric HBc149 Y132A [more info...]  
  
Chain information for 4bmg #1  
---  
Chain | Description | UniProt  
A B C D E F | CAPSID PROTEIN | CAPSD_HBVD1  
  
4bmg mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
2| author_and_software_defined_assembly  
3| author_and_software_defined_assembly  
  

> preset cartoons/nucleotides ribbons/slabs

Using preset: Cartoons/Nucleotides / Ribbons/Slabs  
Changed 6775 atom styles  
Preset expands to these ChimeraX commands:

    
    
    show nucleic
    hide protein|solvent|H
    surf hide
    style (protein|nucleic|solvent) & @@draw_mode=0 stick
    cartoon
    cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20
    cartoon style ~(nucleic|strand) x round
    cartoon style (nucleic|strand) x rect
    nucleotides tube/slab shape box

  

> sym #1 assembly 2

> view

> sym #1 assembly 3

> view

> hide #!2 models

> show #!2 models

> close #1

> hide #2.1 models

> show #2.1 models

> hide #2.1 models

> show #2.1 models

> color #2 #5a5eb2ff models

> color #2 #3ab2b2ff models

> color #2 yellow models

> rainbow

[Repeated 1 time(s)]

> color orange red

> color #3.1 #19cdffff

> color #3.1 #27edffff

> color #3 #b28f8fff models

> color #3 #b2b2b2ff models

[Repeated 1 time(s)]

> color #3 #5ab2a8ff models

> color #3 #64b24eff models

Alignment identifier is 1  

> close session

> open 4BMG format mmcif fromDatabase pdb

4bmg title:  
Crystal structure of hexameric HBc149 Y132A [more info...]  
  
Chain information for 4bmg #1  
---  
Chain | Description | UniProt  
A B C D E F | CAPSID PROTEIN | CAPSD_HBVD1  
  
4bmg mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
2| author_and_software_defined_assembly  
3| author_and_software_defined_assembly  
  

> sym #1 assembly 1

> view

> preset cartoons/nucleotides ribbons/slabs

Using preset: Cartoons/Nucleotides / Ribbons/Slabs  
Changed 9033 atom styles  
Preset expands to these ChimeraX commands:

    
    
    show nucleic
    hide protein|solvent|H
    surf hide
    style (protein|nucleic|solvent) & @@draw_mode=0 stick
    cartoon
    cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20
    cartoon style ~(nucleic|strand) x round
    cartoon style (nucleic|strand) x rect
    nucleotides tube/slab shape box

  

> select /C:1-143

2266 atoms, 2334 bonds, 286 residues, 2 models selected  

> select /D:1-142

2250 atoms, 2318 bonds, 284 residues, 2 models selected  

> select /A:1-144

1134 atoms, 1168 bonds, 144 residues, 1 model selected  

> sym #1 assembly 2

> view

> select /B:1-142

2250 atoms, 2318 bonds, 284 residues, 2 models selected  

> select /A:1-144

2268 atoms, 2336 bonds, 288 residues, 2 models selected  

> select /C:1-143

2266 atoms, 2334 bonds, 286 residues, 2 models selected  

> delete select

Missing or invalid "atoms" argument: invalid atoms specifier  

> delete /A

> delete /d

> undo

Undo failed, probably because structures have been modified.  

> close session

> open 4BMG format mmcif fromDatabase pdb

4bmg title:  
Crystal structure of hexameric HBc149 Y132A [more info...]  
  
Chain information for 4bmg #1  
---  
Chain | Description | UniProt  
A B C D E F | CAPSID PROTEIN | CAPSD_HBVD1  
  
4bmg mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
2| author_and_software_defined_assembly  
3| author_and_software_defined_assembly  
  

> preset cartoons/nucleotides ribbons/slabs

Using preset: Cartoons/Nucleotides / Ribbons/Slabs  
Changed 6775 atom styles  
Preset expands to these ChimeraX commands:

    
    
    show nucleic
    hide protein|solvent|H
    surf hide
    style (protein|nucleic|solvent) & @@draw_mode=0 stick
    cartoon
    cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20
    cartoon style ~(nucleic|strand) x round
    cartoon style (nucleic|strand) x rect
    nucleotides tube/slab shape box

  

> select /B:1-142

1125 atoms, 1159 bonds, 142 residues, 1 model selected  

> select /C:1-143

1133 atoms, 1167 bonds, 143 residues, 1 model selected  

> select /D:1-142

1125 atoms, 1159 bonds, 142 residues, 1 model selected  

> select /B:1-142

1125 atoms, 1159 bonds, 142 residues, 1 model selected  

> select /D:1-142

1125 atoms, 1159 bonds, 142 residues, 1 model selected  

> select /B:1-142

1125 atoms, 1159 bonds, 142 residues, 1 model selected  

> select /D:1-142

1125 atoms, 1159 bonds, 142 residues, 1 model selected  

> select /B:1-142

1125 atoms, 1159 bonds, 142 residues, 1 model selected  

> select /D:1-142

1125 atoms, 1159 bonds, 142 residues, 1 model selected  

> delete /A

> delete /C

> delete /E

> delete /F

> hide #1 models

> show #1 models

> mlp sel

Map values for surface "4bmg_D SES surface": minimum -26.95, mean -3.418,
maximum 22.06  
To also show corresponding color key, enter the above mlp command and add key
true  

> mlp sel

Map values for surface "4bmg_D SES surface": minimum -26.95, mean -3.418,
maximum 22.06  
To also show corresponding color key, enter the above mlp command and add key
true  

> undo

> hide sel surfaces

Alignment identifier is 1/D  

> ui mousemode right translate

> ui mousemode right select

Drag select of 284 residues  
Alignment identifier is 1  

> select add #1

2250 atoms, 2318 bonds, 284 residues, 2 models selected  

> select subtract #1

1 model selected  

> select clear

Drag select of 7 residues  

> ui mousemode right translate

> ui mousemode right select

> select add #1

2250 atoms, 2318 bonds, 284 residues, 2 models selected  

> select subtract #1

1 model selected  
Drag select of 4 residues  

> select clear

> distance #1/B:109@CA #2/D:120@CA

Expected exactly two atoms and/or measurable objects (e.g. axes, planes), or
one or more measurable object and one or more atoms, got 1 atoms and 0
measurable objects  

> distance #1/B:109@CA #1/D:120@CA

Distance between /B THR 109 CA and /D VAL 120 CA: 41.600Å  

> distance #1/B:120@CA #1/D:109@CA

Distance between /B VAL 120 CA and /D THR 109 CA: 12.875Å  

> hide #2.1 models

> show #2.1 models

> delete select

Missing or invalid "atoms" argument: invalid atoms specifier  

> select clear

[Repeated 1 time(s)]

> delete pseudobonds sel

> ui mousemode right label

> label #1/D:109

> label #1/B:120

> select /B-D:109

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

> select /B-D:109

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

> show (#!1 & sel) target ab

> select sel @< 5

1168 atoms, 77 bonds, 152 residues, 1 model selected  

> select /B-D:109-110

36 atoms, 36 bonds, 4 residues, 1 model selected  

> select /B-D:109-110

36 atoms, 36 bonds, 4 residues, 1 model selected  

> select /B-D:6-10,12-18,26-44,49-75,84-133

1732 atoms, 1770 bonds, 1 pseudobond, 216 residues, 2 models selected  

> select /B-D:108-109

30 atoms, 28 bonds, 4 residues, 1 model selected  

> select /B-D:108-109

30 atoms, 28 bonds, 4 residues, 1 model selected  

> select /B-D:109

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

> select sel @< 5

1168 atoms, 77 bonds, 152 residues, 1 model selected  

> select /B-D:109

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

> select /B-D:109-110

36 atoms, 36 bonds, 4 residues, 1 model selected  

> select /B-D:109-110

36 atoms, 36 bonds, 4 residues, 1 model selected  

> select /B-D:109-110

36 atoms, 36 bonds, 4 residues, 1 model selected  

> select /B-D:6-10,12-18,26-44,49-75,84-133

1732 atoms, 1770 bonds, 1 pseudobond, 216 residues, 2 models selected  

> select /B-D:109-110

36 atoms, 36 bonds, 4 residues, 1 model selected  

> select /B-D:109-110

36 atoms, 36 bonds, 4 residues, 1 model selected  

> select /B-D:6-10,12-18,26-44,49-75,84-133

1732 atoms, 1770 bonds, 1 pseudobond, 216 residues, 2 models selected  

> select /B-D:109

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

> select /B-D:109

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

> select sel :< 5

1205 atoms, 157 bonds, 152 residues, 1 model selected  

> select /B-D:109

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

> select /B-D:109

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

> select sel @< 5

1168 atoms, 77 bonds, 152 residues, 1 model selected  

> label #1/D:109

[Repeated 2 time(s)]

> label delete residues

[Repeated 4 time(s)]

> label #1/B:134

> label delete residues

> label #1/D:109

> ui mousemode right select

> select clear

> ui mousemode right label

> label delete residues

[Repeated 1 time(s)]

> ui mousemode right select

> ui mousemode right translate

> ui mousemode right label

> label #1/B:120

> label delete residues

> label #1/D:109

> label #1/B:120

> label #1/D:109

> ui mousemode right select

> select clear

> ui mousemode right translate

> ui mousemode right select

> select /D:109@OG1

1 atom, 1 residue, 1 model selected  

> select /D:109

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

> select sel @< 5

1125 atoms, 37 bonds, 142 residues, 1 model selected  

> help help:user/menu.html#selectzone

> select clear

[Repeated 1 time(s)]

> select /B-D:109

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

> select /B-D:109

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

> select /B:109

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

> select /B:109

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

> select /B:109

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

> select /B:109

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

> select /B:109

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

> select clear

> select /D:109

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

> select sel @< 5

1125 atoms, 37 bonds, 142 residues, 1 model selected  

> select sel @< 3

1126 atoms, 1159 bonds, 143 residues, 1 model selected  

> ui mousemode right "tape measure"

> marker segment #3 position 57.27,-18.23,10.16 toPosition 57.47,-16.96,10.79
> color yellow radius 0.1 label 1.43 labelHeight 0.2 labelColor yellow

> marker delete #3

> ui mousemode right select

> select clear

> select /B:127

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

> show sel target ab

> ui mousemode right "tape measure"

> marker segment #3 position 57.27,-18.23,10.16 toPosition 56.96,-23.82,13.6
> color yellow radius 0.1 label 6.572 labelHeight 0.6572 labelColor yellow

> marker delete #3

> marker segment #3 position 55.64,-15.53,11 toPosition 55.12,-22.11,13.64
> color yellow radius 0.1 label 7.11 labelHeight 0.711 labelColor yellow

> marker delete #3

> marker segment #3 position 56.01,-18.1,11.05 toPosition 55.69,-22.25,13.3
> color yellow radius 0.1 label 4.729 labelHeight 0.4729 labelColor yellow

> marker delete #3

> hide sel target a

> ui mousemode right select

> select /D:109@CB

1 atom, 1 residue, 1 model selected  

> select clear

> select /D:109

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

> select sel :< 1

1125 atoms, 6 bonds, 142 residues, 1 model selected  

> select clear

> select /D:109@CB

1 atom, 1 residue, 1 model selected  

> select clear

> select /D:109

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

> select sel :> 5

2173 atoms, 2237 bonds, 274 residues, 1 model selected  

> select clear

> select sel :> 5

Nothing selected  

> select /D:109

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

> select sel :> 5

2173 atoms, 2237 bonds, 274 residues, 1 model selected  

> ui mousemode right translate

> select add #1

2250 atoms, 2318 bonds, 1 pseudobond, 284 residues, 4 models selected  

> select subtract #1

1 model selected  

> close #2

> ui mousemode right label

> label delete residues

> ui mousemode right select

> select /D:127

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

> select clear

> select /B:1-142

1125 atoms, 1159 bonds, 142 residues, 1 model selected  

> select /B:127

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

> select /D:29

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

> select add /B:127

19 atoms, 17 bonds, 2 residues, 2 models selected  

> distance #1/B:127@CA #1/D:29@CA

Distance between /B ARG 127 CA and /D ASP 29 CA: 6.172Å  

> ui mousemode right label

> label #1/B:127

> label #1/D:29

> close #2

> ui mousemode right label

> label delete residues

> ui mousemode right select

> distance #1/B:120@CA #1/D:109@CA

Distance between /B VAL 120 CA and /D THR 109 CA: 12.875Å  

> select clear

> ui mousemode right label

> label #1/D:109

> label #1/B:120

> ui mousemode right translate

> ui mousemode right select

> select /D:109

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

> hide (#!1 & sel) target a

> select clear

Drag select of 1 residues  

> select clear

> ui mousemode right translate

> select /B

1125 atoms, 1159 bonds, 142 residues, 1 model selected  

> select /D

1125 atoms, 1159 bonds, 142 residues, 1 model selected  

> select /D and /B

Expected a keyword  

> select /D & /B

Nothing selected  

> select /D & /B

Nothing selected  

> ui mousemode right select

Drag select of 4 atoms, 284 residues, 3 bonds, 1 pseudobonds  

> mlp sel

Map values for surface "4bmg_B SES surface": minimum -26.19, mean -3.336,
maximum 22.15  
Map values for surface "4bmg_D SES surface": minimum -26.95, mean -3.418,
maximum 22.06  
To also show corresponding color key, enter the above mlp command and add key
true  

> select clear

[Repeated 1 time(s)]

> surface style solid

> transparency 50

Drag select of 4bmg_B SES surface, 424 of 150592 triangles, 6 residues  

> select clear

[Repeated 1 time(s)]Drag select of 4bmg_B SES surface, 18 of 150592 triangles,
1 residues  

> ui mousemode right translate

> ui mousemode right select

> select clear

> hide surfaces

> close #2

> select /B:120

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

> ui mousemode right label

> ui mousemode right select

> select clear

> ui mousemode right translate

> ui mousemode right select

> select /B:136

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

> ui mousemode right translate

> ui mousemode right select

> select add /D:132

13 atoms, 11 bonds, 2 residues, 2 models selected  
Drag select of 3 residues  

> select clear

[Repeated 2 time(s)]

> select /B:136

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

> select add /D:132

13 atoms, 11 bonds, 2 residues, 2 models selected  

> ui mousemode right translate

> distance #1/B:136@CA #1/D:132@CA

Distance between /B ASN 136 CA and /D ALA 132 CA: 22.489Å  

> distance #1/B:132@CA #1/D:136@CA

Distance between /B ALA 132 CA and /D ASN 136 CA: 11.475Å  

> close session

> open 4BMG format mmcif fromDatabase pdb

4bmg title:  
Crystal structure of hexameric HBc149 Y132A [more info...]  
  
Chain information for 4bmg #1  
---  
Chain | Description | UniProt  
A B C D E F | CAPSID PROTEIN | CAPSD_HBVD1  
  
4bmg mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
2| author_and_software_defined_assembly  
3| author_and_software_defined_assembly  
  

> preset cartoons/nucleotides ribbons/slabs

Using preset: Cartoons/Nucleotides / Ribbons/Slabs  
Changed 6775 atom styles  
Preset expands to these ChimeraX commands:

    
    
    show nucleic
    hide protein|solvent|H
    surf hide
    style (protein|nucleic|solvent) & @@draw_mode=0 stick
    cartoon
    cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20
    cartoon style ~(nucleic|strand) x round
    cartoon style (nucleic|strand) x rect
    nucleotides tube/slab shape box

  

> distance #1/B:132@CA #1/D:136@CA

Distance between /B ALA 132 CA and /D ASN 136 CA: 11.475Å  

> distance /B:136@ca /c:132@cA

Distance between /B ASN 136 CA and /C ALA 132 CA: 72.458Å  

> distance /B:136@ca /A:132@cA

Distance between /B ASN 136 CA and /A ALA 132 CA: 74.673Å  

> distance /B:136@ca /E:132@cA

Distance between /B ASN 136 CA and /E ALA 132 CA: 91.289Å  

> distance /B:136@ca /F:132@cA

Distance between /B ASN 136 CA and /F ALA 132 CA: 61.363Å  

> distance /B:132@ca /F:136@cA

Distance between /B ALA 132 CA and /F ASN 136 CA: 72.758Å  

> close #2

> distance /B:132@CA /D:136@CA

Distance between /B ALA 132 CA and /D ASN 136 CA: 11.475Å  

> distance /B:136@CA /D:132@CA

Distance between /B ASN 136 CA and /D ALA 132 CA: 22.489Å  

> ui mousemode right label

Alignment identifier is 1  

> label delete residues

> ui mousemode right translate

> ui mousemode right select

> select /D:130

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

> select sel @< 5

34 atoms, 35 bonds, 6 residues, 1 model selected  
Drag select of 2 residues  

> select /D:130

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

> select sel @< 8

66 atoms, 65 bonds, 11 residues, 1 model selected  

> select clear

> select /D:136

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

> ui tool show Rotamers

> swapaa interactive sel CPR rotLib Dunbrack

/D ASN 136: phi -81.8, psi 104.1 trans  
Changed 10 bond radii  

> swapaa #!1/D:136 CPR criteria 1 rotLib Dunbrack

Using Dunbrack library  
4bmg #!1/D ASN 136: phi -81.8, psi 104.1 trans  
Applying PRO rotamer (chi angles: 30.1 -34.4) to 4bmg #!1/D PRO 136  

> swapaa interactive sel CPR rotLib Dunbrack

/D PRO 136: phi -81.8, psi 104.1 trans  
Changed 10 bond radii  

> swapaa #!1/D:136 CPR criteria 1 rotLib Dunbrack

Using Dunbrack library  
4bmg #!1/D PRO 136: phi -81.8, psi 104.1 trans  
Applying PRO rotamer (chi angles: 30.1 -34.4) to 4bmg #!1/D PRO 136  

> select clear

> select /D:136

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

> ui tool show Rotamers

> swapaa interactive sel TPR rotLib Dunbrack

/D PRO 136: phi -81.8, psi 104.1 trans  
Changed 10 bond radii  

> swapaa interactive sel CYS rotLib Dynameomics

/D PRO 136: phi -81.8, psi 104.1 trans  
Changed 9 bond radii  

> help help:user/tools/rotamers.html

> swapaa #!1/D:136 CYS criteria 1 rotLib Dynameomics

Using Dynameomics library  
4bmg #!1/D PRO 136: phi -81.8, psi 104.1 trans  
Applying CYS rotamer (chi angles: -61.0) to 4bmg #!1/D CYS 136  

> swapaa interactive sel CYS rotLib Dunbrack

/D CYS 136: phi -81.8, psi 104.1 trans  
Changed 9 bond radii  

> swapaa #!1/D:136 CYS criteria 1 rotLib Dunbrack retain false

Using Dunbrack library  
4bmg #!1/D CYS 136: phi -81.8, psi 104.1 trans  
Applying CYS rotamer (chi angles: -178.2) to 4bmg #!1/D CYS 136  

> show sel target ab

> select clear

[Repeated 3 time(s)]

> select /D:136

6 atoms, 5 bonds, 1 residue, 1 model selected  

> show sel target ab

> select clear

> ui mousemode right translate

> ui mousemode right select

> select /B:132

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

> ui tool show Rotamers

> swapaa interactive sel CYS rotLib Dunbrack

/B ALA 132: phi -104.5, psi -20.3 trans  
Changed 9 bond radii  

> swapaa #!1/B:132 CYS criteria 1 rotLib Dunbrack

Using Dunbrack library  
4bmg #!1/B ALA 132: phi -104.5, psi -20.3 trans  
Applying CYS rotamer (chi angles: -62.4) to 4bmg #!1/B CYS 132  

> select clear

> select /B:132

6 atoms, 5 bonds, 1 residue, 1 model selected  

> show sel target ab

> select clear

> distance /B:136@SG /D:132@SG

Expected exactly two atoms and/or measurable objects (e.g. axes, planes), or
one or more measurable object and one or more atoms, got 0 atoms and 0
measurable objects  

> select clear

> ui mousemode right "tape measure"

> marker segment #3 position 61.24,-26.89,13.29 toPosition 57.97,-37.61,4.702
> color yellow radius 0.1 label 14.12 labelHeight 1.412 labelColor yellow

> marker delete #3

> ui mousemode right translate

> distance /B:136@SA /D:132@SA

Expected exactly two atoms and/or measurable objects (e.g. axes, planes), or
one or more measurable object and one or more atoms, got 0 atoms and 0
measurable objects  

> distance /B:136@SG /D:132@SG

Expected exactly two atoms and/or measurable objects (e.g. axes, planes), or
one or more measurable object and one or more atoms, got 0 atoms and 0
measurable objects  

> select /A-F:29

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

> select /A-F:29

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

> ui mousemode right select

> select clear

> select /D:29

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

> select /B:127

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

> select add /D:29

19 atoms, 17 bonds, 2 residues, 1 model selected  

> ui tool show Rotamers

> swapaa interactive sel CYS rotLib Dunbrack

/B ARG 127: phi -72.0, psi -36.2 trans  
Changed 9 bond radii  
4bmg #!1/D ASP 29: phi -72.0, psi -36.8 trans  
Changed 9 bond radii  

> swapaa #!1/D:29 CYS criteria 1 rotLib Dunbrack

Using Dunbrack library  
4bmg #!1/D ASP 29: phi -72.0, psi -36.8 trans  
Applying CYS rotamer (chi angles: -69.5) to 4bmg #!1/D CYS 29  

> swapaa #!1/B:127 CYS criteria 1 rotLib Dunbrack

Using Dunbrack library  
4bmg #!1/B ARG 127: phi -72.0, psi -36.2 trans  
Applying CYS rotamer (chi angles: -69.5) to 4bmg #!1/B CYS 127  

> show sel target ab

[Repeated 1 time(s)]

> ui mousemode right translate

> ui mousemode right select

> select clear

> select /D:29

6 atoms, 5 bonds, 1 residue, 1 model selected  

> select add /B:127

12 atoms, 10 bonds, 2 residues, 1 model selected  

> show sel target ab

> select clear

> ui mousemode right "tape measure"

> marker segment #3 position 58.85,-14.45,13.2 toPosition 55.02,-16.62,10.79
> color yellow radius 0.1 label 5.018 labelHeight 0.5018 labelColor yellow

> ui mousemode right translate

[Repeated 1 time(s)]

> ui mousemode right "tape measure"

> marker segment #3 position 60.77,-16,17.26 toPosition 58.54,-21.8,10.59
> color yellow radius 0.1 label 9.113 labelHeight 0.9113 labelColor yellow

> select #1/A-F:6-10,12-18,26-44,49-75,81-133

5340 atoms, 5457 bonds, 666 residues, 1 model selected  

> select #1/A-F:61

36 atoms, 33 bonds, 6 residues, 1 model selected  

> select #1/A-F:61

36 atoms, 33 bonds, 6 residues, 1 model selected  

> marker segment #3 position 53.43,2.605,-1.605 toPosition 51.1,6.188,-2.334
> color yellow radius 0.1 label 4.333 labelHeight 0.4333 labelColor yellow

> marker delete #3

> ui mousemode right translate

> ui mousemode right select

> select clear

[Repeated 2 time(s)]

> ui mousemode right translate

> ui mousemode right select

> close session

> open 4BMG format mmcif fromDatabase pdb

4bmg title:  
Crystal structure of hexameric HBc149 Y132A [more info...]  
  
Chain information for 4bmg #1  
---  
Chain | Description | UniProt  
A B C D E F | CAPSID PROTEIN | CAPSD_HBVD1  
  
4bmg mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
2| author_and_software_defined_assembly  
3| author_and_software_defined_assembly  
  

> preset cartoons/nucleotides ribbons/slabs

Using preset: Cartoons/Nucleotides / Ribbons/Slabs  
Changed 6775 atom styles  
Preset expands to these ChimeraX commands:

    
    
    show nucleic
    hide protein|solvent|H
    surf hide
    style (protein|nucleic|solvent) & @@draw_mode=0 stick
    cartoon
    cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20
    cartoon style ~(nucleic|strand) x round
    cartoon style (nucleic|strand) x rect
    nucleotides tube/slab shape box

  

> delete /A

> delete /C

> delete /E

> delete /F

> save "D:/研一/CHIMERAX/HBc dimer.cxs"

——— End of log from Sat Mar 4 16:01:13 2023 ———

opened ChimeraX session  
Alignment identifier is 1  

> ui tool show "Modeller Comparative"

> modeller comparative 1:1 numModels 5 fast false multichain true hetPreserve
> true hydrogens true waterPreserve true

Cannot preserve water/het with more than one template per target; not
preserving  

No Modeller license key provided. Get a license key by registering at the
Modeller web site.  

> modeller comparative 1:1 numModels 5 fast false multichain true hetPreserve
> true hydrogens true waterPreserve true directory D:/研一/CHIMERAX

Cannot preserve water/het with more than one template per target; not
preserving  

No Modeller license key provided. Get a license key by registering at the
Modeller web site.  

> modeller comparative 1:1 numModels 5 fast true multichain true hetPreserve
> true hydrogens true waterPreserve true directory D:/研一/CHIMERAX

Cannot preserve water/het with more than one template per target; not
preserving  

Error launching job: Invalid license key  

> ui tool show "Modeller Comparative"

> modeller comparative 1:1 numModels 5 fast true multichain true hetPreserve
> true hydrogens true waterPreserve true directory D:/研一/CHIMERAX

Cannot preserve water/het with more than one template per target; not
preserving  

Webservices job id: AHWJXQWITPHI8M6E  
Modeller job (ID AHWJXQWITPHI8M6E) finished  
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 4bmg, chain B (#1) with chains_B,D, chain B (#), sequence alignment
score = 761.8  
Matchmaker 4bmg, chain D (#1) with chains_B,D, chain D (#), sequence alignment
score = 729.4  
RMSD between 284 pruned atom pairs is 0.163 angstroms; (across all 284 pairs:
0.163)  
  
Associated chains_B,D chain B to chains B,D with 0 mismatches  
Associated chains_B,D chain D to chains B,D with 0 mismatches  
Chain information for chains_B,D  
---  
Chain | Description  
2.1/B 2.1/D | No description available  
  

> hide #2.1 models

> show #2.1 models

> hide #!2 models

> hide #1 models

> hide #2.1 models

> show #2.1 models

Alignment identifier is 2  

> select #2.1/B:143-144/D:297-298

66 atoms, 66 bonds, 4 residues, 1 model selected  

> select #2.1/B:143-154/D:297-308

396 atoms, 400 bonds, 24 residues, 1 model selected  

> close session

> open 4BMG format mmcif fromDatabase pdb

4bmg title:  
Crystal structure of hexameric HBc149 Y132A [more info...]  
  
Chain information for 4bmg #1  
---  
Chain | Description | UniProt  
A B C D E F | CAPSID PROTEIN | CAPSD_HBVD1  
  
4bmg mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
2| author_and_software_defined_assembly  
3| author_and_software_defined_assembly  
  

> sym #1 assembly 1

> view

> preset cartoons/nucleotides ribbons/slabs

Using preset: Cartoons/Nucleotides / Ribbons/Slabs  
Changed 9033 atom styles  
Preset expands to these ChimeraX commands:

    
    
    show nucleic
    hide protein|solvent|H
    surf hide
    style (protein|nucleic|solvent) & @@draw_mode=0 stick
    cartoon
    cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20
    cartoon style ~(nucleic|strand) x round
    cartoon style (nucleic|strand) x rect
    nucleotides tube/slab shape box

  

> close #1

> sym #2

4bmg mmCIF Assemblies  
---  
  

> log metadata #2

No models had metadata

> log chains #2

Chain information for 4bmg #2.1  
---  
Chain | Description | UniProt  
C D | CAPSID PROTEIN | CAPSD_HBVD1  
  

> select /C:1-143

1133 atoms, 1167 bonds, 143 residues, 1 model selected  

> select /D:1-142

1125 atoms, 1159 bonds, 142 residues, 1 model selected  

> select /C:1-143

1133 atoms, 1167 bonds, 143 residues, 1 model selected  
Alignment identifier is 2.1/C  

> select clear

> select /C:143

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

> select /C:143

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

> select clear

> ui tool show "Modeller Comparative"

> modeller comparative 2.1/C:1 numModels 5 fast true multichain true
> hetPreserve true hydrogens true waterPreserve true directory D:/研一/CHIMERAX

Cannot preserve water/het with more than one template per target; not
preserving  

Webservices job id: Z331J86ODTRU4BSC  
Modeller job (ID Z331J86ODTRU4BSC) finished  
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 4bmg, chain C (#2.1) with chain_C, chain C (#), sequence alignment
score = 774.4  
RMSD between 143 pruned atom pairs is 0.159 angstroms; (across all 143 pairs:
0.159)  
  
Associated chain_C chain C to chain C with 0 mismatches  
Chain information for chain_C  
---  
Chain | Description  
1.1/C | No description available  
  

> hide #!2 models

> hide #2.1 models

> hide #1.1 models

> hide #!1 models

> show #!1 models

> show #1.1 models

> hide #!1 models

> show #!1 models

Alignment identifier is 1  

> select #1.1/C:152-153

40 atoms, 40 bonds, 2 residues, 1 model selected  

> select #1.1/C:152-154

61 atoms, 62 bonds, 3 residues, 1 model selected  

> select #2.1/C:143 #1.1/C:143

27 atoms, 25 bonds, 2 residues, 2 models selected  

> select #2.1/C:143 #1.1/C:143-154

206 atoms, 207 bonds, 13 residues, 2 models selected  

> modeller scores #1.1 refresh false

Exception in thread Thread-94:  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\threading.py", line 973, in _bootstrap_inner  
self.run()  
File "D:\ChimeraX\bin\lib\threading.py", line 910, in run  
self._target(*self._args, **self._kwargs)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\core\tasks.py", line 213, in
_run_thread  
self.run(*args, **kw)  
TypeError: run() takes 1 positional argument but 6 were given  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\ui\gui.py", line 661, in
customEvent  
func(*args, **kw)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
  
See log for complete Python traceback.  
  

> modeller scores #1.1 refresh true

Exception in thread Thread-97:  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\threading.py", line 973, in _bootstrap_inner  
self.run()  
File "D:\ChimeraX\bin\lib\threading.py", line 910, in run  
self._target(*self._args, **self._kwargs)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\core\tasks.py", line 213, in
_run_thread  
self.run(*args, **kw)  
TypeError: run() takes 1 positional argument but 6 were given  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\ui\gui.py", line 661, in
customEvent  
func(*args, **kw)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
  
See log for complete Python traceback.  
  

> close #1

> show #!2 models

> show #2.1 models

> ui tool show "Model Loops"

> modeller refine 2.1/C:1:all-missing numModels 5 fast false adjacentFlexible
> 1 protocol standard

Webservices job id: OQTXZZMP0P2FKCAJ  
Modeller job (ID OQTXZZMP0P2FKCAJ) finished  
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 4bmg, chain C (#2.1) with chain_C, chain C (#), sequence alignment
score = 803.8  
RMSD between 143 pruned atom pairs is 0.009 angstroms; (across all 143 pairs:
0.009)  
  
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 4bmg, chain C (#2.1) with chain_C, chain C (#), sequence alignment
score = 803.8  
RMSD between 143 pruned atom pairs is 0.036 angstroms; (across all 143 pairs:
0.036)  
  
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 4bmg, chain C (#2.1) with chain_C, chain C (#), sequence alignment
score = 803.8  
RMSD between 143 pruned atom pairs is 0.027 angstroms; (across all 143 pairs:
0.027)  
  
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 4bmg, chain C (#2.1) with chain_C, chain C (#), sequence alignment
score = 803.8  
RMSD between 143 pruned atom pairs is 0.010 angstroms; (across all 143 pairs:
0.010)  
  
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 4bmg, chain C (#2.1) with chain_C, chain C (#), sequence alignment
score = 803.8  
RMSD between 143 pruned atom pairs is 0.014 angstroms; (across all 143 pairs:
0.014)  
  
Associated chain_C chain C to chain C with 0 mismatches  
[Repeated 4 time(s)] Chain information for chain_C  
---  
Chain | Description  
1.1/C 1.2/C 1.3/C 1.4/C 1.5/C | No description available  
  

> modeller scores #1.1-5 refresh false

Exception in thread Thread-123:  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\threading.py", line 973, in _bootstrap_inner  
Exception in thread Thread-125:  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\threading.py", line 973, in _bootstrap_inner  
self.run()  
File "D:\ChimeraX\bin\lib\threading.py", line 910, in run  
self.run()  
File "D:\ChimeraX\bin\lib\threading.py", line 910, in run  
self._target(*self._args, **self._kwargs)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\core\tasks.py", line 213, in
_run_thread  
Exception in thread Thread-127:  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\threading.py", line 973, in _bootstrap_inner  
Exception in thread Thread-129:  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\threading.py", line 973, in _bootstrap_inner  
self.run()  
File "D:\ChimeraX\bin\lib\threading.py", line 910, in run  
self.run(*args, **kw)  
TypeError: run() takes 1 positional argument but 6 were given  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\ui\gui.py", line 661, in
customEvent  
func(*args, **kw)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
  
See log for complete Python traceback.  
  
self._target(*self._args, **self._kwargs)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\core\tasks.py", line 213, in
_run_thread  
Exception in thread Thread-131:  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\threading.py", line 973, in _bootstrap_inner  
self.run(*args, **kw)  
TypeError: run() takes 1 positional argument but 6 were given  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\ui\gui.py", line 661, in
customEvent  
func(*args, **kw)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
  
See log for complete Python traceback.  
  
self._target(*self._args, **self._kwargs)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\core\tasks.py", line 213, in
_run_thread  
self.run()  
File "D:\ChimeraX\bin\lib\threading.py", line 910, in run  
self.run()  
File "D:\ChimeraX\bin\lib\threading.py", line 910, in run  
self._target(*self._args, **self._kwargs)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\core\tasks.py", line 213, in
_run_thread  
self._target(*self._args, **self._kwargs)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\core\tasks.py", line 213, in
_run_thread  
self.run(*args, **kw)  
TypeError: run() takes 1 positional argument but 6 were given  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\ui\gui.py", line 661, in
customEvent  
func(*args, **kw)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
  
See log for complete Python traceback.  
  
self.run(*args, **kw)  
TypeError: run() takes 1 positional argument but 6 were given  
self.run(*args, **kw)  
TypeError: run() takes 1 positional argument but 6 were given  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\ui\gui.py", line 661, in
customEvent  
func(*args, **kw)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\ui\gui.py", line 661, in
customEvent  
func(*args, **kw)  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
AttributeError: 'ModellerScoringJob' object has no attribute 'results'  
  
File "D:\ChimeraX\bin\lib\site-packages\chimerax\modeller\scores.py", line
136, in on_finish  
if len(self.results) > 1:  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 - Build 31.0.101.3616
OpenGL renderer: Intel(R) Iris(R) Xe Graphics
OpenGL vendor: Intel

Python: 3.9.11
Locale: zh_CN.cp936
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: windows

Manufacturer: Acer
Model: Swift SF314-71
OS: Microsoft Windows 11 家庭中文版 (Build 22621)
Memory: 16,870,006,784
MaxProcessMemory: 137,438,953,344
CPU: 16 12th Gen Intel(R) Core(TM) i5-12500H
OSLanguage: zh-CN

Installed Packages:
    alabaster: 0.7.12
    appdirs: 1.4.4
    asttokens: 2.1.0
    Babel: 2.11.0
    backcall: 0.2.0
    blockdiag: 3.0.0
    build: 0.8.0
    certifi: 2022.9.24
    cftime: 1.6.2
    charset-normalizer: 2.1.1
    ChimeraX-AddCharge: 1.4
    ChimeraX-AddH: 2.2.1
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2.1
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.6
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.3
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.41.5
    ChimeraX-AtomicLibrary: 8.0.3
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.3
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.1.2
    ChimeraX-BondRot: 2.0.1
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.7.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.3.1
    ChimeraX-ChangeChains: 1.0.2
    ChimeraX-CheckWaters: 1.3
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.2.4
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.2
    ChimeraX-CommandLine: 1.2.4
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.5
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.3.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.2
    ChimeraX-Dicom: 1.1
    ChimeraX-DistMonitor: 1.3
    ChimeraX-DockPrep: 1.0
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ExperimentalCommands: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.2
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.1
    ChimeraX-Hbonds: 2.4
    ChimeraX-Help: 1.2.1
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-Label: 1.1.7
    ChimeraX-ListInfo: 1.1.1
    ChimeraX-Log: 1.1.5
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.8.2
    ChimeraX-Map: 1.1.2
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.1
    ChimeraX-MatchMaker: 2.0.9
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.8
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.6
    ChimeraX-ModelPanel: 1.3.6
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.1
    ChimeraX-MouseModes: 1.1.1
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.9.1
    ChimeraX-PDB: 2.6.8
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.2
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    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: 2.7.2
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.1
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.10
    ChimeraX-STL: 1.0
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.1.3
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.1
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.24.3
    ChimeraX-uniprot: 2.2.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.1.4
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.1
    ChimeraX-WebServices: 1.1.0
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.5
    comtypes: 1.1.10
    cxservices: 1.2
    cycler: 0.11.0
    Cython: 0.29.32
    debugpy: 1.6.4
    decorator: 5.1.1
    docutils: 0.19
    entrypoints: 0.4
    executing: 1.2.0
    filelock: 3.7.1
    fonttools: 4.38.0
    funcparserlib: 1.0.1
    grako: 3.16.5
    h5py: 3.7.0
    html2text: 2020.1.16
    idna: 3.4
    ihm: 0.33
    imagecodecs: 2022.7.31
    imagesize: 1.4.1
    importlib-metadata: 5.1.0
    ipykernel: 6.15.3
    ipython: 8.4.0
    ipython-genutils: 0.2.0
    jedi: 0.18.1
    Jinja2: 3.1.2
    jupyter-client: 7.3.4
    jupyter-core: 5.1.0
    kiwisolver: 1.4.4
    line-profiler: 3.5.1
    lxml: 4.9.1
    lz4: 4.0.2
    MarkupSafe: 2.1.1
    matplotlib: 3.5.2
    matplotlib-inline: 0.1.6
    msgpack: 1.0.4
    nest-asyncio: 1.5.6
    netCDF4: 1.6.0
    networkx: 2.8.5
    numexpr: 2.8.4
    numpy: 1.23.1
    openvr: 1.23.701
    packaging: 21.3
    ParmEd: 3.4.3
    parso: 0.8.3
    pep517: 0.13.0
    pickleshare: 0.7.5
    Pillow: 9.2.0
    pip: 22.2.2
    pkginfo: 1.8.3
    platformdirs: 2.5.4
    prompt-toolkit: 3.0.33
    psutil: 5.9.1
    pure-eval: 0.2.2
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.12.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.9
    PyQt6-commercial: 6.3.1
    PyQt6-Qt6: 6.3.2
    PyQt6-sip: 13.4.0
    PyQt6-WebEngine-commercial: 6.3.1
    PyQt6-WebEngine-Qt6: 6.3.2
    python-dateutil: 2.8.2
    pytz: 2022.6
    pywin32: 303
    pyzmq: 24.0.1
    qtconsole: 5.3.1
    QtPy: 2.3.0
    RandomWords: 0.4.0
    requests: 2.28.1
    scipy: 1.9.0
    setuptools: 65.1.1
    sfftk-rw: 0.7.2
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    Sphinx: 5.1.1
    sphinx-autodoc-typehints: 1.19.1
    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
    stack-data: 0.6.2
    tables: 3.7.0
    tifffile: 2022.7.31
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.2
    traitlets: 5.3.0
    urllib3: 1.26.13
    wcwidth: 0.2.5
    webcolors: 1.12
    wheel: 0.37.1
    wheel-filename: 1.4.1
    WMI: 1.5.1
    zipp: 3.11.0

[Eric Pettersen]

Score fetching had not been updated for changes to core/tasks