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Opened 4 years ago
Closed 3 years ago
#6671 closed defect (fixed)
2D arrows problems
| Reported by: | Owned by: | Eric Pettersen | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Depiction | 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: 1.3 (2021-12-08 23:08:33 UTC)
Description
(Describe the actions that caused this problem to occur here)
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open C:/Users/ZHANGHJ/Desktop/SPEN1-2040/SPEN1-2040~/SPEN1-2040/ranked_0.pdb
Chain information for ranked_0.pdb #1
---
Chain | Description
A | No description available
> style stick
Changed 31518 atom styles
> style stick
Changed 31518 atom styles
> style stick
Changed 31518 atom styles
> background write
Unknown command: background write
> background solid write
Unknown command: background solid write
> ui tool show "Color Actions"
> set bgColor white
> color byhetero
> show cartoons
> hide cartoons
> show cartoons
> show surfaces
[Repeated 1 time(s)]
> hide surfaces
> show surfaces
> hide surfaces
> show atoms
[Repeated 1 time(s)]
> hide atoms
> style stick
Changed 31518 atom styles
> rainbow
> select #0:1-1610
Nothing selected
> select #0:1-1610.A
Expected an objects specifier or a keyword
> select sequence 1-1610
Nothing selected
> view clip false
[Repeated 3 time(s)]
> show target m
> view #1 clip false
[Repeated 1 time(s)]
> show #!1 target m
> view #1 clip false
> hide #!1 target m
> show #!1 target m
> log metadata #1
No models had metadata
> log chains #1
Chain information for ranked_0.pdb #1
---
Chain | Description
A | No description available
> view orient
[Repeated 1 time(s)]
> view
> ui tool show "Model Panel"
[Repeated 1 time(s)]
> log metadata #1
No models had metadata
> log chains #1
Chain information for ranked_0.pdb #1
---
Chain | Description
A | No description available
> ui tool show AlphaFold
> select #1:1-1610.A
Expected an objects specifier or a keyword
> select #1:1-1610.A
Expected an objects specifier or a keyword
> select #1
31518 atoms, 31816 bonds, 1980 residues, 1 model selected
> ~select #1
1 model selected
> alphafold predict #1
> ui tool show ViewDockX
No suitable models found for ViewDockX
> ui mousemode right select
[Repeated 1 time(s)]
> ui mousemode right zoom
> ui mousemode right select
> select /A:1
19 atoms, 18 bonds, 1 residue, 1 model selected
> select clear
Drag select of 5 residues
> select clear
> ui windowfill toggle
> toolshed show
> ui windowfill toggle
> select
31518 atoms, 31816 bonds, 1980 residues, 1 model selected
> ui dockable true "Help Viewer"
> ui dockable false "Help Viewer"
> select spec
Expected an objects specifier or a keyword
> select spec #1:1-1640.A
Expected an objects specifier or a keyword
> select spec #1:1-1640/A
Expected an objects specifier or a keyword
> close
> open 2bbv
Summary of feedback from opening 2bbv fetched from pdb
---
notes | Fetching compressed mmCIF 2bbv from
http://files.rcsb.org/download/2bbv.cif
Fetching CCD CA from http://ligand-expo.rcsb.org/reports/C/CA/CA.cif
2bbv title:
The refined three-dimensional structure of an insect virus At 2.8 angstroms
resolution [more info...]
Chain information for 2bbv #1
---
Chain | Description | UniProt
A B C | protein (black beetle virus capsid protein) | COAT_BBV
D E F | protein (black beetle virus capsid protein) | COAT_BBV
N | RNA (5'-R(*up*CP*up*up*ap*up*ap*up*CP*U)-3') |
Non-standard residues in 2bbv #1
---
CA — calcium ion
2bbv mmCIF Assemblies
---
1| complete icosahedral assembly
2| icosahedral asymmetric unit
3| icosahedral pentamer
4| icosahedral 23 hexamer
5| icosahedral asymmetric unit, std point frame
6| crystal asymmetric unit, crystal frame
> color bychain
> open 2bbv
2bbv title:
The refined three-dimensional structure of an insect virus At 2.8 angstroms
resolution [more info...]
Chain information for 2bbv #2
---
Chain | Description | UniProt
A B C | protein (black beetle virus capsid protein) | COAT_BBV
D E F | protein (black beetle virus capsid protein) | COAT_BBV
N | RNA (5'-R(*up*CP*up*up*ap*up*ap*up*CP*U)-3') |
Non-standard residues in 2bbv #2
---
CA — calcium ion
2bbv mmCIF Assemblies
---
1| complete icosahedral assembly
2| icosahedral asymmetric unit
3| icosahedral pentamer
4| icosahedral 23 hexamer
5| icosahedral asymmetric unit, std point frame
6| crystal asymmetric unit, crystal frame
> color bychain
> lighting full
> lighting shadows false
> lighting flat
> lighting full
> lighting soft
> lighting simple
> lighting soft
> lighting full
> style /b stick
Changed 4764 atom styles
> help select
> color /n teal
[Repeated 1 time(s)]
> ui tool show "Color Actions"
> ribbon /c
[Repeated 12 time(s)]
> ribbon /C
> ribbon /c
[Repeated 4 time(s)]
> select /c
4946 atoms, 4938 bonds, 12 pseudobonds, 776 residues, 6 models selected
> show sel cartoons
> hide sel atoms
> ~select /c
Nothing selected
> ~select /c
Nothing selected
> select /N:4@C5'
2 atoms, 2 residues, 2 models selected
> select up
40 atoms, 42 bonds, 2 residues, 2 models selected
> color sel gold
> select clear
> color sel gold
> select clear
Drag select of 48 atoms, 6 bonds
> select clear
> suface #1
Unknown command: suface #1
> surface #1
> surface #1
> color /n fromatoms
> style solvent sphere
Changed 416 atom styles
> style solvent sphere
Changed 416 atom styles
> color solvent red
> sym #1
2bbv mmCIF Assemblies
---
1| complete icosahedral assembly| 60 copies of chains A-F,N
2| icosahedral asymmetric unit| 1 copy of chains A-F,N
3| icosahedral pentamer| 5 copies of chains A-F,N
4| icosahedral 23 hexamer| 6 copies of chains A-F,N
5| icosahedral asymmetric unit, std point frame| 1 copy of chains A-F,N
6| crystal asymmetric unit, crystal frame| 5 copies of chains A-F,N
> hide #!1 models
> hide #!2 models
> show #!2 models
> show #!1 models
> sym #1 assembly 3 newModel false copies false
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> view
> set silhouettes true
> movie record
> turn y 2 180
> wait 180
> movie encode C:\Users\ZHANGHJ\Desktop\movie3.mp4
Movie saved to \C:Users\\...\Desktop\movie3.mp4
> ui tool show "Volume Viewer"
> ui tool show Updates
> savepos P1
Unknown command: savepos P1
> save position P1
Cannot determine format for 'position'
> ui tool show "Side View"
> ui tool show "Command Line Interface"
> select sequence 1-1610
Nothing selected
> ui tool show "Color Zone"
> ui tool show "Fit in Map"
> movie record
> turn y 2 180
> wait 180
> movie encode C:\Users\ZHANGHJ\Desktop\movie4.mp4
Movie saved to \C:Users\\...\Desktop\movie4.mp4
> set bgColor gray
> set silhouettes true
> set bgColor gray
> set silhouettes true
> set silhouettes flase
Invalid "silhouettes" argument: Expected true or false (or 1 or 0)
> set silhouettes false
> set silhouettes
Missing "silhouettes" keyword's argument
> set silhouettes ture
Invalid "silhouettes" argument: Expected true or false (or 1 or 0)
> set silhouettes true
> open 1grl
Fetching url http://files.rcsb.org/download/1grl.cif failed:
<urlopen error [WinError 10061] 由于目标计算机积极拒绝，无法连接。>
> open 1grl
Fetching url http://files.rcsb.org/download/1grl.cif failed:
<urlopen error [WinError 10061] 由于目标计算机积极拒绝，无法连接。>
> open 1grl
Fetching url http://files.rcsb.org/download/1grl.cif failed: <urlopen error
[WinError 10061] 由于目标计算机积极拒绝，无法连接。>
> open 1grl
Summary of feedback from opening 1grl fetched from pdb
---
note | Fetching compressed mmCIF 1grl from
http://files.rcsb.org/download/1grl.cif
1grl title:
The crystal structure of the bacterial chaperonin groel At 2.8 angstroms [more
info...]
Chain information for 1grl #3
---
Chain | Description | UniProt
A B C D E F G | groel (HSP60 class) | CH60_ECOLI
1grl mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| software_defined_assembly
> hide #!1 models
> hide #!2 models
> lighting simple
> lighting default
[Repeated 1 time(s)]
> show #!2 models
> hide #!2 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!3 models
> show #!3 models
> select #3
29274 atoms, 29001 bonds, 441 pseudobonds, 3626 residues, 2 models selected
> ~select #3
Nothing selected
> show #!2 models
> select #1
7817 atoms, 7813 bonds, 17 pseudobonds, 1208 residues, 3 models selected
> select #2
7817 atoms, 7813 bonds, 17 pseudobonds, 1208 residues, 3 models selected
> ~select #2
Nothing selected
> ui mousemode right "translate selected models"
> ui mousemode right "rotate selected models"
> ui mousemode right "move picked models"
> view matrix models #1,1,0,0,7.9987,0,1,0,-0.39368,0,0,1,-22.596
> ui mousemode right "move picked models"
> undo
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> open 1grl
1grl title:
The crystal structure of the bacterial chaperonin groel At 2.8 angstroms [more
info...]
Chain information for 1grl #4
---
Chain | Description | UniProt
A B C D E F G | groel (HSP60 class) | CH60_ECOLI
1grl mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| software_defined_assembly
> hide #!4 models
> show #!4 models
> hide #!4 models
> hide #!3 models
> show #!4 models
> hide #!4 models
> show #!4 models
> show #!3 models
> sym #1
2bbv mmCIF Assemblies
---
1| complete icosahedral assembly| 60 copies of chains A-F,N
2| icosahedral asymmetric unit| 1 copy of chains A-F,N
3| icosahedral pentamer| 5 copies of chains A-F,N
4| icosahedral 23 hexamer| 6 copies of chains A-F,N
5| icosahedral asymmetric unit, std point frame| 1 copy of chains A-F,N
6| crystal asymmetric unit, crystal frame| 5 copies of chains A-F,N
> sym #1 assembly 3 newModel false copies false
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> close #4
> ui mousemode right "translate selected models"
> select #1
7817 atoms, 7813 bonds, 17 pseudobonds, 1208 residues, 3 models selected
> select #2
7817 atoms, 7813 bonds, 17 pseudobonds, 1208 residues, 3 models selected
> select #1
7817 atoms, 7813 bonds, 17 pseudobonds, 1208 residues, 3 models selected
> select #2
7817 atoms, 7813 bonds, 17 pseudobonds, 1208 residues, 3 models selected
> select #1
7817 atoms, 7813 bonds, 17 pseudobonds, 1208 residues, 3 models selected
> select #2
7817 atoms, 7813 bonds, 17 pseudobonds, 1208 residues, 3 models selected
> ui mousemode right select
Drag select of 2bbv_A SES surface, 2bbv_A SES surface, 2bbv_A SES surface,
2bbv_A SES surface, 2bbv_A SES surface, 2bbv_B SES surface, 2bbv_B SES
surface, 2bbv_B SES surface, 2bbv_B SES surface, 175211 of 246160 triangles,
2bbv_B SES surface, 2bbv_C SES surface, 2bbv_C SES surface, 2bbv_C SES
surface, 2bbv_C SES surface, 241845 of 259048 triangles, 2bbv_C SES surface,
149625 of 259048 triangles, 2bbv_D SES surface, 2bbv_D SES surface, 2bbv_D SES
surface, 2bbv_D SES surface, 2bbv_D SES surface, 2bbv_E SES surface, 2bbv_E
SES surface, 2bbv_E SES surface, 2bbv_E SES surface, 12278 of 22210 triangles,
2bbv_E SES surface, 2bbv_F SES surface, 2bbv_F SES surface, 2bbv_F SES
surface, 2bbv_F SES surface, 2bbv_F SES surface, 9055 of 22508 triangles,
2bbv_N SES surface, 2bbv_N SES surface, 2bbv_N SES surface, 2bbv_N SES
surface, 9924 of 34084 triangles, 2bbv_N SES surface, 570 of 34084 triangles,
30905 atoms, 1805 residues, 47 pseudobonds, 13560 bonds
> select clear
Drag select of 2bbv_A SES surface, 2bbv_A SES surface, 2bbv_A SES surface,
2bbv_A SES surface, 2bbv_A SES surface, 2bbv_B SES surface, 2bbv_B SES
surface, 190754 of 246160 triangles, 2bbv_B SES surface, 2bbv_B SES surface,
2bbv_B SES surface, 2bbv_C SES surface, 2bbv_C SES surface, 242722 of 259048
triangles, 2bbv_C SES surface, 177074 of 259048 triangles, 2bbv_C SES surface,
2bbv_C SES surface, 2bbv_D SES surface, 2bbv_D SES surface, 2bbv_D SES
surface, 2bbv_D SES surface, 2bbv_D SES surface, 2bbv_E SES surface, 2bbv_E
SES surface, 11203 of 22210 triangles, 2bbv_E SES surface, 2bbv_E SES surface,
2bbv_E SES surface, 2bbv_F SES surface, 2bbv_F SES surface, 2bbv_F SES
surface, 9613 of 22508 triangles, 2bbv_F SES surface, 2bbv_F SES surface,
2bbv_N SES surface, 2bbv_N SES surface, 5499 of 34084 triangles, 2bbv_N SES
surface, 2bbv_N SES surface, 31027 atoms, 1847 residues, 46 pseudobonds, 13716
bonds
> ui mousemode right "translate selected models"
> view matrix models
> #1,1,0,0,-16.69,0,1,0,-9.9657,0,0,1,-34.204,#2,1,0,0,-16.69,0,1,0,-9.9657,0,0,1,-34.204
> view matrix models
> #1,1,0,0,-16.896,0,1,0,-9.9018,0,0,1,-33.963,#2,1,0,0,-16.896,0,1,0,-9.9018,0,0,1,-33.963
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.99973,0.0063419,0.02251,-8.2473,-0.0063517,0.99998,0.00036145,-19.109,-0.022507,-0.00050432,0.99975,-67.206,#2,0.99973,0.0063419,0.02251,-8.2473,-0.0063517,0.99998,0.00036145,-19.109,-0.022507,-0.00050432,0.99975,-67.206
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.99973,0.0063419,0.02251,-2.4523,-0.0063517,0.99998,0.00036145,-14.279,-0.022507,-0.00050432,0.99975,-67.496,#2,0.99973,0.0063419,0.02251,-2.4523,-0.0063517,0.99998,0.00036145,-14.279,-0.022507,-0.00050432,0.99975,-67.496
> view matrix models
> #1,0.99973,0.0063419,0.02251,-1.5095,-0.0063517,0.99998,0.00036145,-7.5074,-0.022507,-0.00050432,0.99975,-70.998,#2,0.99973,0.0063419,0.02251,-1.5095,-0.0063517,0.99998,0.00036145,-7.5074,-0.022507,-0.00050432,0.99975,-70.998
> view matrix models
> #1,0.99973,0.0063419,0.02251,4.1536,-0.0063517,0.99998,0.00036145,-29.971,-0.022507,-0.00050432,0.99975,-55.591,#2,0.99973,0.0063419,0.02251,4.1536,-0.0063517,0.99998,0.00036145,-29.971,-0.022507,-0.00050432,0.99975,-55.591
> view matrix models
> #1,0.99973,0.0063419,0.02251,-4.7739,-0.0063517,0.99998,0.00036145,-35.168,-0.022507,-0.00050432,0.99975,-56.44,#2,0.99973,0.0063419,0.02251,-4.7739,-0.0063517,0.99998,0.00036145,-35.168,-0.022507,-0.00050432,0.99975,-56.44
> view matrix models
> #1,0.99973,0.0063419,0.02251,-5.1301,-0.0063517,0.99998,0.00036145,-38.096,-0.022507,-0.00050432,0.99975,-55.827,#2,0.99973,0.0063419,0.02251,-5.1301,-0.0063517,0.99998,0.00036145,-38.096,-0.022507,-0.00050432,0.99975,-55.827
> view matrix models
> #1,0.99973,0.0063419,0.02251,65.346,-0.0063517,0.99998,0.00036145,-50.217,-0.022507,-0.00050432,0.99975,-41.509,#2,0.99973,0.0063419,0.02251,65.346,-0.0063517,0.99998,0.00036145,-50.217,-0.022507,-0.00050432,0.99975,-41.509
> view matrix models
> #1,0.99973,0.0063419,0.02251,-14.926,-0.0063517,0.99998,0.00036145,-85.928,-0.022507,-0.00050432,0.99975,-46.469,#2,0.99973,0.0063419,0.02251,-14.926,-0.0063517,0.99998,0.00036145,-85.928,-0.022507,-0.00050432,0.99975,-46.469
> view matrix models
> #1,0.99973,0.0063419,0.02251,-32.081,-0.0063517,0.99998,0.00036145,-74.309,-0.022507,-0.00050432,0.99975,-51.941,#2,0.99973,0.0063419,0.02251,-32.081,-0.0063517,0.99998,0.00036145,-74.309,-0.022507,-0.00050432,0.99975,-51.941
> ui mousemode right "translate selected models"
[Repeated 1 time(s)]
> view matrix models
> #1,0.99973,0.0063419,0.02251,-33.396,-0.0063517,0.99998,0.00036145,-55.134,-0.022507,-0.00050432,0.99975,-56.551,#2,0.99973,0.0063419,0.02251,-33.396,-0.0063517,0.99998,0.00036145,-55.134,-0.022507,-0.00050432,0.99975,-56.551
> view matrix models
> #1,0.99973,0.0063419,0.02251,-26.233,-0.0063517,0.99998,0.00036145,-88.93,-0.022507,-0.00050432,0.99975,-47.633,#2,0.99973,0.0063419,0.02251,-26.233,-0.0063517,0.99998,0.00036145,-88.93,-0.022507,-0.00050432,0.99975,-47.633
> view matrix models
> #1,0.99973,0.0063419,0.02251,16.35,-0.0063517,0.99998,0.00036145,-109.57,-0.022507,-0.00050432,0.99975,-35.929,#2,0.99973,0.0063419,0.02251,16.35,-0.0063517,0.99998,0.00036145,-109.57,-0.022507,-0.00050432,0.99975,-35.929
> view matrix models
> #1,0.99973,0.0063419,0.02251,-26.571,-0.0063517,0.99998,0.00036145,-58.99,-0.022507,-0.00050432,0.99975,-54.55,#2,0.99973,0.0063419,0.02251,-26.571,-0.0063517,0.99998,0.00036145,-58.99,-0.022507,-0.00050432,0.99975,-54.55
> view matrix models
> #1,0.99973,0.0063419,0.02251,-65.934,-0.0063517,0.99998,0.00036145,-33.686,-0.022507,-0.00050432,0.99975,-66.795,#2,0.99973,0.0063419,0.02251,-65.934,-0.0063517,0.99998,0.00036145,-33.686,-0.022507,-0.00050432,0.99975,-66.795
> view matrix models
> #1,0.99973,0.0063419,0.02251,-119.29,-0.0063517,0.99998,0.00036145,-6.2282,-0.022507,-0.00050432,0.99975,-81.825,#2,0.99973,0.0063419,0.02251,-119.29,-0.0063517,0.99998,0.00036145,-6.2282,-0.022507,-0.00050432,0.99975,-81.825
> view matrix models
> #1,0.99973,0.0063419,0.02251,-97.133,-0.0063517,0.99998,0.00036145,-36.673,-0.022507,-0.00050432,0.99975,-71.219,#2,0.99973,0.0063419,0.02251,-97.133,-0.0063517,0.99998,0.00036145,-36.673,-0.022507,-0.00050432,0.99975,-71.219
> view matrix models
> #1,0.99973,0.0063419,0.02251,-32.083,-0.0063517,0.99998,0.00036145,-55.243,-0.022507,-0.00050432,0.99975,-56.311,#2,0.99973,0.0063419,0.02251,-32.083,-0.0063517,0.99998,0.00036145,-55.243,-0.022507,-0.00050432,0.99975,-56.311
> view matrix models
> #1,0.99973,0.0063419,0.02251,-19.417,-0.0063517,0.99998,0.00036145,-62.873,-0.022507,-0.00050432,0.99975,-52.488,#2,0.99973,0.0063419,0.02251,-19.417,-0.0063517,0.99998,0.00036145,-62.873,-0.022507,-0.00050432,0.99975,-52.488
> hide #!1 models
> hide #!2 models
> open 1080 fromDatabase emdb
Fetching url
ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-1080/map/emd_1080.map.gz
failed:
<urlopen error ftp error: timeout('timed out')>
> open 1080 fromDatabase emdb
Fetching url
ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-1080/map/emd_1080.map.gz
failed:
<urlopen error ftp error: timeout('timed out')>
> open 1080 fromDatabase emdb
Fetching url
ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-1080/map/emd_1080.map.gz
failed: <urlopen error ftp error: timeout('timed out')>
> open 1080 fromDatabase emdb
Fetching url
ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-1080/map/emd_1080.map.gz
failed: <urlopen error ftp error: timeout('timed out')>
> open C:/Users/ZHANGHJ/Downloads/emd_1080.map/emd_1080.map
Opened emd_1080.map as #4, grid size 100,100,100, pixel 2.7, shown at level
1.68, step 1, values float32
> select #2
7817 atoms, 7813 bonds, 17 pseudobonds, 1208 residues, 3 models selected
> select #1
7817 atoms, 7813 bonds, 17 pseudobonds, 1208 residues, 3 models selected
> ~select #1
7 models selected
> volume #4 level 0.9
> ui mousemode right "contour level"
> volume #4 level 0.6887
> volume #4 level 0.7073
> volume #4 level 0.8351
> volume #4 level 0.7536
[Repeated 1 time(s)]
> volume #4 level 0.7203
> volume #4 level 0.6962
> volume #4 level 0.6702
> volume #4 level 0.6294
> volume #4 level 0.5776
> volume #4 level 0.5257
> volume #4 level 0.5146
> volume #4 level 0.509
> volume #4 level 0.5479
> volume #4 level 0.635
> volume #4 level 0.7073
> volume #4 level 0.7795
> volume #4 level 0.8852
> volume #4 level 0.9371
> volume #4 level 0.9723
> volume #4 level 1.056
> volume #4 level 1.156
> volume #4 level 1.178
> volume #4 level 1.222
> volume #4 level 1.274
> volume #4 level 1.287
> volume #4 encloseVolume le6 step 1 color tan
Invalid "encloseVolume" argument: Expected a number
> volume #4 encloseVolume 1e6 step 1 color tan
> ui mousemode right "translate selected models"
> select #3
29274 atoms, 29001 bonds, 441 pseudobonds, 3626 residues, 2 models selected
> view matrix models #3,1,0,0,7.9538,0,1,0,3.7366,0,0,1,67.133
> view matrix models #3,1,0,0,45.485,0,1,0,0.52117,0,0,1,71.098
> ui mousemode right "rotate selected models"
> view matrix models
> #3,0.99013,-0.041154,-0.13401,40.52,0.048709,0.99737,0.05359,4.4549,0.13145,-0.059588,0.98953,76.465
> view matrix models
> #3,0.83521,-0.071849,0.54522,57.236,0.10253,0.99439,-0.026029,4.0354,-0.54029,0.077643,0.83789,42.237
> view matrix models
> #3,-0.13373,-0.65121,0.74702,23.417,0.3678,0.66734,0.64759,39.014,-0.92024,0.36136,0.15027,1.9186
> view matrix models
> #3,-0.91177,-0.096976,0.3991,-22.709,0.25588,0.62596,0.73668,37.33,-0.32126,0.7738,-0.54591,3.1278
> view matrix models
> #3,-0.80155,0.57084,-0.17795,-38.748,0.26919,0.61025,0.74507,38.211,0.53391,0.54931,-0.64281,36.819
> view matrix models
> #3,0.11326,0.96827,0.22279,13.695,0.63085,-0.24331,0.73677,54.669,0.7676,0.0571,-0.63839,47.704
> view matrix models
> #3,0.46225,0.88488,-0.057507,19.167,0.34405,-0.1192,0.93136,48.865,0.81729,-0.4503,-0.35954,60.137
> view matrix models
> #3,0.043053,0.53093,-0.84632,-25.395,0.47784,0.73299,0.48414,38.03,0.87739,-0.42525,-0.22214,67.398
> view matrix models
> #3,0.00026825,0.55655,-0.83082,-26.736,0.96946,-0.20389,-0.13627,39.169,-0.24524,-0.80541,-0.53961,8.8711
> view matrix models
> #3,0.24106,0.96826,-0.066102,9.2607,0.96749,-0.24512,-0.062315,41.683,-0.07654,-0.048931,-0.99587,-0.63934
> view matrix models
> #3,-0.58732,0.80646,0.068377,-21.436,0.80931,0.5861,0.038863,37.177,-0.0087342,0.078163,-0.9969,2.0524
> ui mousemode right "translate selected models"
> view matrix models
> #3,-0.58732,0.80646,0.068377,-21.349,0.80931,0.5861,0.038863,33.964,-0.0087342,0.078163,-0.9969,0.73763
> view matrix models
> #3,-0.58732,0.80646,0.068377,-23.389,0.80931,0.5861,0.038863,37.566,-0.0087342,0.078163,-0.9969,0.60685
> view matrix models
> #3,-0.58732,0.80646,0.068377,-24.954,0.80931,0.5861,0.038863,37.422,-0.0087342,0.078163,-0.9969,0.41704
> ui mousemode right select
> select clear
> ui mousemode right select
> fitmap #3 inMap #4
Fit molecule 1grl (#3) to map emd_1080.map (#4) using 29274 atoms
average map value = 1.33, steps = 68
shifted from previous position = 1.79
rotated from previous position = 3.93 degrees
atoms outside contour = 3694, contour level = 0.82501
Position of 1grl (#3) relative to emd_1080.map (#4) coordinates:
Matrix rotation and translation
-0.62432307 0.78087395 0.02136771 -27.24977747
0.78116390 0.62402063 0.01952473 34.16249403
0.00191247 0.02888143 -0.99958102 0.03599921
Axis 0.43337607 0.90111310 0.01342992
Axis point -21.84049927 0.00000000 -0.13033089
Rotation angle (degrees) 179.38147333
Shift along axis 18.97535298
> volume #4 transparency 0.5
> volume #4 color #4c41337f
> volume #4 color #bfa37f7f
> volume #4 color #d6b78f7f
> volume #4 color #c6a9847f
> volume #4 color #d3b58d7f
> molmap #3 10
Opened 1grl map 10 as #5, grid size 63,63,41, pixel 3.33, shown at level
0.0611, step 1, values float32
> volume #5 style mesh
> volume subtract #1 #3 minRms true
volume subtract operation requires exactly two volumes
> volume subtract #4 #5 minRms true
Opened volume difference as #6, grid size 100,100,100, pixel 2.7, shown at
step 1, values float32
Minimum RMS scale factor for "1grl map 10 #5" above level 0.061077 is 4.5559
> volume #6 color pink
> volume #6 color pink transparency 0
> hide atoms
> show ribbons
> close
> close
> set bgColor black
> set silhouettes false
> open 1a0m fromDatabase eds
Summary of feedback from opening 1a0m fetched from eds
---
note | Fetching map 1a0m from
http://www.ebi.ac.uk/pdbe/coordinates/files/1a0m.ccp4
Opened eds 1a0m as #1, grid size 97,101,88, pixel 0.37,0.37,0.367, shown at
level 2.28, step 1, values float32
> volume #1 level 3.602
> volume #1 level 1.085
> open 1a0m
Summary of feedback from opening 1a0m fetched from pdb
---
note | Fetching compressed mmCIF 1a0m from
http://files.rcsb.org/download/1a0m.cif
1a0m title:
1.1 angstrom crystal structure of A-conotoxin [TYR15]-epi [more info...]
Chain information for 1a0m #2
---
Chain | Description | UniProt
A B | α-conotoxin [TYR15]-epi | CXA1_CONEP
Non-standard residues in 1a0m #2
---
NH2 — amino group
> hide ribbons
> show atoms
> volume #1 level 1.0 style ,esh
Invalid "style" argument: Should be one of 'image', 'mesh', 'solid', or
'surface'
> volume #1 level 1.0 style mesh
> volume zone #1 nwar #2 range 2
Expected a keyword
> volume zone #1 nearAtoms #2 range 2
> hide #2 models
> show #2 models
> hide #!1 models
> show #!1 models
> volume zone #1 nearAtoms #2 range 3
> volume zone #1 nearAtoms #2 range 10
> volume zone #1 nearAtoms #2 range 1
> volume zone #1 nearAtoms #2 range 2
> volume #1 level 0.5 transparency 0.6
> cloes
Unknown command: cloes
> close
[Repeated 1 time(s)]
> open 1273 fromDatabase emdb
Fetching url
ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-1273/map/emd_1273.map.gz
failed:
<urlopen error ftp error: timeout('timed out')>
> ui windowfill toggle
[Repeated 3 time(s)]
> buttonpanel Opioids rows 6 columns 4 fill columns
> buttonpanel Opioids add alfentanil command "hide models; show #1.1 model"
> hide models
> show #1.1 models
> buttonpanel Opioids rows 6 columns 4 fill columns
[Repeated 10 time(s)]
> buttonpanel Opioids rows 4 columns 4 fill columns
> open C:\Users\ZHANGHJ\Desktop\SPEN1-2040\SPEN1-2040~\SPEN1-2040\ranked_0.pdb
> format pdb
No such file/path:
C:\Users\ZHANGHJ\Desktop\SPEN1-2040\SPEN1-2040~\SPEN1-2040\ranked_0.pdb
> open
> C:/Users/ZHANGHJ/Desktop/SPEN/SPEN1-2040/SPEN1-2040~/SPEN1-2040/SPEN1-2040ranked_0.pdb
Chain information for SPEN1-2040ranked_0.pdb #1
---
Chain | Description
A | No description available
> set bgColor white
> select #1 1-20
Expected a keyword
> ui mousemode right select
[Repeated 1 time(s)]
> select /A:1777
14 atoms, 14 bonds, 1 residue, 1 model selected
> select #1:1-20
341 atoms, 344 bonds, 20 residues, 1 model selected
> select 1-20
Expected an objects specifier or a keyword
> select /A:1-20
341 atoms, 344 bonds, 20 residues, 1 model selected
Drag select of 16 residues
[Repeated 1 time(s)]
> select /A:1-20
341 atoms, 344 bonds, 20 residues, 1 model selected
Drag select of 7 residues
> select clear
Drag select of 15 residues
Drag select of 5 residues
> select clear
[Repeated 2 time(s)]
> select /A:1629
11 atoms, 10 bonds, 1 residue, 1 model selected
> open C:/Users/ZHANGHJ/Desktop/SPEN/SPEN1621-3664/SPEN1621-3664ranked_0.pdb
Chain information for SPEN1621-3664ranked_0.pdb #2
---
Chain | Description
A | No description available
> select /A:1-20
627 atoms, 634 bonds, 40 residues, 2 models selected
> select #1/A:1-20
341 atoms, 344 bonds, 20 residues, 1 model selected
> select #1/A:1-20 #2/A:90-100
494 atoms, 497 bonds, 31 residues, 2 models selected
> 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 SPEN1-2040ranked_0.pdb, chain A (#1) with
SPEN1621-3664ranked_0.pdb, chain A (#2), sequence alignment score = 1713.7
RMSD between 15 pruned atom pairs is 1.117 angstroms; (across all 360 pairs:
88.589)
> 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 SPEN1-2040ranked_0.pdb, chain A (#1) with
SPEN1621-3664ranked_0.pdb, chain A (#2), sequence alignment score = 1713.7
RMSD between 15 pruned atom pairs is 1.117 angstroms; (across all 360 pairs:
88.589)
> select #1/A:1620-1980 #2/A:1-360
10873 atoms, 10982 bonds, 721 residues, 2 models selected
> ui mousemode right translate
> ui mousemode right zoom
> select #1/A:1620-1980 #2/A:1-360 color red
Expected a keyword
> color red
> ~colordef red
Can not remove builtin color
> color #1 dark blue
> color #2 darkred pink
Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels',
'models', 'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword
> color #2 deep pink
> color sel red
> select clear
Drag select of 3 residues
> select clear
Drag select of 5 residues
> ui mousemode right "translate selected models"
> view matrix models #1,1,0,0,-38.73,0,1,0,-30.687,0,0,1,22.149
> view matrix models #1,1,0,0,-57.299,0,1,0,-57.977,0,0,1,50.588
> view matrix models #1,1,0,0,-70.559,0,1,0,-64.98,0,0,1,53.206
> view matrix models #1,1,0,0,-93.755,0,1,0,-81.735,0,0,1,64.17
> select #2/A:1-360
5430 atoms, 5484 bonds, 360 residues, 1 model selected
> color sel blue
> select clear
> hide ribbons #1:1-1320
Expected ',' or a keyword
> ~ribbon #1:1-1320
> ~ribbon #1:1-1620
> ~ribbon #2:361-3664
> hide #1 models
> show #1 models
> ribbon #1,2
> show atoms #1:1-20 style stick
Expected ',' or a keyword
> atom #1:1-20 style stick
Unknown command: atom #1:1-20 style stick
> show atoms #1:1-20
Expected ',' or a keyword
> atom #1:1-20
Unknown command: atom #1:1-20
> atoms #1:1-20
Unknown command: atoms #1:1-20
> surface #1:1-20
> surface #1:1-50
> surface #1:1-80
> surface #1:1-80 style mesh
Expected a keyword
> surface #1:1-80 style mesh
Expected a keyword
> style mesh
Expected a keyword
> view
> ui tool show "Show Volume Menu"
> ui tool show "Show Sequence Viewer"
> sequence chain #1/A
Alignment identifier is 1/A
> open https://www.rbvi.ucsf.edu/chimerax/tutorials.html
Opened https://www.rbvi.ucsf.edu/chimerax/tutorials.html
> ui tool show "Model Loops"
> log metadata #1-2
No models had metadata
> log chains #1-2
Chain information for SPEN1-2040ranked_0.pdb #1
---
Chain | Description
A | No description available
Chain information for SPEN1621-3664ranked_0.pdb #2
---
Chain | Description
A | No description available
> ui mousemode right distance
> ui mousemode right select
Drag select of 10 residues
> select clear
Drag select of 7 residues
> show sel target ab
> select clear
> ui mousemode right distance
> distance #2/A:159@HB3 #2/A:160@HG22
Distance between SPEN1621-3664ranked_0.pdb #2/A ALA 159 HB3 and THR 160 HG22:
3.488Å
> distance #2/A:162@OD1 #2/A:162@OD2
Distance between SPEN1621-3664ranked_0.pdb #2/A ASP 162 OD1 and OD2: 2.227Å
> ui mousemode right distance
> ui mousemode right select
Drag select of 6 atoms, 3 bonds, 1 pseudobonds
> select clear
[Repeated 3 time(s)]
> ui tool show ViewDockX
No suitable models found for ViewDockX
> ui tool show Distances
> ~distance #2/A:159@HB3 #2/A:160@HG22
> ~distance #2/A:162@OD1 #2/A:162@OD2
Exactly two atoms must be selected!
> 2dlabels
> open 2dlabel
'2dlabel' has no suffix
> help 2dlabel
> ui mousemode right label
> label delete residues
[Repeated 3 time(s)]
> ui mousemode right "move label"
> ui mousemode right label
> 2dlabels xxx
Expected 'all' or a 2d label name or a label models specifier or a keyword
> 2dlabels text SPEN color black size 48 xpos 1 ypos 1
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> 2dlabels text SPEN color black size 48 xpos 0.5 ypos 1
> ui mousemode right label
[Repeated 2 time(s)]
> label delete residues
[Repeated 6 time(s)]
> ui mousemode right label
> label #2/A:1774
> label #2/A:1773
> label delete residues
> label #2/A:1773
> ui mousemode right "move label"
> hide #3.1 models
> show #3.1 models
> hide #3.1 models
> show #3.1 models
> help 2dlabel
> interfaces ~solvent
0 buried areas:
> interfaces ~solvent
0 buried areas:
No atomic structure models chosen
> 2dlabels text SPEN color black size 800 xpos 0.5 ypos 1
> 2dlabels text SPEN color black size 800 xpos 0.5 ypos 0.5
> 2dlabels text SPEN color black size 100 xpos 0.2 ypos 0.2
> 2dlabels #3.5 xpos 0.193 ypos 0.683
> close #3
> 2dlabels text SPEN color black size 48 xpos 0.2 ypos 0.2
> 2dlabels #4.1 xpos 0.376 ypos 0.736
> 2dlabels #4.1 xpos 0.369 ypos 0.735
[Repeated 1 time(s)]
> 2dlabels #4.1 xpos 0.320 ypos 0.652
> 2dlabels #4.1 xpos 0.385 ypos 0.509
> 2dlabels #4.1 xpos 0.349 ypos 0.796
> 2dlabels text test color chocolate size 48 xpos 0.2 ypos 0.2 bgColor black
> margin 12 outline 12
> 2dlabels #4.2 xpos 0.624 ypos 0.628
> 2dlabels text test color chocolate size 48 xpos 0.2 ypos 0.2 bgColor black
> margin 12
> 2dlabels #4.3 xpos 0.489 ypos 0.260
> 2dlabels text test color chocolate size 48 xpos 0.2 ypos 0.2 bgColor black
> 2dlabels #4.4 xpos 0.489 ypos 0.129
> 2dlabels #4.3 xpos 0.646 ypos 0.331
> 2dlabels text test color chocolate size 48 xpos 0.2 ypos 0.2 font aa
> 2dlabels #4.5 xpos 0.229 ypos 0.184
> 2dlabels text test color chocolate size 48 xpos 0.2 ypos 0.2 font times
> 2dlabels #4.5 xpos 0.210 ypos 0.104
> 2dlabels text test color chocolate size 48 xpos 0.2 ypos 0.2 font times new
> roman
Expected a keyword
> 2dlabels text test color chocolate size 48 xpos 0.2 ypos 0.2
> 2dlabels text test color chocolate size 48 xpos 0.2 ypos 0.2 italic true
> 2dlabels #4.6 xpos 0.332 ypos 0.645
> 2dlabels #4.7 xpos 0.011 ypos 0.207
> 2dlabels #4.7 xpos 0.012 ypos 0.207
> 2dlabels #4.8 xpos 0.259 ypos 0.200
> 2dlabels text test color chocolate size 48 xpos 0.2 ypos 0.2 italic true
> bold true
> 2dlabels #4.8 xpos 0.725 ypos 0.131
> 2dlabels text test color chocolate size 48 xpos 0.2 ypos 0.2 font b
> 2dlabels #4.5 xpos 0.254 ypos 0.055
> 2dlabels #4.9 xpos 0.207 ypos 0.385
> 2dlabels #4.10 xpos 0.206 ypos 0.191
> 2dlabels text test color chocolate size 48 xpos 0.2 ypos 0.2 font c
> 2dlabels #4.10 xpos 0.040 ypos 0.089
> 2dlabels text "the α subunit"
> 2dlabels #4.12 xpos 0.048 ypos 0.920
> 2dlabels text "reactants → products"
> 2dlabels #4.13 xpos 0.199 ypos 0.529
> 2dlabels arrow
No 2D arrows in session
> 2dlabels arrow start 0.1,0.2 end 0.3,0.5
> 2dlabels #4.9 xpos 0.250 ypos 0.288
[Repeated 1 time(s)]
> 2dlabels #4.7 xpos 0.038 ypos 0.147
> 2dlabels #4.7 xpos 0.021 ypos 0.171
> 2dlabels #4.7 xpos 0.040 ypos 0.157
> 2dlabels #4.7 xpos 0.041 ypos 0.157
> 2dlabels arrow #5.1 end 0.302,0.496
> 2dlabels arrow #5.1 end 0.311,0.481
> 2dlabels arrow #5.1 end 0.141,0.349
> 2dlabels arrow #5.1 end 0.161,0.451
> 2dlabels arrow #5.1 end 0.159,0.379
> 2dlabels #4.7 xpos 0.361 ypos 0.205
> 2dlabels #4.10 xpos 0.168 ypos 0.021
> 2dlabels arrow #5.1 start 0.033,0.200
> 2dlabels arrow #5.1 end 0.169,0.352
> 2dlabels arrow start 0.1,0.2 end 0.3,0.5 weight 6
> 2dlabels arrow start 0.1,0.2 end 0.3,0.5 weight 1
[Repeated 1 time(s)]
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> 2dlabels #4.9 xpos 0.325 ypos 0.319
> 2dlabels arrow #5.2 end 0.277,0.760
> 2dlabels arrow #5.2 start 0.109,0.604
> close #5.4
> hide #5.3 models
> hide #5.2 models
> hide #5.1 models
> 2dlabels arrow start 0.1,0.2 end 0.3,0.5 weight 0.5
> 2dlabels arrow #5.3 end 0.127,0.438
> 2dlabels arrow #5.3 start 0.025,0.364
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\movelabel.py", line 62, in mouse_drag
arrow(ses, [lbl], **{self._arr_part: (xpos, ypos)})
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 43, in arrow
_update_arrow(session, a, **cmd_kw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 119, in _update_arrow
a.update_drawing()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\label\arrows.py", line 402, in update_drawing
d.display = self.visibility
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 255, in __setattr__
super(Drawing, self).__setattr__(key, value)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 309, in _set_display
Drawing.set_display(self, display)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 368, in set_display
dp = self.display_positions
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 382, in get_display_positions
dp = ones((len(self._positions),), bool)
See log for complete Python traceback.
> 2dlabels arrow # end 0.218,0.425
Expected an arrow models specifier or a keyword
OpenGL version: 3.3.13596 Core Profile Forward-Compatible Context 20.10.22.14 27.20.11022.14001
OpenGL renderer: AMD Radeon(TM) Graphics
OpenGL vendor: ATI Technologies Inc.
Manufacturer: HUAWEI
Model: KLVL-WXX9
OS: Microsoft Windows 11 家庭中文版 (Build 22000)
Memory: 16,505,966,592
MaxProcessMemory: 137,438,953,344
CPU: 12 AMD Ryzen 5 4600H with Radeon Graphics
OSLanguage: zh-CN
Locale: ('zh_CN', 'cp936')
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: 2.0.9
ChimeraX-AddCharge: 1.2.2
ChimeraX-AddH: 2.1.11
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: 4.2
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.0
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.6.1
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: 1.3
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.2
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1.5
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: 1.1
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: 1.1.4
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: 2.0.4
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: 1.2.6
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: 1.7
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: 1.0.1
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0.1
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5
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: 1.6.1
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: 1.1
ChimeraX-ToolshedUtils: 1.2
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.13.7
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: 3.6.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.21
imagecodecs: 2021.4.28
imagesize: 1.3.0
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: 2.8.0
numpy: 1.21.2
openvr: 1.16.801
packaging: 21.3
ParmEd: 3.2.0
parso: 0.8.3
pickleshare: 0.7.5
Pillow: 8.3.2
pip: 21.2.4
pkginfo: 1.7.1
prompt-toolkit: 3.0.23
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: 3.0.6
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: 1.11.3
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: 2.2.0
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 → Depiction |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → 2D arrows problems |
comment:2 by , 3 years ago
| Resolution: | → fixed |
|---|---|
| Status: | accepted → closed |
Fixed by this commit: https://github.com/RBVI/ChimeraX/commit/24b002e1a46ac232a7026efc9af3f3315554a803
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Two problems: (1) clicking to draw arrow will get arrows whose model is hidden (and then reveal it), and (2) will also get closed arrows, producing this problem. Should check if similar things happen for 2D labels.