Opened 4 years ago
Closed 4 years ago
#5563 closed defect (duplicate)
vseries slider: list index out of range
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Volume Data | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-10.16-x86_64-i386-64bit
ChimeraX Version: 1.2.5 (2021-05-24 04:13:57 UTC)
Description
(Describe the actions that caused this problem to occur here)
Log:
UCSF ChimeraX version: 1.2.5 (2021-05-24)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_000.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_001.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_002.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_003.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_004.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_005.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_006.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_007.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_008.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_009.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_010.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_011.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_012.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_013.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_014.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_015.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_016.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_017.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_018.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_019.mrc
Opened frame_000.mrc as #1.1, grid size 256,256,256, pixel 1.18, shown at
level 0.365, step 1, values float32
Opened frame_001.mrc as #1.2, grid size 256,256,256, pixel 1.18, shown at
level 0.359, step 1, values float32
Opened frame_002.mrc as #1.3, grid size 256,256,256, pixel 1.18, shown at
level 0.354, step 1, values float32
Opened frame_003.mrc as #1.4, grid size 256,256,256, pixel 1.18, shown at
level 0.349, step 1, values float32
Opened frame_004.mrc as #1.5, grid size 256,256,256, pixel 1.18, shown at
level 0.345, step 1, values float32
Opened frame_005.mrc as #1.6, grid size 256,256,256, pixel 1.18, shown at
level 0.342, step 1, values float32
Opened frame_006.mrc as #1.7, grid size 256,256,256, pixel 1.18, shown at
level 0.34, step 1, values float32
Opened frame_007.mrc as #1.8, grid size 256,256,256, pixel 1.18, shown at
level 0.338, step 1, values float32
Opened frame_008.mrc as #1.9, grid size 256,256,256, pixel 1.18, shown at
level 0.336, step 1, values float32
Opened frame_009.mrc as #1.10, grid size 256,256,256, pixel 1.18, shown at
level 0.334, step 1, values float32
Opened frame_010.mrc as #1.11, grid size 256,256,256, pixel 1.18, shown at
level 0.334, step 1, values float32
Opened frame_011.mrc as #1.12, grid size 256,256,256, pixel 1.18, shown at
level 0.333, step 1, values float32
Opened frame_012.mrc as #1.13, grid size 256,256,256, pixel 1.18, shown at
level 0.334, step 1, values float32
Opened frame_013.mrc as #1.14, grid size 256,256,256, pixel 1.18, shown at
level 0.335, step 1, values float32
Opened frame_014.mrc as #1.15, grid size 256,256,256, pixel 1.18, shown at
level 0.338, step 1, values float32
Opened frame_015.mrc as #1.16, grid size 256,256,256, pixel 1.18, shown at
level 0.342, step 1, values float32
Opened frame_016.mrc as #1.17, grid size 256,256,256, pixel 1.18, shown at
level 0.347, step 1, values float32
Opened frame_017.mrc as #1.18, grid size 256,256,256, pixel 1.18, shown at
level 0.352, step 1, values float32
Opened frame_018.mrc as #1.19, grid size 256,256,256, pixel 1.18, shown at
level 0.358, step 1, values float32
Opened frame_019.mrc as #1.20, grid size 256,256,256, pixel 1.18, shown at
level 0.363, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J268_003_volume_map_sharp.mrc
> format mrc
Opened cryosparc_P1_J268_003_volume_map_sharp.mrc as #2, grid size
256,256,256, pixel 1.18, shown at level 0.254, step 1, values float32
> close #2
> ui tool show "Show Volume Menu"
> ui tool show "Volume Viewer"
> hide #!1.2 models
> show #!1.2 models
> hide #!1.12 models
> show #!1.12 models
> hide #!1.17 models
> show #!1.17 models
> hide #!1 models
> show #!1 models
> hide #!1.1 models
> show #!1.1 models
> hide #!1.2 models
> hide #!1.1 models
> show #!1.2 models
> show #!1.1 models
> hide #!1.3 models
> show #!1.3 models
> hide #!1.4 models
> show #!1.4 models
> ui tool show "Volume Viewer"
> show #!1 target m
> view #1 clip false
> view #1 clip false
> select #1
41 models selected
> ~select #1
Nothing selected
> select #1
41 models selected
> ~select #1
Nothing selected
> select #1
41 models selected
> ~select #1
Nothing selected
> select #1.1
2 models selected
> select #1.2
2 models selected
> ~select #1.2
Nothing selected
> ~select #1.1
Nothing selected
> ui tool show "Map Statistics"
> measure mapstats
Map frame_000.mrc #1.1, minimum -0.2439, maximum 0.9396, mean 0.004637, SD
0.06439, RMS 0.06456
Map frame_001.mrc #1.2, minimum -0.2102, maximum 0.9334, mean 0.004662, SD
0.06373, RMS 0.0639
Map frame_002.mrc #1.3, minimum -0.1771, maximum 0.9272, mean 0.004687, SD
0.06314, RMS 0.06331
Map frame_003.mrc #1.4, minimum -0.144, maximum 0.921, mean 0.004712, SD
0.06262, RMS 0.06279
Map frame_004.mrc #1.5, minimum -0.121, maximum 0.9147, mean 0.004738, SD
0.06217, RMS 0.06235
Map frame_005.mrc #1.6, minimum -0.1045, maximum 0.9085, mean 0.004763, SD
0.06179, RMS 0.06197
Map frame_006.mrc #1.7, minimum -0.08942, maximum 0.9023, mean 0.004788, SD
0.06149, RMS 0.06167
Map frame_007.mrc #1.8, minimum -0.08605, maximum 0.8961, mean 0.004813, SD
0.06126, RMS 0.06145
Map frame_008.mrc #1.9, minimum -0.08605, maximum 0.8899, mean 0.004838, SD
0.06111, RMS 0.0613
Map frame_009.mrc #1.10, minimum -0.08606, maximum 0.8837, mean 0.004863, SD
0.06104, RMS 0.06123
Map frame_010.mrc #1.11, minimum -0.08606, maximum 0.8779, mean 0.004889, SD
0.06104, RMS 0.06123
Map frame_011.mrc #1.12, minimum -0.08695, maximum 0.8772, mean 0.004914, SD
0.06112, RMS 0.06132
Map frame_012.mrc #1.13, minimum -0.08964, maximum 0.8807, mean 0.004939, SD
0.06128, RMS 0.06148
Map frame_013.mrc #1.14, minimum -0.09397, maximum 0.8873, mean 0.004964, SD
0.06151, RMS 0.06171
Map frame_014.mrc #1.15, minimum -0.1014, maximum 0.894, mean 0.004989, SD
0.06182, RMS 0.06202
Map frame_015.mrc #1.16, minimum -0.13, maximum 0.9007, mean 0.005015, SD
0.06221, RMS 0.06241
Map frame_016.mrc #1.17, minimum -0.1611, maximum 0.908, mean 0.00504, SD
0.06266, RMS 0.06286
Map frame_017.mrc #1.18, minimum -0.1923, maximum 0.9168, mean 0.005065, SD
0.06319, RMS 0.06339
Map frame_018.mrc #1.19, minimum -0.2234, maximum 0.9256, mean 0.00509, SD
0.06379, RMS 0.06399
Map frame_019.mrc #1.20, minimum -0.2546, maximum 0.9344, mean 0.005115, SD
0.06445, RMS 0.06466
> ui tool show "Volume Viewer"
> help help:user
> mseries slider #1.1-20
> mseries slider #1
> mseries slider #.1-20 pause 5 step 3
Missing or invalid "models" argument: invalid models specifier
> vseries play #1 loop true
No volume series specified
> vseries slider #1.1-20
> volume #1.1 level 0.2
> show #!1.1 models
> hide #!1.1 models
> volume #1.2 level 0.2
> hide #!1 models
> show #!1 models
> volume #1.3 level 0.2
> volume #1.4 level 0.2
> volume #1.5 level 0.2
> volume #1.6 level 0.2
> volume #1.7 level 0.2
> volume #1.8 level 0.2
> volume #1.9 level 0.2
> volume #1.10 level 0.2
> volume #1.11 level 0.2
> volume #1.12 level 0.2
> volume #1.13 level 0.2
> volume #1.14 level 0.2
> volume #1.15 level 0.2
> volume #1.16 level 0.2
> volume #1.17 level 0.2
> volume #1.18 level 0.2
> volume #1.19 level 0.2
> volume #1.20 level 0.2
> movie record
> movie encode /Users/uijin/Desktop/movie.mp4 framerate 25.0
Movie saved to /Users/uijin/Desktop/movie.mp4
> hide #!1 models
> show #!1 models
> view #1.1 clip false
No displayed objects specified.
> hide #!1 models
> show #!1 models
> view #1 clip false
> show #!1 target m
> show #!1 target m
> show #!1 target m
> show #!1.1 models
> view #1 clip false
> view #1 clip false
> show #!1.2 models
> show #!1.3 models
> show #!1.4 models
> hide #!1 models
> show #!1 models
> hide #!1 target m
> hide #!1 target m
> show #!1 models
> movie record
> movie encode /Users/uijin/Desktop/movie.mp4 framerate 25.0
Movie saved to /Users/uijin/Desktop/movie.mp4
> movie record
> movie encode /Users/uijin/Desktop/movie.mp4 framerate 25.0
Movie saved to /Users/uijin/Desktop/movie.mp4
> show #!1.1 models
> hide #!1.9 models
> show #!1.20 models
> hide #!1.20 models
> show #!1.20 models
> hide #!1.1 models
> show #!1.1 models
> hide #!1.1 models
> show #!1.20 models
> show #!1.9 models
> hide #!1.20 models
> movie record
> movie encode /Users/uijin/Desktop/movie.mp4 framerate 25.0
Movie saved to /Users/uijin/Desktop/movie.mp4
> open
> /Users/uijin/Downloads/cryosparc_P1_J254_class_00_00082_volume_sharp.mrc
Opened cryosparc_P1_J254_class_00_00082_volume_sharp.mrc as #2, grid size
128,128,128, pixel 2.37, shown at level 0.864, step 1, values float32
> open
> /Users/uijin/Downloads/cryosparc_P1_J254_class_01_00082_volume_sharp.mrc
Opened cryosparc_P1_J254_class_01_00082_volume_sharp.mrc as #3, grid size
128,128,128, pixel 2.37, shown at level 0.955, step 1, values float32
> hide #!1 models
> volume #2 level 0.3291
> volume #3 level 0.4336
> hide #!2 models
> show #!2 models
> hide #!3 models
> show #!3 models
> volume #2 level 0.3702
> volume #2 level 0.3
> volume #3 level 0.3
> volume #3 level 0.5646
> volume #3 level 0.5335
> volume #2 level 0.3493
> hide #!2 models
> hide #!3 models
> show #!1 models
> show #!2 models
> show #!3 models
> hide #!1.2 models
> hide #!3 models
> hide #!2 models
> show #!3 models
> hide #!3 models
> open /Users/uijin/Downloads/cryosparc_P1_J301_cluster_000.mrc
Opened cryosparc_P1_J301_cluster_000.mrc as #4, grid size 256,256,256, pixel
1.18, shown at level 0.336, step 1, values float32
> hide #!1 models
> open /Users/uijin/Downloads/cryosparc_P1_J301_cluster_004.mrc
Opened cryosparc_P1_J301_cluster_004.mrc as #5, grid size 256,256,256, pixel
1.18, shown at level 0.354, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J301_cluster_002.mrc
Opened cryosparc_P1_J301_cluster_002.mrc as #6, grid size 256,256,256, pixel
1.18, shown at level 0.336, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J301_cluster_001.mrc
Opened cryosparc_P1_J301_cluster_001.mrc as #7, grid size 256,256,256, pixel
1.18, shown at level 0.337, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J301_cluster_003.mrc
Opened cryosparc_P1_J301_cluster_003.mrc as #8, grid size 256,256,256, pixel
1.18, shown at level 0.354, step 1, values float32
> view clip false
> hide #!4 models
> hide #!5 models
> hide #!6 models
> hide #!7 models
> show #!7 models
> hide #!8 models
> show #!6 models
> hide #!7 models
> show #!5 models
> hide #!6 models
> show #!4 models
> hide #!5 models
> hide #!4 models
> show #!4 models
> show #!5 models
> show #!6 models
> show #!7 models
> show #!8 models
> hide #!5 models
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> hide #!8 models
> volume #4 level 0.1525
> volume #6 level 0.1003
> volume #7 level 0.1096
> hide #!6 models
> hide #!4 models
> show #!4 models
> show #!6 models
> hide #!7 models
> hide #!6 models
> show #!1 models
> show #!6 models
> show #!7 models
> hide #!4 models
> hide #!6 models
> hide #!7 models
> show #!5 models
> hide #!5 models
> show #!8 models
> show #!5 models
> hide #!8 models
> show #!8 models
> volume #8 level 0.1514
> volume #5 level 0.332
> volume #8 level 0.1653
> volume #8 level 0.1931
> show #!4 models
> hide #!5 models
> show #!6 models
> show #!7 models
> hide #!8 models
> hide #!4 models
> hide #!6 models
> hide #!7 models
> hide #!1 models
> hide #!1.15 models
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_000.mrc
Opened frame_000.mrc as #9, grid size 256,256,256, pixel 1.18, shown at level
0.365, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_001.mrc
Opened frame_001.mrc as #10, grid size 256,256,256, pixel 1.18, shown at level
0.359, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_002.mrc
Opened frame_002.mrc as #11, grid size 256,256,256, pixel 1.18, shown at level
0.354, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_003.mrc
Opened frame_003.mrc as #12, grid size 256,256,256, pixel 1.18, shown at level
0.349, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_004.mrc
Opened frame_004.mrc as #13, grid size 256,256,256, pixel 1.18, shown at level
0.345, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_005.mrc
Opened frame_005.mrc as #14, grid size 256,256,256, pixel 1.18, shown at level
0.342, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_006.mrc
Opened frame_006.mrc as #15, grid size 256,256,256, pixel 1.18, shown at level
0.34, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_007.mrc
Opened frame_007.mrc as #16, grid size 256,256,256, pixel 1.18, shown at level
0.338, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_008.mrc
Opened frame_008.mrc as #17, grid size 256,256,256, pixel 1.18, shown at level
0.336, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_009.mrc
Opened frame_009.mrc as #18, grid size 256,256,256, pixel 1.18, shown at level
0.334, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_010.mrc
Opened frame_010.mrc as #19, grid size 256,256,256, pixel 1.18, shown at level
0.334, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_011.mrc
Opened frame_011.mrc as #20, grid size 256,256,256, pixel 1.18, shown at level
0.333, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_012.mrc
Opened frame_012.mrc as #21, grid size 256,256,256, pixel 1.18, shown at level
0.334, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_013.mrc
Opened frame_013.mrc as #22, grid size 256,256,256, pixel 1.18, shown at level
0.335, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_014.mrc
Opened frame_014.mrc as #23, grid size 256,256,256, pixel 1.18, shown at level
0.338, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_015.mrc
Opened frame_015.mrc as #24, grid size 256,256,256, pixel 1.18, shown at level
0.342, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_016.mrc
Opened frame_016.mrc as #25, grid size 256,256,256, pixel 1.18, shown at level
0.347, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_017.mrc
Opened frame_017.mrc as #26, grid size 256,256,256, pixel 1.18, shown at level
0.352, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_018.mrc
Opened frame_018.mrc as #27, grid size 256,256,256, pixel 1.18, shown at level
0.358, step 1, values float32
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_019.mrc
Opened frame_019.mrc as #28, grid size 256,256,256, pixel 1.18, shown at level
0.363, step 1, values float32
> close
> open /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_000.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_001.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_002.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_003.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_004.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_005.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_006.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_007.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_008.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_009.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_010.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_011.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_012.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_013.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_014.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_015.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_016.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_017.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_018.mrc
> /Users/uijin/Downloads/cryosparc_P1_J290_component_000/frame_019.mrc
Opened frame_000.mrc as #1.1, grid size 256,256,256, pixel 1.18, shown at
level 0.365, step 1, values float32
Opened frame_001.mrc as #1.2, grid size 256,256,256, pixel 1.18, shown at
level 0.359, step 1, values float32
Opened frame_002.mrc as #1.3, grid size 256,256,256, pixel 1.18, shown at
level 0.354, step 1, values float32
Opened frame_003.mrc as #1.4, grid size 256,256,256, pixel 1.18, shown at
level 0.349, step 1, values float32
Opened frame_004.mrc as #1.5, grid size 256,256,256, pixel 1.18, shown at
level 0.345, step 1, values float32
Opened frame_005.mrc as #1.6, grid size 256,256,256, pixel 1.18, shown at
level 0.342, step 1, values float32
Opened frame_006.mrc as #1.7, grid size 256,256,256, pixel 1.18, shown at
level 0.34, step 1, values float32
Opened frame_007.mrc as #1.8, grid size 256,256,256, pixel 1.18, shown at
level 0.338, step 1, values float32
Opened frame_008.mrc as #1.9, grid size 256,256,256, pixel 1.18, shown at
level 0.336, step 1, values float32
Opened frame_009.mrc as #1.10, grid size 256,256,256, pixel 1.18, shown at
level 0.334, step 1, values float32
Opened frame_010.mrc as #1.11, grid size 256,256,256, pixel 1.18, shown at
level 0.334, step 1, values float32
Opened frame_011.mrc as #1.12, grid size 256,256,256, pixel 1.18, shown at
level 0.333, step 1, values float32
Opened frame_012.mrc as #1.13, grid size 256,256,256, pixel 1.18, shown at
level 0.334, step 1, values float32
Opened frame_013.mrc as #1.14, grid size 256,256,256, pixel 1.18, shown at
level 0.335, step 1, values float32
Opened frame_014.mrc as #1.15, grid size 256,256,256, pixel 1.18, shown at
level 0.338, step 1, values float32
Opened frame_015.mrc as #1.16, grid size 256,256,256, pixel 1.18, shown at
level 0.342, step 1, values float32
Opened frame_016.mrc as #1.17, grid size 256,256,256, pixel 1.18, shown at
level 0.347, step 1, values float32
Opened frame_017.mrc as #1.18, grid size 256,256,256, pixel 1.18, shown at
level 0.352, step 1, values float32
Opened frame_018.mrc as #1.19, grid size 256,256,256, pixel 1.18, shown at
level 0.358, step 1, values float32
Opened frame_019.mrc as #1.20, grid size 256,256,256, pixel 1.18, shown at
level 0.363, step 1, values float32
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> vseries slider #1.1-20
Traceback (most recent call last):
File
"/private/var/folders/d7/yr3jp9rn6pbc676s_kkn0wq40000gn/T/AppTranslocation/647FDE9D-956C-4F74-BB4E-C8F4321186A2/d/ChimeraX-1.2.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/map_series/slider.py", line 142, in play_cb
self.play()
File
"/private/var/folders/d7/yr3jp9rn6pbc676s_kkn0wq40000gn/T/AppTranslocation/647FDE9D-956C-4F74-BB4E-C8F4321186A2/d/ChimeraX-1.2.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/map_series/slider.py", line 148, in play
s0 = ser[0]
IndexError: list index out of range
IndexError: list index out of range
File
"/private/var/folders/d7/yr3jp9rn6pbc676s_kkn0wq40000gn/T/AppTranslocation/647FDE9D-956C-4F74-BB4E-C8F4321186A2/d/ChimeraX-1.2.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/map_series/slider.py", line 148, in play
s0 = ser[0]
See log for complete Python traceback.
Traceback (most recent call last):
File
"/private/var/folders/d7/yr3jp9rn6pbc676s_kkn0wq40000gn/T/AppTranslocation/647FDE9D-956C-4F74-BB4E-C8F4321186A2/d/ChimeraX-1.2.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/map_series/slider.py", line 142, in play_cb
self.play()
File
"/private/var/folders/d7/yr3jp9rn6pbc676s_kkn0wq40000gn/T/AppTranslocation/647FDE9D-956C-4F74-BB4E-C8F4321186A2/d/ChimeraX-1.2.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/map_series/slider.py", line 148, in play
s0 = ser[0]
IndexError: list index out of range
IndexError: list index out of range
File
"/private/var/folders/d7/yr3jp9rn6pbc676s_kkn0wq40000gn/T/AppTranslocation/647FDE9D-956C-4F74-BB4E-C8F4321186A2/d/ChimeraX-1.2.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/map_series/slider.py", line 148, in play
s0 = ser[0]
See log for complete Python traceback.
> vseries slider #1
Traceback (most recent call last):
File
"/private/var/folders/d7/yr3jp9rn6pbc676s_kkn0wq40000gn/T/AppTranslocation/647FDE9D-956C-4F74-BB4E-C8F4321186A2/d/ChimeraX-1.2.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/map_series/slider.py", line 142, in play_cb
self.play()
File
"/private/var/folders/d7/yr3jp9rn6pbc676s_kkn0wq40000gn/T/AppTranslocation/647FDE9D-956C-4F74-BB4E-C8F4321186A2/d/ChimeraX-1.2.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/map_series/slider.py", line 148, in play
s0 = ser[0]
IndexError: list index out of range
IndexError: list index out of range
File
"/private/var/folders/d7/yr3jp9rn6pbc676s_kkn0wq40000gn/T/AppTranslocation/647FDE9D-956C-4F74-BB4E-C8F4321186A2/d/ChimeraX-1.2.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/map_series/slider.py", line 148, in play
s0 = ser[0]
See log for complete Python traceback.
OpenGL version: 4.1 Metal - 76.1
OpenGL renderer: Apple M1
OpenGL vendor: AppleHardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro17,1
Processor Name: Unknown
Processor Speed: 2.4 GHz
Number of Processors: 1
Total Number of Cores: 8
L2 Cache: 8 MB
Memory: 16 GB
Software:
System Software Overview:
System Version: macOS 12.0.1 (21A559)
Kernel Version: Darwin 21.1.0
Time since boot: 1 day 1:43
Graphics/Displays:
Apple G13G:
Chipset Model: Apple G13G
Type: GPU
Bus: Built-In
Total Number of Cores: 8
Vendor: Apple (0x106b)
Metal Family: Supported, Metal GPUFamily Apple 7
Displays:
Color LCD:
Display Type: Built-In Retina LCD
Resolution: 2560 x 1600 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: No
Connection Type: Internal
LS32A600U:
Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition)
UI Looks like: 2560 x 1440 @ 75.00Hz
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Locale: (None, 'UTF-8')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
appnope: 0.1.2
Babel: 2.9.1
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2020.12.5
cftime: 1.5.0
chardet: 3.0.4
ChimeraX-AddCharge: 1.0.1
ChimeraX-AddH: 2.1.6
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.13.2
ChimeraX-AtomicLibrary: 3.1.3
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 1.1
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.5.2
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.1
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.1
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.2.1
ChimeraX-CommandLine: 1.1.4
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.2.5
ChimeraX-CoreFormats: 1.0
ChimeraX-coulombic: 1.1.1
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.1
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1.3
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.0
ChimeraX-Hbonds: 2.1
ChimeraX-Help: 1.1
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.0
ChimeraX-ImageFormats: 1.1
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-Label: 1.0
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.0.2
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.0
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 1.2.1
ChimeraX-MDcrds: 2.2
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.3
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.0.1
ChimeraX-ModelPanel: 1.0.1
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.1
ChimeraX-OpenCommand: 1.5
ChimeraX-PDB: 2.4.1
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.1
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0.1
ChimeraX-PubChem: 2.0.1
ChimeraX-ReadPbonds: 1.0
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.4
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SeqView: 2.3
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.0
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.0.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.3.1
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.0.1
ChimeraX-ToolshedUtils: 1.2
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.7.6
ChimeraX-uniprot: 2.1
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.3
comtypes: 1.1.7
cxservices: 1.0
cycler: 0.10.0
Cython: 0.29.21
decorator: 5.0.9
distlib: 0.3.1
docutils: 0.16
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 2.10.0
html2text: 2020.1.16
idna: 2.10
ihm: 0.17
imagecodecs: 2020.5.30
imagesize: 1.2.0
ipykernel: 5.3.4
ipython: 7.18.1
ipython-genutils: 0.2.0
jedi: 0.17.2
Jinja2: 2.11.2
jupyter-client: 6.1.7
jupyter-core: 4.7.1
kiwisolver: 1.3.1
line-profiler: 2.1.2
lxml: 4.6.2
lz4: 3.1.0
MarkupSafe: 2.0.1
matplotlib: 3.3.2
matplotlib-inline: 0.1.2
msgpack: 1.0.0
netCDF4: 1.5.4
networkx: 2.5
numexpr: 2.7.3
numpy: 1.19.2
numpydoc: 1.1.0
openvr: 1.14.1501
packaging: 20.9
ParmEd: 3.2.0
parso: 0.7.1
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 7.2.0
pip: 21.0.1
pkginfo: 1.5.0.1
prompt-toolkit: 3.0.18
psutil: 5.7.2
ptyprocess: 0.7.0
pycollada: 0.7.1
pydicom: 2.0.0
Pygments: 2.7.1
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 2.4.7
PyQt5-commercial: 5.15.2
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.2
python-dateutil: 2.8.1
pytz: 2021.1
pyzmq: 22.0.3
qtconsole: 4.7.7
QtPy: 1.9.0
RandomWords: 0.3.0
requests: 2.24.0
scipy: 1.5.2
setuptools: 50.3.2
sfftk-rw: 0.6.7.dev1
six: 1.15.0
snowballstemmer: 2.1.0
sortedcontainers: 2.2.2
Sphinx: 3.2.1
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: 2020.9.3
tinyarray: 1.2.3
tornado: 6.1
traitlets: 5.0.5
urllib3: 1.25.11
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.36.0
wheel-filename: 1.3.0
Change History (2)
comment:1 by , 4 years ago
| Component: | Unassigned → Volume Data |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → vseries slider: list index out of range |
comment:2 by , 4 years ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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Fixed several months ago after 1.2.5 release.
User created vseries slider even though no maps were part of a volume series. New code gives an error message and does not create slider.