Render By Attribute: switching attributes does not preserve marker radius

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        macOS-15.3.1-arm64-arm-64bit
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
Replace this text with list of actions that caused this problem to occur

Log:
Startup Messages  
---  
warning | QCoreApplication::postEvent: Unexpected null receiver  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open 1pho format mmcif fromDatabase pdb

1pho title:  
Crystal structures explain functional properties of two E. Coli porins [more
info...]  
  
Chain information for 1pho #1  
---  
Chain | Description | UniProt  
A | PHOSPHOPORIN | PHOE_ECOLI 1-340  
  
1pho mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
  

> sym #1 assembly 1

Made 3 copies for 1pho assembly 1  

> ui tool show "Render/Select by Attribute"

> cartoon byattribute a:bfactor #1#2.1-3 3.77:0.25 72.57:2

1320 residues, residue bfactor range 9.69 to 60.5  

Cell requested for row 1 is out of bounds for table with 5 rows! Resizing
table model.  

> close #2

> select add #1

2602 atoms, 2654 bonds, 330 residues, 1 model selected  

> close

> open /Users/martinaaudagnotto/Desktop/flub/1.prediction/*.pdb format pdb

Chain information for
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb
#1  
---  
Chain | Description  
A B C | No description available  
  
Chain information for
bfd_uniref_hits_unrelaxed_rank_002_alphafold2_multimer_v3_model_4_seed_000.pdb
#2  
---  
Chain | Description  
A B C | No description available  
  
Chain information for
bfd_uniref_hits_unrelaxed_rank_003_alphafold2_multimer_v3_model_3_seed_000.pdb
#3  
---  
Chain | Description  
A B C | No description available  
  
Chain information for
bfd_uniref_hits_unrelaxed_rank_004_alphafold2_multimer_v3_model_2_seed_000.pdb
#4  
---  
Chain | Description  
A B C | No description available  
  
Chain information for
bfd_uniref_hits_unrelaxed_rank_005_alphafold2_multimer_v3_model_1_seed_000.pdb
#5  
---  
Chain | Description  
A B C | No description available  
  
Computing secondary structure  
[Repeated 4 time(s)]

> hide #2 models

> hide #3 models

> hide #4 models

> hide #5 models

> lighting flat

> open
> /Users/martinaaudagnotto/Desktop/FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb

Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb
#6  
---  
Chain | Description  
E G K | No description available  
F I N | No description available  
H J O | No description available  
L M P | No description available  
V W X | No description available  
  

> mmaker #6 to #1 show true

Computing secondary structure  
[Repeated 1 time(s)]  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
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb,
chain A (#1) with FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb,
chain E (#6), sequence alignment score = 1739  
Alignment identifier is 1  
Showing conservation header ("seq_conservation" residue attribute) for
alignment 1  
Hiding conservation header for alignment 1  
Chains used in RMSD evaluation for alignment 1:
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb
#1/A, FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb #6/E  
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 1  
RMSD between 330 pruned atom pairs is 0.661 angstroms; (across all 349 pairs:
1.379)  
  

> select add #6

19719 atoms, 20163 bonds, 2592 residues, 1 model selected  

> hide sel atoms

> show sel cartoons

> split #6

Split FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb (#6) into 15
models  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb E
#6.1  
---  
Chain | Description  
E | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb F
#6.2  
---  
Chain | Description  
F | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb G
#6.3  
---  
Chain | Description  
G | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb H
#6.4  
---  
Chain | Description  
H | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb I
#6.5  
---  
Chain | Description  
I | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb J
#6.6  
---  
Chain | Description  
J | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb K
#6.7  
---  
Chain | Description  
K | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb L
#6.8  
---  
Chain | Description  
L | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb M
#6.9  
---  
Chain | Description  
M | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb N
#6.10  
---  
Chain | Description  
N | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb O
#6.11  
---  
Chain | Description  
O | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb P
#6.12  
---  
Chain | Description  
P | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb V
#6.13  
---  
Chain | Description  
V | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb W
#6.14  
---  
Chain | Description  
W | No description available  
  
Chain information for FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb X
#6.15  
---  
Chain | Description  
X | No description available  
  
Associated FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb E (6.1)
chain E to FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb, chain E
with 0 mismatches  
Associated FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb F (6.2)
chain F to
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb,
chain A with 1 mismatch  
Associated FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb G (6.3)
chain G to FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb, chain E
with 0 mismatches  
Associated FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb I (6.5)
chain I to
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb,
chain A with 1 mismatch  
Associated FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb K (6.7)
chain K to FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb, chain E
with 0 mismatches  
Associated FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb N (6.10)
chain N to
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb,
chain A with 1 mismatch  
Chains used in RMSD evaluation for alignment 1:
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb
#1/A, FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb E #6.1/E,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb F #6.2/F,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb G #6.3/G,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb I #6.5/I,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb K #6.7/K,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb N #6.10/N  

> hide #6.4 models

> hide #6.5 models

> hide #6.6 models

> hide #6.8 models

> hide #6.9 models

> hide #6.10 models

> hide #6.11 models

> hide #6.12 models

> hide #6.13 models

> hide #6.14 models

> hide #6.15 models

> close #6.8-15

Chains used in RMSD evaluation for alignment 1:
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb
#1/A, FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb E #6.1/E,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb F #6.2/F,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb G #6.3/G,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb I #6.5/I,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb K #6.7/K  

> close #6.4-6

Chains used in RMSD evaluation for alignment 1:
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb
#1/A, FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb E #6.1/E,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb F #6.2/F,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb G #6.3/G,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb K #6.7/K  

> combine #6.1-3 +#6.7

Expected a keyword  

> combine #6.1-3 \+ #6.7

Expected a keyword  

> combine #6.1-3 & #6.7

No structures specified  

> combine #6.1-3, #6.7

Expected a keyword  

> combine #6.1-3

Associated combination chain E to
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb, chain E with 0
mismatches  
Associated combination chain G to
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb, chain E with 0
mismatches  
Associated combination chain F to
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb,
chain A with 1 mismatch  
Chains used in RMSD evaluation for alignment 1:
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb
#1/A, FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb E #6.1/E,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb F #6.2/F,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb G #6.3/G,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb K #6.7/K, combination
#7/E  

> combine #6.1-3 and #6.7

Expected a keyword  

> combine #6.1,#6.2

Expected a keyword  

> combine #6.1 #6.2

Associated combination chain E to
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb, chain E with 0
mismatches  
Associated combination chain F to
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb,
chain A with 1 mismatch  
Chains used in RMSD evaluation for alignment 1:
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb
#1/A, FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb E #6.1/E,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb F #6.2/F,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb G #6.3/G,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb K #6.7/K, combination
#7/E, combination #8/E  

> combine #6.1 #6.2 #6.3 #6.7

Associated combination chain E to
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb, chain E with 0
mismatches  
Associated combination chain G to
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb, chain E with 0
mismatches  
Associated combination chain K to
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb, chain E with 0
mismatches  
Associated combination chain F to
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb,
chain A with 1 mismatch  
Chains used in RMSD evaluation for alignment 1:
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb
#1/A, FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb E #6.1/E,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb F #6.2/F,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb G #6.3/G,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb K #6.7/K, combination
#7/E, combination #8/E, combination #9/E  

> close #7-8

Chains used in RMSD evaluation for alignment 1:
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb
#1/A, FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb E #6.1/E,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb F #6.2/F,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb G #6.3/G,
FluB_GSK2115_SD83_5A7_trimer_rosetta_coot_phenix_8.pdb K #6.7/K, combination
#9/E  

> rename #9 gsk_combination

> hide #!6 models

> hide #6.1 models

> hide #6.2 models

> hide #6.3 models

> hide #6.7 models

> view

> mmaker #1 to #9

Computing secondary structure  
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 gsk_combination, chain E (#9) with
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb,
chain A (#1), sequence alignment score = 1739  
RMSD between 330 pruned atom pairs is 0.661 angstroms; (across all 349 pairs:
1.379)  
  

> mmaker #1 to #9 show true

Computing secondary structure  
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 gsk_combination, chain E (#9) with
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb,
chain A (#1), sequence alignment score = 1739  
Alignment identifier is 2  
Showing conservation header ("seq_conservation" residue attribute) for
alignment 2  
Hiding conservation header for alignment 2  
Chains used in RMSD evaluation for alignment 2:
bfd_uniref_hits_unrelaxed_rank_001_alphafold2_multimer_v3_model_5_seed_000.pdb
#1/A, gsk_combination #9/E  
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 2  
RMSD between 330 pruned atom pairs is 0.661 angstroms; (across all 349 pairs:
1.379)  
  

> hide #9 models

> select add #1

12444 atoms, 12684 bonds, 1638 residues, 1 model selected  

> ui tool show "Render/Select by Attribute"

Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/widgets/histogram.py", line 181, in <lambda>  
if event.modifiers() & mod_key_info("shift")[0] else
self._select_marker_cb(event)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/widgets/histogram.py", line 740, in _select_marker_cb  
self._set_sel_marker(marker, drag_start=event)  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/widgets/histogram.py", line 760, in _set_sel_marker  
self._select_callback(self._prev_markers, self._prev_marker,
self._active_markers, marker)  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/render_by_attr/tool.py", line 728, in _render_sel_marker_cb  
value_entry.setText("%g" % cur_marker.radius)  
^^^^^^^^^^^^^^^^^  
AttributeError: 'HistogramMarker' object has no attribute 'radius'  
  
AttributeError: 'HistogramMarker' object has no attribute 'radius'  
  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/render_by_attr/tool.py", line 728, in _render_sel_marker_cb  
value_entry.setText("%g" % cur_marker.radius)  
^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/widgets/histogram.py", line 181, in <lambda>  
if event.modifiers() & mod_key_info("shift")[0] else
self._select_marker_cb(event)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/widgets/histogram.py", line 740, in _select_marker_cb  
self._set_sel_marker(marker, drag_start=event)  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/widgets/histogram.py", line 760, in _set_sel_marker  
self._select_callback(self._prev_markers, self._prev_marker,
self._active_markers, marker)  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/render_by_attr/tool.py", line 728, in _render_sel_marker_cb  
value_entry.setText("%g" % cur_marker.radius)  
^^^^^^^^^^^^^^^^^  
AttributeError: 'HistogramMarker' object has no attribute 'radius'  
  
AttributeError: 'HistogramMarker' object has no attribute 'radius'  
  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/render_by_attr/tool.py", line 728, in _render_sel_marker_cb  
value_entry.setText("%g" % cur_marker.radius)  
^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/widgets/histogram.py", line 181, in <lambda>  
if event.modifiers() & mod_key_info("shift")[0] else
self._select_marker_cb(event)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/widgets/histogram.py", line 740, in _select_marker_cb  
self._set_sel_marker(marker, drag_start=event)  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/widgets/histogram.py", line 760, in _set_sel_marker  
self._select_callback(self._prev_markers, self._prev_marker,
self._active_markers, marker)  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/render_by_attr/tool.py", line 728, in _render_sel_marker_cb  
value_entry.setText("%g" % cur_marker.radius)  
^^^^^^^^^^^^^^^^^  
AttributeError: 'HistogramMarker' object has no attribute 'radius'  
  
AttributeError: 'HistogramMarker' object has no attribute 'radius'  
  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/render_by_attr/tool.py", line 728, in _render_sel_marker_cb  
value_entry.setText("%g" % cur_marker.radius)  
^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 Metal - 89.3
OpenGL renderer: Apple M1 Pro
OpenGL vendor: Apple

Python: 3.11.4
Locale: UTF-8
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: MacBook Pro
      Model Identifier: MacBookPro18,3
      Model Number: MKGP3T/A
      Chip: Apple M1 Pro
      Total Number of Cores: 8 (6 performance and 2 efficiency)
      Memory: 16 GB
      System Firmware Version: 11881.81.4
      OS Loader Version: 11881.81.4

Software:

    System Software Overview:

      System Version: macOS 15.3.1 (24D70)
      Kernel Version: Darwin 24.3.0
      Time since boot: 5 days, 4 hours, 27 minutes

Graphics/Displays:

    Apple M1 Pro:

      Chipset Model: Apple M1 Pro
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 14
      Vendor: Apple (0x106b)
      Metal Support: Metal 3
      Displays:
        C27F398:
          Resolution: 1920 x 1080 (1080p FHD - Full High Definition)
          UI Looks like: 1920 x 1080 @ 60.00Hz
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Rotation: Supported


Installed Packages:
    alabaster: 1.0.0
    anyio: 4.7.0
    appdirs: 1.4.4
    appnope: 0.1.4
    asttokens: 3.0.0
    auditwheel: 6.1.0
    babel: 2.16.0
    beautifulsoup4: 4.12.3
    blockdiag: 3.0.0
    blosc2: 3.0.0
    build: 1.2.1
    certifi: 2023.11.17
    cftime: 1.6.4.post1
    charset-normalizer: 3.4.0
    ChimeraX-AddCharge: 1.5.18
    ChimeraX-AddH: 2.2.6
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.5
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.16.1
    ChimeraX-AlphaFold: 1.0.1
    ChimeraX-AltlocExplorer: 1.1.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.58.8
    ChimeraX-AtomicLibrary: 14.1.11
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.4
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 3.0.0
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.13.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.4.0
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.4
    ChimeraX-ChangeChains: 1.1
    ChimeraX-CheckWaters: 1.4
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.3
    ChimeraX-ColorActions: 1.0.5
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.6
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.9
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.4
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2.6
    ChimeraX-DistMonitor: 1.4.2
    ChimeraX-DockPrep: 1.1.3
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ESMFold: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.3
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.4.1
    ChimeraX-Hbonds: 2.5
    ChimeraX-Help: 1.3
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.3
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-IUPAC: 1.0
    ChimeraX-KVFinder: 1.2.1
    ChimeraX-Label: 1.1.14
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.2
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    ChimeraX-Map: 1.3
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0.1
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.2
    ChimeraX-MatchMaker: 2.1.6
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.7.2
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.14.2
    ChimeraX-MMTF: 2.2
    ChimeraX-ModelArchive: 1.0
    ChimeraX-Modeller: 1.5.18
    ChimeraX-ModelPanel: 1.5
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0.3
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.2
    ChimeraX-MouseModes: 1.2
    ChimeraX-Movie: 1.0
    ChimeraX-MutationScores: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nifti: 1.2
    ChimeraX-NMRSTAR: 1.0.2
    ChimeraX-NRRD: 1.2
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.14
    ChimeraX-OrthoPick: 1.0.1
    ChimeraX-PDB: 2.7.6
    ChimeraX-PDBBio: 1.0.1
    ChimeraX-PDBLibrary: 1.0.4
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1.2
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.6.2
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.3.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 4.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.5.1
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0.2
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-Segmentations: 3.5.6
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.14
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.2.0
    ChimeraX-ShowSequences: 1.0.3
    ChimeraX-SideView: 1.0.1
    ChimeraX-SimilarStructures: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.18.1
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.2.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.5
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-TaskManager: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.2.3
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.41
    ChimeraX-Umap: 1.0
    ChimeraX-uniprot: 2.3.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.4.4
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-vrml: 1.0
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.2
    ChimeraX-WebServices: 1.1.4
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.2
    contourpy: 1.3.1
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.0.10
    debugpy: 1.8.9
    decorator: 5.1.1
    docutils: 0.21.2
    executing: 2.1.0
    filelock: 3.15.4
    fonttools: 4.55.3
    funcparserlib: 2.0.0a0
    glfw: 2.8.0
    grako: 3.16.5
    h11: 0.14.0
    h5py: 3.12.1
    html2text: 2024.2.26
    httpcore: 1.0.7
    httpx: 0.28.1
    idna: 3.10
    ihm: 1.3
    imagecodecs: 2024.6.1
    imagesize: 1.4.1
    ipykernel: 6.29.5
    ipython: 8.26.0
    ipywidgets: 8.1.5
    jedi: 0.19.1
    Jinja2: 3.1.4
    jupyter_client: 8.6.2
    jupyter_core: 5.7.2
    jupyterlab_widgets: 3.0.13
    kiwisolver: 1.4.7
    line_profiler: 4.1.3
    lxml: 5.2.2
    lz4: 4.3.3
    MarkupSafe: 3.0.2
    matplotlib: 3.9.2
    matplotlib-inline: 0.1.7
    msgpack: 1.0.8
    ndindex: 1.9.2
    nest-asyncio: 1.6.0
    netCDF4: 1.6.5
    networkx: 3.3
    nibabel: 5.2.0
    nptyping: 2.5.0
    numexpr: 2.10.2
    numpy: 1.26.4
    openvr: 1.26.701
    packaging: 23.2
    ParmEd: 4.2.2
    parso: 0.8.4
    pep517: 0.13.1
    pexpect: 4.9.0
    pillow: 10.4.0
    pip: 24.2
    pkginfo: 1.11.1
    platformdirs: 4.3.6
    prompt_toolkit: 3.0.48
    psutil: 6.0.0
    ptyprocess: 0.7.0
    pure_eval: 0.2.3
    py-cpuinfo: 9.0.0
    pycollada: 0.8
    pydicom: 2.4.4
    pyelftools: 0.31
    Pygments: 2.18.0
    pynmrstar: 3.3.4
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.3401
    pyparsing: 3.2.0
    pyproject_hooks: 1.2.0
    PyQt6-commercial: 6.7.1
    PyQt6-Qt6: 6.7.3
    PyQt6-WebEngine-commercial: 6.7.0
    PyQt6-WebEngine-Qt6: 6.7.3
    PyQt6-WebEngineSubwheel-Qt6: 6.7.3
    PyQt6_sip: 13.8.0
    python-dateutil: 2.9.0.post0
    pytz: 2024.2
    pyzmq: 26.2.0
    qtconsole: 5.5.2
    QtPy: 2.4.2
    qtshim: 1.0
    RandomWords: 0.4.0
    requests: 2.32.3
    scipy: 1.14.0
    setuptools: 72.1.0
    sfftk-rw: 0.8.1
    six: 1.16.0
    sniffio: 1.3.1
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.6
    Sphinx: 8.0.2
    sphinx-autodoc-typehints: 2.2.3
    sphinxcontrib-applehelp: 2.0.0
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 2.0.0
    sphinxcontrib-htmlhelp: 2.1.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 2.0.0
    sphinxcontrib-serializinghtml: 2.0.0
    stack-data: 0.6.3
    superqt: 0.6.3
    tables: 3.10.1
    tcia_utils: 1.5.1
    tifffile: 2024.7.24
    tinyarray: 1.2.4
    tornado: 6.4.2
    traitlets: 5.14.3
    typing_extensions: 4.12.2
    tzdata: 2024.2
    urllib3: 2.2.3
    wcwidth: 0.2.13
    webcolors: 24.6.0
    wheel: 0.43.0
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.13

[pett]

Duplicate of #16536