blast protein: 'return' in a 'finally' block

[Eric Pettersen]

The following bug report has been submitted:
Platform:        macOS-15.7.7-arm64-arm-64bit-Mach-O
ChimeraX Version: 1.13.dev202607151614 (2026-07-15 16:14:50 UTC)
Description
Warnings from blast and grako

Log:
Startup Messages  
---  
notes | available bundle cache has not been initialized yet  
/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/python3.14/site-
packages/chimerax/map/volume.py:4245: SyntaxWarning: "\\*" is an invalid
escape sequence. Such sequences will not work in the future. Did you mean
"\\\\*"? A raw string is also an option.  
Parameters below only supported by Chimera Map format (\\*.cmap)  
  
UCSF ChimeraX version: 1.13.dev202607151614 (2026-07-15)  
© 2016-2026 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open Q19209 format uniprot fromDatabase uniprot

Summary of feedback from opening Q19209 fetched from uniprot  
---  
notes | Fetching compressed Q19209 UniProt info from https://www.uniprot.org/uniprot/Q19209.xml  
Alignment identifier is Q19209  
  
Opened UniProt Q19209  
/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/python3.14/site-
packages/chimerax/blastprotein/data_model/databases.py:173: SyntaxWarning:
'return' in a 'finally' block  
return title, species  
/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/python3.14/site-
packages/grako/codegen/objectmodel.py:20: SyntaxWarning: "\d" is an invalid
escape sequence. Such sequences will not work in the future. Did you mean
"\\\d"? A raw string is also an option.  
NODE_NAME_PATTERN = '(?!\d)\w+(' + BASE_CLASS_TOKEN + '(?!\d)\w+)*'  
[Repeated 1 time(s)]

> blastprotein Q19209:1 database pdb cutoff 1e-3 matrix BLOSUM62 maxSeqs 100
> version None name bp1

Webservices job id: A1HYM5M20L6QGM1N  
Webservices job finished: A1HYM5M20L6QGM1N  

BLAST search returned no results.  




OpenGL version: 4.1 Metal - 89.4
OpenGL renderer: Apple M1 Max
OpenGL vendor: Apple

Python: 3.14.6
Locale: C.UTF-8
Qt version: PyQt6 6.10.2, Qt 6.10.0
Qt runtime version: 6.10.2
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: Mac Studio
      Model Identifier: Mac13,1
      Model Number: Z14J0008FLL/A
      Chip: Apple M1 Max
      Total Number of Cores: 10 (8 performance and 2 efficiency)
      Memory: 32 GB
      System Firmware Version: mBoot-18000.120.36
      OS Loader Version: 11881.140.96.701.1

Software:

    System Software Overview:

      System Version: macOS 15.7.7 (24G720)
      Kernel Version: Darwin 24.6.0
      Time since boot: 20 days, 14 hours, 27 minutes

Graphics/Displays:

    Apple M1 Max:

      Chipset Model: Apple M1 Max
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 24
      Vendor: Apple (0x106b)
      Metal Support: Metal 3
      Displays:
        PHL 279P1:
          Resolution: 5120 x 2880 (5K/UHD+ - Ultra High Definition Plus)
          UI Looks like: 2560 x 1440 @ 60.00Hz
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Rotation: Supported


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[Eric Pettersen]

Also warnings about volume.py, which we've I think was reported before, and for grako. If the grako one proves problematic, we might have to switch to the parser I implemented.

[Zach Pearson]

It may be easy to just patch grako (some more).

I moved the return in the blastprotein code out of the finally block.

[Tom Goddard]

I fixed two volume.py \* escape sequences in doc strings yesterday. Those warnings only appear once when the .pyc compiled file is made, so you have to delete the .pyc file to reproduced the warnings.