Opened 7 years ago
Closed 7 years ago
#1924 closed defect (fixed)
cannot import name 'user_error_format'
| Reported by: | Owned by: | Eric Pettersen | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Logging | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: Linux-3.10.0-957.10.1.el7.x86_64-x86_64-with-centos-7.6.1810-Core
ChimeraX Version: 0.9 (2019-05-07)
Description
Typo when trying to open a model from the PDB (I wanted to open 5u8q) on starting ChimeraX causes a crash back to the Bash prompt.
ChimeraX u8q
Traceback (most recent call last):
File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/core/commands/run.py", line 31, in run
results = command.run(text, log=log)
File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/core/commands/cli.py", line 2631, in run
result = ci.function(session, **kw_args)
File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/core/commands/open.py", line 37, in open
db_fetches, paths = _db_fetches_and_paths(filename, format, from_database)
File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/core/commands/open.py", line 92, in _db_fetches_and_paths
p = _expand_path(path)
File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/core/commands/open.py", line 134, in _expand_path
raise UserError('File not found: %s' % path)
chimerax.core.errors.UserError: File not found: u8q
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/ChimeraX_main.py", line 711, in init
commands.run(sess, 'open %s' % arg)
File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/core/commands/run.py", line 38, in run
from ..logger import user_error_format
ImportError: cannot import name 'user_error_format' from 'chimerax.core.logger' (/opt/UCSF/ChimeraX-daily/lib/python3.7/site-packages/chimerax/core/logger.py)
Log:
UCSF ChimeraX version: 0.9 (2019-05-07)
© 2016-2019 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open 5u8q
Summary of feedback from opening 5u8q fetched from pdb
---
notes | Fetching compressed mmCIF 5u8q from
http://files.rcsb.org/download/5u8q.cif
Fetching CCD MLT from http://ligand-expo.rcsb.org/reports/M/MLT/MLT.cif
Fetching CCD MAN from http://ligand-expo.rcsb.org/reports/M/MAN/MAN.cif
5u8q title:
Structure of the ectodomain of the human Type 1 insulin-like growth factor
receptor in complex with IGF-I [more info...]
Chain information for 5u8q #1
---
Chain | Description
A | Insulin-like growth factor 1 receptor
B | Insulin-like growth factor I
H | Fv 24-60 heavy chain
L | Fv 24-60 light chain
Non-standard residues in 5u8q #1
---
MAN — α-D-mannose
MLT — D-malate ((2R)-2-hydroxybutanedioic acid; 2-hydroxy-succinic acid)
NAG — N-acetyl-D-glucosamine
SO4 — sulfate ion
5u8q mmCIF Assemblies
---
1| author_and_software_defined_assembly
OpenGL version: 3.3.0 NVIDIA 415.27
OpenGL renderer: TITAN Xp/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Change History (3)
comment:1 by , 7 years ago
| Component: | Unassigned → Logging |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → cannot import name 'user_error_format' |
comment:2 by , 7 years ago
comment:3 by , 7 years ago
| Resolution: | → fixed |
|---|---|
| Status: | accepted → closed |
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This crash-producing error-within-an-error was fixed yesterday. At least you didn't lose any work! ;-)