LewisLabUCSD / LewisLabUCSD/GlyCompare
Missing file for the Quick Example run
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Description
'glytoucan_database.json' is not in the data package. I believe that causes
Unexpected error: <class 'AssertionError'>
Traceback (most recent call last):
File "/Users/Leria 1/Library/Mobile Documents/com~apple~CloudDocs/Documents/GlyCoCan_PhD/VU-code/test_glycompare_python_version.py", line 36, in <module>
structure_loader=structure_loader)
File "/usr/local/lib/python3.7/site-packages/glycompare-1.0.3-py3.7.egg/glycompare/pipeline_functions.py", line 243, in load_glycans_pip
AssertionError: missing glycan G79412GP
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Research direction
Start with the Quick Example and the data package, then inspect test_glycompare_python_version.py and the load_glycans_pip call in glycompare/pipeline_functions.py around line 243. Verify whether glytoucan_database.json contains the missing glycan G79412GP and whether the Quick Example completes without the AssertionError.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics
- Issue type
- Bug
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100