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murphycj / AGFusion

Python package to annotate and visualize gene fusions.
https://www.agfusion.app
MIT License
59 stars 25 forks source link

STAR-Fusion input #38

Closed immuneAI closed 2 years ago

immuneAI commented 3 years ago

I think, recent update from STAR-Fusion, AGFusion batch query not preferring input. Help please

Traceback (most recent call last): File "/software/python/Python-3.5.5/bin/agfusion", line 5, in <module> cli.main() File "/software/python/Python-3.5.5/lib/python3.5/site-packages/agfusion/cli.py", line 619, in main batch_mode(args, agfusion_db, pyensembl_data, rename, colors) File "/software/python/Python-3.5.5/lib/python3.5/site-packages/agfusion/cli.py", line 161, in batch_mode agfusion_db.logger): File "/software/python/Python-3.5.5/lib/python3.5/site-packages/agfusion/parsers.py", line 47, in __init__ assert line[4] == 'LeftGene', 'Unrecognized STAR-Fusion input' AssertionError: Unrecognized STAR-Fusion input

QianhuiXu commented 2 years ago

Hello! I got the same error of STAR-Fusion input file. Did you solved it? Any guidance would be much appreciated! Thank you very much!