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mortazavilab / TALON

Technology agnostic long read analysis pipeline for transcriptomes
MIT License
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ValueError: SAM/BAM file 'sam_file' does not exist! #156

Open handesome opened 3 weeks ago

handesome commented 3 weeks ago

Hi！when i run the code talon \ --db talon.db \ --f talon_config.csv \ --threads 10 \ --build ini_talon_hg38 \ --cov 0.99 \ --identity 0.95 \ --o /data/work/temp/talon_anno,the error says SAM/BAM file 'sam_file' does not exist! Traceback (most recent call last): File "/usr/local/envs/talon_env/bin/talon", line 8, in <module> sys.exit(main()) File "/usr/local/envs/talon_env/lib/python3.7/site-packages/talon/talon.py", line 3148, in main sam_files, dset_metadata = check_inputs(options) File "/usr/local/envs/talon_env/lib/python3.7/site-packages/talon/talon.py", line 1896, in check_inputs raise ValueError(msg) ValueError: SAM/BAM file 'sam_file' does not exist!" ,what issue could trigger the error?could anyone give some advice?Thanks!

KMbio43 commented 3 weeks ago

talon_config.csv contains your sam file, you need to check if your sam file path is correct.

handesome commented 3 weeks ago

talon_config.csv contains your sam file, you need to check if your sam file path is correct.

Thank you for quick reply! I will check again!