Error in rule gemBS - Githubissues

MarWoes / wg-blimp

wg-blimp: an end-to-end analysis pipeline for whole genome bisulfite sequencing data

GNU Affero General Public License v3.0

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Error in rule gemBS #26

Open deb0612 opened 3 months ago

deb0612 commented 3 months ago

Dear sir, when I use "wg-blimp run-snakemake --cores=8 fastq/ chr22.fasta blood1,blood2 sperm1,sperm2 results --dry-run" The job finished correctly. However, when I use "wg-blimp run-snakemake --cores=8 fastq/ chr22.fasta blood1,blood2 sperm1,sperm2 results " The error came as follow

I also attach the log file. 2024-07-13T221532.200897.snakemake.log

JakeLehle commented 3 months ago

Hello,

Thanks for reaching out. Can you attach the /lab_nas_home_user/Debbie/DMRs/results/logs/gemBS/gemBS.log. I'll take a look and see what's happening.

Best, Jake

deb0612 commented 2 months ago

gemBS.log

JakeLehle commented 2 months ago

Hey I took a look at the log file and it looks like it is an installation issue and maybe a legacy issue if the software is trying to be run using python 2 instead of python 3. Are you building the wg-blimp anaconda env like described in the walkthrough?

Thanks