JGASmits
commented
1 year ago Hi Sylestiel,
Mamba is faster than conda when installing.
Am i correct in assuming this an error when you try to run anansanke? Or do you earlier get a error during the instalation?
What does the error logs: "/Users/pediatrics/Desktop/R_projects/scANANSE/analysis/gimme/log_mm10_maelstrom.txt" " .snakemake/log/2023-08-23T152751.937220.snakemake.log"
contain?
Gr Jos
sylestiel
Hello!
Is it absolutely essential to use mamba for this purpose?
I was trying to incorporate anansnake to run scANANSE but ran into the following error:
Error in rule maelstrom: jobid: 40 input: /Users/pediatrics/Desktop/R_projects/scANANSE/analysis/Peak_Counts.tsv, /Users/pediatrics/Desktop/R_projects/scANANSE/analysis/gimme/mm10.gimme.vertebrate.v5.0.pfm, /Users/pediatrics/Desktop/R_projects/scANANSE/data/mm10 output: /Users/pediatrics/Desktop/R_projects/scANANSE/analysis/gimme/mm10-maelstrom log: /Users/pediatrics/Desktop/R_projects/scANANSE/analysis/gimme/log_mm10maelstrom.txt (check log file(s) for error message) conda-env: /Users/pediatrics/.snakemake/conda/52b8cb6f4a78ac804c0afe54b1ecb2c2
RuleException: CalledProcessError in line 80 of /Users/pediatrics/anaconda3/envs/anansnake/lib/python3.8/site-packages/anansnake/rules/gimme.smk: Command 'source /Users/pediatrics/anaconda3/envs/anansnake/bin/activate '/Users/pediatrics/.snakemake/conda/52b8cb6f4a78ac804c0afe54b1ecb2c2_'; set -euo pipefail; python /Users/pediatrics/.snakemake/scripts/tmpj_rlppgz.maelstrom.py' returned non-zero exit status 1. File "/Users/pediatrics/anaconda3/envs/anansnake/lib/python3.8/site-packages/anansnake/rules/gimme.smk", line 80, in __rule_maelstrom File "/Users/pediatrics/anaconda3/envs/anansnake/lib/python3.8/concurrent/futures/thread.py", line 57, in run Shutting down, this might take some time. Exiting because a job execution failed. Look above for error message Complete log: .snakemake/log/2023-08-23T152751.937220.snakemake.log
Can you help me understand where the problem lies?
Thank you!