multiQC version issue

[DanielSprockett]

Sam had this error:

Error in rule multiqc:

jobid: 1

output: output/qc/multiqc/multiqc.html

log: output/logs/qc/multiqc/multiqc.log (check log file(s) for error message)

conda-env: /home/slg289/snakemake_envs/af2f1db8ee7fda6ccc1f92b24e491d81

RuleException:

CalledProcessError in line 194 of /local/workdir/slg/diet_manip/sn-mg-pipeline/resources/snakefiles/qc.smk:

Command 'source /home/slg289/miniconda3/bin/activate '/home/slg289/snakemake_envs/af2f1db8ee7fda6ccc1f92b24e491d81'; set -euo pipefail; python /local/workdir/slg/diet_manip/sn-mg-pipeline/.snakemake/scripts/tmpplyurv6u.wrapper.py' returned non-zero exit status 1.

File "/local/workdir/slg/diet_manip/sn-mg-pipeline/resources/snakefiles/qc.smk", line 194, in __rule_multiqc

File "/home/slg289/miniconda3/envs/snakemake/lib/python3.9/concurrent/futures/thread.py", line 58, in run

Job failed, going on with independent jobs.

Exiting because a job execution failed. Look above for error message

BUG: Out of jobs ready to be started, but not all files built yet. Please check snakemake/snakemake#823 for more information.

Remaining jobs:

• all:

• multiqc: output/qc/multiqc/multiqc.html

• multiqc_assemble: output/assemble/multiqc_assemble/multiqc.html

Complete log: /local/workdir/slg/diet_manip/sn-mg-pipeline/.snakemake/log/2022-05-31T085100.175765.snakemake.log

I advised to:

• open sn-mg-pipeline/resources/snakefiles/qc.smk
• around line 194, you should see: "0.72.0/bio/multiqc"
• try changing that to: "v1.7.0/bio/multiqc"

Sam said:

It worked! FYI I also had to change the multiqc version in line 123 of assemble.smk. Module 1 is finished! Thanks!

[DanielSprockett]

addressed in:
updated multiQC to v1.7.0 #67