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issue due to multiqc output file path #8

Closed yuvaramsingh94 closed 1 year ago

yuvaramsingh94 commented 1 year ago

Hi, The snakemake pipeline fails due to output file of multiqc rule not written to final_reports . in line no 330 to 332 the code is copying the multiqc output from 4_summary to final_reports. but, the snakemake fails to recognize this and throws the following error before crashing. changing multiqc output from 4_summary to final_reports and removing lines 330 to 332 works.

Building DAG of jobs...
MissingInputException in rule all  in line 43 of /data/yuvaram/CAMP/camp_short-read-quality-control/workflow/Snakefile:
Missing input files for rule all:
    affected files:
        /data/yuvaram/CAMP/workdir/short_read_qc/final_reports/post_multiqc_report.html
        /data/yuvaram/CAMP/workdir/short_read_qc/final_reports/pre_multiqc_report.html
lauren-mak commented 1 year ago

This has been addressed in the latest update (version 0.7.0). Please pull it, go over the README.md to make sure the module has been set up properly, and see if it works. Thanks for using the CAMP short-read QC module!