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Hoohm / dropSeqPipe

A SingleCell RNASeq pre-processing snakemake workflow
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Multiqc error #11

Closed duyck closed 6 years ago

duyck commented 6 years ago

Pipeline continually failed on multiqc report

Fix: Install multiqc development version 1.3 pip install git+https://github.com/ewels/MultiQC.git --user

Unnecessary Fix: Double forward slash in pipeline does not seem to affect output however it looks weird... [INFO ] multiqc : Searching '${HOME}/yourdirectory//logs' Edit: main.py Change: multiqc = 'multiqc -o {0} {0}/logs {0}/summary --force'.format(args.folder_path) To: multiqc = 'multiqc -o {0} {0}logs {0}summary --force'.format(args.folder_path)

Hoohm commented 6 years ago

Hi and thanks for the heads up. The next version won't be automatically generating the multiqc report although I still highly recommend it.

Best wishes

Hoohm commented 6 years ago

@duyck The new version actually integrates multiqc properly. Closing this issue.