annotate readme.rst @ 20:c1a4b5f3b432 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/multiqc commit 69a1a34bdcdda137182a367d063d9ff9c62cf720"

Galaxy MultiQC wrapper
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Aggregate results from bioinformatics analyses across many samples into a single report

MultiQC searches a given directory for analysis logs and compiles a HTML report. It's a general use tool, perfect for summarising the output from numerous bioinformatics tools.


Prevent displaying MultiQC webpage as gibberish
-----------------------------------------------

For Galaxy to display MultiQC's HTML output properly, you need to either:

1. Deactivate the sanitize_all_html option in galaxy.ini (sanitize_all_html = False), or
2. Whitelist the tool in "Manage Display Whitelist" after installing

Problems with encodings
-----------------------

If you observe python Runtime errors because python3 is configured to use ASCII then set 
`LC_ALL` and `LANG` in your job_conf.xml. See also https://github.com/galaxyproject/tools-iuc/issues/2362.

Support new modules
-------------------

Currently, the wrapper supports the modules for tools found on the MTS.
To add new ones, you can look at the patterns at https://github.com/ewels/MultiQC/blob/master/multiqc/utils/search_patterns.yaml