Mercurial > repos > galaxyp > maxquant
diff README.md @ 1:8bac3cc5c5de draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit ab4e4f1817080cbe8a031a82cb180610ff140847
author | galaxyp |
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date | Sat, 20 Jul 2019 05:01:05 -0400 |
parents | d4b6c9eae635 |
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--- a/README.md Fri May 10 17:22:51 2013 -0400 +++ b/README.md Sat Jul 20 05:01:05 2019 -0400 @@ -1,34 +1,27 @@ -Tool wrapper for MaxQuant. +GalaxyP - MaxQuant +================== -MaxQuant is a Windows only program and so you will likely need to -deploy this tool to run on a remote Windows system via the LWR -(https://lwr.readthedocs.org). +* Home: <https://github.com/galaxyproteomics/tools-galaxyp/> +* Tool ID: `maxquant` +* Tool Type: `default` -The sample mods file maxquant_mods.loc.sample corresponds to the -default modifications MaxQuant is configured with. The Galaxy-P -project uses a MaxQuant that has been extended with all of Unimod. To -modify MaxQuant in this fashion replace MaxQuant's modifications.xml -file with the extended_modifications.xml distributed with this tool -and configure Galaxy with the maxquant_mods.loc.sample.extended loc -file.# Obtaining Tools -Repositories for all Galaxy-P tools can be found at -https:/bitbucket.org/galaxyp/. +Description +----------- + +Wrapper for the MaxQuant version available in conda. + -# Contact - -Please send suggestions for improvements and bug reports to -jmchilton@gmail.com. - -# License +Updating +-------- -All Galaxy-P tools are licensed under the Apache License Version 2.0 -unless otherwise documented. - -# Tool Versioning +MaxQuant often changes the layout of its parameters file. +So changes to the code are likely to be necessary when +updating to a new version of MaxQuant. The init.py script +can be used to initialize the tool with a new list of +modifications or enzymes. From the tool dir run: -Galaxy-P tools will have versions of the form X.Y.Z. Versions -differing only after the second decimal should be completely -compatible with each other. Breaking changes should result in an -increment of the number before and/or after the first decimal. All -tools of version less than 1.0.0 should be considered beta. +./init.py -m MODIFICATIONS.XML -e ENZYMES.XML + +The location of these xml files usually is: +ANACONDA_DIR/bin/conf/ \ No newline at end of file