Mercurial > repos > pjbriggs > trimmomatic

view trimmomatic_macros.xml @ 10:dfa082f84068 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded version 0.36.5 (use conda to resolve tool dependencies)
author pjbriggs
date Mon, 05 Mar 2018 10:13:48 -0500
parents f80107cdc406
children 51b771646466
line wrap: on
line source

<macros>
  <!-- 
       Set the path for the trimmomatic JAR and data files
       Based on https://github.com/galaxyproject/tools-iuc/blob/master/tool_collections/snpsift/snpSift_macros.xml#L13
  -->
  <token name="@CONDA_TRIMMOMATIC_JAR_PATH@">if [ -z "\$TRIMMOMATIC_JAR_PATH" ]; then export TRIMMOMATIC_JAR_PATH=\$(dirname \$(readlink -e \$(which trimmomatic))); fi</token>
  <token name="@CONDA_TRIMMOMATIC_ADAPTERS_PATH@">if [ -z "\$TRIMMOMATIC_ADAPTERS_PATH" ]; then export TRIMMOMATIC_ADAPTERS_PATH=\$(dirname \$(readlink -e \$(which trimmomatic)))/adapters; fi</token>
</macros>