Mercurial > repos > sanbi-uwc > trimmomatic

diff trimmomatic_macros.xml @ 4:642a39a927c9 draft

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planemo upload for repository https://github.com/SANBI-SA/galaxy-tools/tree/master/tools/trimmomatic commit b30cac62484ba664a19a02a6817752f4f2b140bf
author sanbi-uwc
date Mon, 23 Jan 2017 07:46:47 -0500
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/trimmomatic_macros.xml	Mon Jan 23 07:46:47 2017 -0500
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+<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>