| Previous changeset 11:59054f086eca (2018-10-05) Next changeset 13:898b67846b47 (2019-07-08) |
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Commit message:
Uploaded fix from Marius van den Beek (make readlink more portable) |
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modified:
trimmomatic_macros.xml |
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| diff -r 59054f086eca -r 51b771646466 trimmomatic_macros.xml --- a/trimmomatic_macros.xml Fri Oct 05 05:19:17 2018 -0400 +++ b/trimmomatic_macros.xml Mon Dec 17 04:39:08 2018 -0500 |
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| @@ -3,6 +3,6 @@ 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> + <token name="@CONDA_TRIMMOMATIC_JAR_PATH@">if [ -z "\$TRIMMOMATIC_JAR_PATH" ]; then export TRIMMOMATIC_JAR_PATH=\$(dirname \$(readlink -f \$(which trimmomatic))); fi</token> + <token name="@CONDA_TRIMMOMATIC_ADAPTERS_PATH@">if [ -z "\$TRIMMOMATIC_ADAPTERS_PATH" ]; then export TRIMMOMATIC_ADAPTERS_PATH=\$(dirname \$(readlink -f \$(which trimmomatic)))/adapters; fi</token> </macros> |