# HG changeset patch
# User petrn
# Date 1578404334 0
# Node ID bb426ce3c12b580a72c6d1713ee6708405fed8c7
# Parent  5da81c4ff67e1c8dbab353946c0b921330a3a599
Uploaded

diff -r 5da81c4ff67e -r bb426ce3c12b repex_tarean.xml
--- a/repex_tarean.xml	Tue Jan 07 13:36:24 2020 +0000
+++ b/repex_tarean.xml	Tue Jan 07 13:38:54 2020 +0000
@@ -7,11 +7,8 @@
     </stdio>
     <description>Identification of genomic tandem repeats from NGS data</description>
     <requirements>
-      <requirement type="package" version="0.9.1">pyrserve</requirement>
-      <requirement type="package" version="3.7.4">python</requirement>
-      <requirement type="package">last</requirement>
+      <requirement type="package">imagemagick</requirement>
       <requirement type="package">mafft</requirement>
-      <requirement type="package">imagemagick</requirement>
       <requirement type="package">blast</requirement>
       <requirement type="package">diamond</requirement>
       <requirement type="package">blast-legacy</requirement>
@@ -31,8 +28,9 @@
       <requirement type="package">r-rsqlite</requirement>
       <requirement type="package">r-rserve</requirement>
       <requirement type="package">bioconductor-biostrings</requirement>
-      <requirement type="package" version="1.0">repex_tarean</requirement>
+      <requirement type="package" version="1.1">repex_tarean</requirement>
       <requirement type="set_environment">REPEX</requirement>
+      <requirement type="package" version="0.9.1">pyrserve</requirement>
     </requirements>
   <command detect_errors="exit_code">
     export PYTHONHASHSEED=0;
@@ -54,7 +52,7 @@
     cat stdout.log >> ${log} ;
     echo "STDERR CONTENT:" >> ${log} ;
     cat stderr.log >> ${log} &amp;&amp;
-    ${__tool_directory__}/stderr_filter.py stderr.log &amp;&amp;
+    \${REPEX}/stderr_filter.py stderr.log &amp;&amp;
     cd tarean_output &amp;&amp;
     zip -r  ${ReportArchive}.zip * &amp;&amp;
     mv ${ReportArchive}.zip ${ReportArchive} &amp;&amp;