# HG changeset patch
# User petr-novak
# Date 1706780677 0
# Node ID 3d0ba5734776012dc2d96a292493ddbd398c150b
# Parent  4308d3e572ee0d4654918f4569bfdcf4880034a8
Uploaded

diff -r 4308d3e572ee -r 3d0ba5734776 repex_tarean.xml
--- a/repex_tarean.xml	Thu Feb 01 09:43:43 2024 +0000
+++ b/repex_tarean.xml	Thu Feb 01 09:44:37 2024 +0000
@@ -1,4 +1,4 @@
-<tool id="tarean" name="Tandem Repeat Analyzer"  version="2.3.8.3" >
+<tool id="tarean" name="Tandem Repeat Analyzer"  version="2.3.9.1" >
     <stdio>
       <regex match="Traceback" source="stderr" level="fatal" description="Unknown error" />
       <regex match="error" source="stderr" level="fatal" description="Unknown error" />
@@ -7,12 +7,12 @@
     </stdio>
     <description>Identification of genomic tandem repeats from NGS data</description>
    <requirements>
-     <container type="singularity">library://repeatexplorer/default/repex_tarean:0.3.8-dbaa07f</container>
+     <container type="singularity">library://repeatexplorer/default/repex_tarean:0.3.9-579a65d</container>
    </requirements>
   <command detect_errors="exit_code">
     export PYTHONHASHSEED=0;
     export TAREAN_CPU=\$GALAXY_SLOTS;
-    export TAREAN_MAX_MEM=\$GALAXY_MEMORY_MB;
+    export TAREAN_MAX_MEM=\$((GALAXY_MEMORY_MB*1024));
     seqclust --paired --sample ${read_sampling.sample} --output_dir=tarean_output --logfile=${log} --cleanup --tarean_mode
     #if $advanced_options.advanced:
       --mincl $advanced_options.size_threshold $advanced_options.keep_names $advanced_options.automatic_filtering -M $advanced_options.merging