Mercurial > repos > iuc > hyphy_relax

changeset 2:8e92afe83af9 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit f14f2bae2b27dc04e574803c7d4442a64cfe43e4"
author iuc
date Fri, 14 Feb 2020 16:45:24 -0500
parents 1da578d6a253
children 134d46bd47dd
files hyphy_relax.xml macros.xml
diffstat 2 files changed, 3 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/hyphy_relax.xml	Thu Feb 13 15:02:11 2020 -0500
+++ b/hyphy_relax.xml	Fri Feb 14 16:45:24 2020 -0500
@@ -1,5 +1,5 @@
 <?xml version="1.0"?>
-<tool id="hyphy_relax" name="HyPhy-RELAX" version="@VERSION@+galaxy0">
+<tool id="hyphy_relax" name="HyPhy-RELAX" version="@VERSION@+galaxy1">
     <description>Detect relaxed selection in a codon-based
     phylogenetic framework</description>
     <macros>
@@ -9,7 +9,7 @@
     <command detect_errors="exit_code"><![CDATA[
         ln -s '$input_file' relax_input.fa &&
         ln -s '$input_nhx' relax_input.nhx &&
-        @HYPHY_INVOCATION@ relax
+        hyphy relax
             --alignment ./relax_input.fa
             --tree ./relax_input.nhx
             --models '$analysisType'
--- a/macros.xml	Thu Feb 13 15:02:11 2020 -0500
+++ b/macros.xml	Fri Feb 14 16:45:24 2020 -0500
@@ -80,6 +80,7 @@
             <yield/>
         </requirements>
     </xml>
+    <token name="@HYPHYMPI@">mpirun -np \${GALAXY_SLOTS:-1} HYPHYMPI</token>
     <token name="@HYPHY_ENVIRONMENT@"><![CDATA[export HYPHY=`which hyphy` &&
 export HYPHY_PATH=`dirname \$HYPHY` &&
 export HYPHY_LIB=`readlink -f \$HYPHY_PATH/../lib/hyphy` &&]]></token>