diff sina.xml @ 2:49b937f12aa4 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/sina commit e94aa6daf5746ddd3798b8b3d8bc92094b03be90"

--- a/sina.xml	Wed Oct 23 18:55:29 2019 -0400
+++ b/sina.xml	Wed Dec 25 12:09:28 2019 -0500
@@ -1,4 +1,4 @@
-<tool id="sina" name="SINA" version="@TOOL_VERSION@+@WRAPPER_VERSION@">
+<tool id="sina" name="SINA" version="@TOOL_VERSION@+@WRAPPER_VERSION@" profile="18.01">
     <description>reference based multiple sequence alignment</description>
     <macros>
         <import>macros.xml</import>
@@ -11,18 +11,18 @@
 
         #if $db.select == 'custom'
             #if $db.custom.ext == 'fasta'
-                sina -i '$db.custom' --prealigned -o ./reference.arb &&
+                sina -i '$db.custom' --prealigned -o reference.arb &&
             #else
-                ln -s '$db.custom' ./reference.arb && 
+                ln -s '$db.custom' reference.arb &&
             #end if
         #elif $db.select == 'local'
-            ln -s '$db.arb_databases.fields.path' ./reference.arb &&
+            ln -s '$db.arb_databases.fields.path' reference.arb &&
         #end if
 
         ## run
         sina
             --in='$in'
-            --db=./reference.arb
+            --db=reference.arb
             -p \${GALAXY_SLOTS:-4}
             --num-pts=\${GALAXY_SLOTS:-4}
 
@@ -327,7 +327,7 @@
         <test>
             <param name="in" value="sequence.fasta"/>
             <conditional name="db">
-                <param name="select" value="local"/> 
+                <param name="select" value="local"/>
                 <param name="arb_databases" value="testarb"/>
             </conditional>
             <section name="os">