diff reago.xml @ 1:31a354009216 draft default tip

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/reago commit f437f5e8c6c856c6f0bb8d8ea6e34f5441ee088f

--- a/reago.xml	Tue Jan 26 08:17:20 2016 -0500
+++ b/reago.xml	Thu Feb 02 19:35:52 2017 -0500
@@ -1,9 +1,7 @@
-<tool id="reago" name="Reago" version="0.1.0">
+<tool id="reago" name="Reago" version="1.1">
     <description> to assemble rRNA</description>
 
     <requirements>
-        <requirement type="package" version="1.1">infernal</requirement>
-        <requirement type="package" version="1.5.7">genometools</requirement>
         <requirement type="package" version="1.1">reago</requirement>
     </requirements>
 
@@ -23,16 +21,16 @@
             --r2_output $r2_output
 
         &&  
-        python \${REAGO_DIR}/filter_input.py 
+        filter_input.py 
             $r1_output
             $r2_output
             .
-            \${REAGO_DIR}/cm/ 
+            \$(dirname \$(which reago.py))/cm/ 
             $cm_to_use
             "\${GALAXY_SLOTS:-4}"
 
         && 
-        python \${REAGO_DIR}/reago.py 
+        reago.py 
             "filtered.fasta"
             .
             -l $read_length
@@ -135,4 +133,4 @@
     <citations>
         <citation type="doi">10.1093/bioinformatics/btv231</citation>
     </citations>
-</tool>
\ No newline at end of file
+</tool>