Mercurial > repos > bgruening > augustus

changeset 2:b8ccbad1b062 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author bgruening
date Thu, 06 Jun 2013 12:51:27 -0400
parents 3c5116448979
children 702d9e042295
files augustus.xml tool_dependencies.xml
diffstat 2 files changed, 7 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/augustus.xml	Thu Jun 06 12:20:31 2013 -0400
+++ b/augustus.xml	Thu Jun 06 12:51:27 2013 -0400
@@ -29,10 +29,12 @@
         #if $protein or $codingseq:
             | python extract_features.py 
                 #if $protein:
-                    --protein $protein_output 
+                    --protein $protein_output
+                #end if
                 #if $codingseq:
                     --codingseq $codingseq_output
-
+                #end if
+        #end if
     </command>
     <inputs>
         <param name="input_genome" type="data" format="fasta" label="Genome Sequence"/>
--- a/tool_dependencies.xml	Thu Jun 06 12:20:31 2013 -0400
+++ b/tool_dependencies.xml	Thu Jun 06 12:51:27 2013 -0400
@@ -1,5 +1,8 @@
 <?xml version="1.0"?>
 <tool_dependency>
+    <set_environment version="1.0">
+        <environment_variable name="SCRIPT_PATH" action="set_to">$REPOSITORY_INSTALL_DIR</environment_variable>
+    </set_environment>
     <package name="augustus" version="2.7">
         <install version="1.0">
             <actions>