Mercurial > repos > nick > duplex

changeset 1:9bafe0c4bfa0 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload commit 801bf168032a13f6405518bddb35a24c9e9a8cd4-dirty
author nick
date Mon, 23 Nov 2015 17:46:39 -0500
parents 4633a25d8c19
children 71ace43428ca
files make_families.xml tool_dependencies.xml
diffstat 2 files changed, 2 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/make_families.xml	Mon Nov 23 17:28:08 2015 -0500
+++ b/make_families.xml	Mon Nov 23 17:46:39 2015 -0500
@@ -3,7 +3,7 @@
   <description>from duplex sequencing data</description>
   <command>paste $fastq1 $fastq2
     | paste - - - -
-    | awk -f $__tool_directory__/make-barcodes.awk -v TAG_LEN=$taglen -v INVARIANT=$invariant
+    | awk -f $DUPLEX_DIR/make-barcodes.awk -v TAG_LEN=$taglen -v INVARIANT=$invariant
     | sort
     &gt; $output
   </command>
--- a/tool_dependencies.xml	Mon Nov 23 17:28:08 2015 -0500
+++ b/tool_dependencies.xml	Mon Nov 23 17:46:39 2015 -0500
@@ -7,9 +7,9 @@
     <install version="1.0">
       <actions>
         <action type="download_by_url">https://github.com/makrutenko/duplex/archive/master.tar.gz</action>
-        <action type="change_directory">duplex-master</action>
         <action type="shell_command">make</action>
         <action type="set_environment">
+          <environment_variable action="set_to" name="DUPLEX_DIR">$INSTALL_DIR</environment_variable>
           <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR</environment_variable>
         </action>
       </actions>