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changeset 1:ea832c221ec9 draft

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planemo upload for repository https://github.com/galaxyproject/dunovo commit b'd25c300643f4f204b4a9445b8eac071b2d127520\n'-dirty
author nick
date Fri, 24 Feb 2017 03:18:01 -0500
parents f875256c722e
children a9cb6fb9ea94
files align_families.xml correct_barcodes.xml dunovo.xml make_families.xml tool_dependencies.xml
diffstat 5 files changed, 9 insertions(+), 9 deletions(-) [+]
line wrap: on
line diff
--- a/align_families.xml	Sat Feb 18 05:58:44 2017 -0500
+++ b/align_families.xml	Fri Feb 24 03:18:01 2017 -0500
@@ -3,7 +3,7 @@
   <description>of duplex sequencing reads</description>
   <requirements>
     <requirement type="package" version="7.221">mafft</requirement>
-    <requirement type="package" version="0.7">dunovo</requirement>
+    <requirement type="package" version="0.7.1">dunovo</requirement>
     <!-- TODO: require Python 2.7 -->
   </requirements>
   <command detect_errors="exit_code">align_families.py -p \${GALAXY_SLOTS:-1} '$input' &gt; '$output'
--- a/correct_barcodes.xml	Sat Feb 18 05:58:44 2017 -0500
+++ b/correct_barcodes.xml	Fri Feb 24 03:18:01 2017 -0500
@@ -2,10 +2,10 @@
 <tool id="correct_barcodes" name="Du Novo: Correct barcodes" version="0.7">
   <description>of duplex sequencing reads</description>
   <requirements>
-    <requirement type="package" version="2.1.0">bowtie2</requirement>
+    <requirement type="package" version="2.2.5">bowtie2</requirement>
     <requirement type="package" version="0.1.18">samtools</requirement>
     <requirement type="package" version="1.9">networkx</requirement>
-    <requirement type="package" version="0.7">dunovo</requirement>
+    <requirement type="package" version="0.7.1">dunovo</requirement>
     <!-- TODO: require Python 2.7 -->
   </requirements>
   <command detect_errors="exit_code">correct-barcodes.sh -d $dist -m $mapq -p $pos '$input' &gt; '$output'
--- a/dunovo.xml	Sat Feb 18 05:58:44 2017 -0500
+++ b/dunovo.xml	Fri Feb 24 03:18:01 2017 -0500
@@ -2,7 +2,7 @@
 <tool id="dunovo" name="Du Novo: Make consensus reads" version="0.7">
   <description>from duplex sequencing alignments</description>
   <requirements>
-    <requirement type="package" version="0.7">dunovo</requirement>
+    <requirement type="package" version="0.7.1">dunovo</requirement>
     <!-- TODO: require Python 2.7 -->
   </requirements>
   <command detect_errors="exit_code">dunovo.sh -r $min_reads -q $qual_thres -F $qual_format '$input' '$dcs1' '$dcs2'
--- a/make_families.xml	Sat Feb 18 05:58:44 2017 -0500
+++ b/make_families.xml	Fri Feb 24 03:18:01 2017 -0500
@@ -2,7 +2,7 @@
 <tool id="make_families" name="Du Novo: Make families" version="0.7">
   <description>of duplex sequencing reads</description>
   <requirements>
-    <requirement type="package" version="0.7">dunovo</requirement>
+    <requirement type="package" version="0.7.1">dunovo</requirement>
   </requirements>
   <!-- TODO: Add dependency on coreutils to get paste? -->
   <command detect_errors="exit_code">make-families.sh -t $taglen -i $invariant '$fastq1' '$fastq2' &gt; '$output'
--- a/tool_dependencies.xml	Sat Feb 18 05:58:44 2017 -0500
+++ b/tool_dependencies.xml	Fri Feb 24 03:18:01 2017 -0500
@@ -1,7 +1,7 @@
 <?xml version="1.0"?>
 <tool_dependency>
-  <package name="bowtie2" version="2.1.0">
-    <repository changeset_revision="017a00c265f1" name="package_bowtie2_2_1_0" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
+  <package name="bowtie2" version="2.2.5">
+    <repository changeset_revision="30bd7eaeddbf" name="package_bowtie_2_2_5" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
   </package>
   <package name="samtools" version="0.1.18">
     <repository changeset_revision="1409782220c9" name="package_samtools_0_1_18" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
@@ -12,10 +12,10 @@
   <package name="networkx" version="1.9">
     <repository changeset_revision="83df321ad85e" name="package_networkx_1_9" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
   </package>
-  <package name="dunovo" version="0.7">
+  <package name="dunovo" version="0.7.1">
     <install version="1.0">
       <actions>
-        <action sha256sum="9d5092490772c43c73f7c85ea883d6a18f5df030fb4eac7310ac40694495b7c8" type="download_by_url">https://github.com/galaxyproject/dunovo/archive/v0.7.tar.gz</action>
+        <action sha256sum="c10c54bd2b33929bbd7c78b9d9d98818793f8da3d59bfe4ed7499587bfdef24d" type="download_by_url">https://github.com/galaxyproject/dunovo/archive/v0.7.1.tar.gz</action>
         <action type="shell_command">make</action>
         <action type="move_directory_files">
           <source_directory>.</source_directory>