# HG changeset patch
# User mvdbeek
# Date 1578761905 18000
# Node ID 8ef26717ba8b22d78212ad5b71358a4ab25fb360
# Parent  b090e190c813255766de650af998ae12c97d449e
"planemo upload for repository https://github.com/bardin-lab/readtagger/tree/master/galaxy commit 76af27eb69faaeffe6a9f20a40e112b42b5aed53"

diff -r b090e190c813 -r 8ef26717ba8b add_matesequence.xml
--- a/add_matesequence.xml	Wed Dec 18 09:27:51 2019 -0500
+++ b/add_matesequence.xml	Sat Jan 11 11:58:25 2020 -0500
@@ -1,7 +1,7 @@
-<tool id="add_matesequence" name="Add matesequence" version="0.5.18">
+<tool id="add_matesequence" name="Add matesequence" version="0.5.19">
     <description>into tag field</description>
     <requirements>
-        <requirement type="package" version="0.5.18">readtagger</requirement>
+        <requirement type="package" version="0.5.19">readtagger</requirement>
     </requirements>
     <version_command>add_matesequence --version</version_command>
     <command detect_errors="aggressive"><![CDATA[
diff -r b090e190c813 -r 8ef26717ba8b allow_dovetailing.xml
--- a/allow_dovetailing.xml	Wed Dec 18 09:27:51 2019 -0500
+++ b/allow_dovetailing.xml	Sat Jan 11 11:58:25 2020 -0500
@@ -1,7 +1,7 @@
-<tool id="allow_dovetailing" name="Allow dovetailing" version="0.5.18">
+<tool id="allow_dovetailing" name="Allow dovetailing" version="0.5.19">
     <description>modifies proper_pair flag in bam files</description>
     <requirements>
-        <requirement type="package" version="0.5.18">readtagger</requirement>
+        <requirement type="package" version="0.5.19">readtagger</requirement>
     </requirements>
     <command detect_errors="aggressive"><![CDATA[
         allow_dovetailing -i '$input' -o '$output'
diff -r b090e190c813 -r 8ef26717ba8b bam_readtagger.xml
--- a/bam_readtagger.xml	Wed Dec 18 09:27:51 2019 -0500
+++ b/bam_readtagger.xml	Sat Jan 11 11:58:25 2020 -0500
@@ -1,10 +1,10 @@
-<tool id="bam_readtagger" name="Tag alignment files" version="0.5.18">
+<tool id="bam_readtagger" name="Tag alignment files" version="0.5.19">
     <description>from multiple bam files</description>
     <macros>
         <import>macros.xml</import>
     </macros>
     <requirements>
-        <requirement type="package" version="0.5.18">readtagger</requirement>
+        <requirement type="package" version="0.5.19">readtagger</requirement>
     </requirements>
     <command detect_errors="aggressive"><![CDATA[
         readtagger -t '$tag_file' -s
diff -r b090e190c813 -r 8ef26717ba8b extract_variants.xml
--- a/extract_variants.xml	Wed Dec 18 09:27:51 2019 -0500
+++ b/extract_variants.xml	Sat Jan 11 11:58:25 2020 -0500
@@ -1,7 +1,7 @@
-<tool id="extract_variants" name="Extract variant fragments" version="0.5.18">
+<tool id="extract_variants" name="Extract variant fragments" version="0.5.19">
     <description>from long reads</description>
     <requirements>
-        <requirement type="package" version="0.5.18">readtagger</requirement>
+        <requirement type="package" version="0.5.19">readtagger</requirement>
     </requirements>
     <version_command>extract_variants --version</version_command>
     <command detect_errors="aggressive"><![CDATA[
diff -r b090e190c813 -r 8ef26717ba8b filter_insertions.xml
--- a/filter_insertions.xml	Wed Dec 18 09:27:51 2019 -0500
+++ b/filter_insertions.xml	Sat Jan 11 11:58:25 2020 -0500
@@ -1,7 +1,7 @@
-<tool id="confirm_insertions" name="Confirm or discard insertions" version="0.5.18">
+<tool id="confirm_insertions" name="Confirm or discard insertions" version="0.5.19">
     <description>based on softclips in control files</description>
     <requirements>
-        <requirement type="package" version="0.5.18">readtagger</requirement>
+        <requirement type="package" version="0.5.19">readtagger</requirement>
     </requirements>
     <version_command>confirm_insertions --version</version_command>
     <command detect_errors="aggressive"><![CDATA[
diff -r b090e190c813 -r 8ef26717ba8b findcluster.xml
--- a/findcluster.xml	Wed Dec 18 09:27:51 2019 -0500
+++ b/findcluster.xml	Sat Jan 11 11:58:25 2020 -0500
@@ -1,10 +1,10 @@
-<tool id="findcluster" name="Find clusters of reads" version="0.5.18">
+<tool id="findcluster" name="Find clusters of reads" version="0.5.19">
     <description>in bam files</description>
     <macros>
         <import>macros.xml</import>
     </macros>
     <requirements>
-        <requirement type="package" version="0.5.18">readtagger</requirement>
+        <requirement type="package" version="0.5.19">readtagger</requirement>
     </requirements>
     <version_command>findcluster --version</version_command>
     <command detect_errors="aggressive"><![CDATA[
diff -r b090e190c813 -r 8ef26717ba8b normalize_readsizes.xml
--- a/normalize_readsizes.xml	Wed Dec 18 09:27:51 2019 -0500
+++ b/normalize_readsizes.xml	Sat Jan 11 11:58:25 2020 -0500
@@ -1,7 +1,7 @@
-<tool id="normalize_readsizes" name="Normalize readsizes" version="0.5.18">
+<tool id="normalize_readsizes" name="Normalize readsizes" version="0.5.19">
     <description>of multiple fastq files</description>
     <requirements>
-        <requirement type="package" version="0.5.18">readtagger</requirement>
+        <requirement type="package" version="0.5.19">readtagger</requirement>
     </requirements>
     <version_command>normalize_readsizes --version</version_command>
     <command detect_errors="aggressive"><![CDATA[
diff -r b090e190c813 -r 8ef26717ba8b plot_coverage.xml
--- a/plot_coverage.xml	Wed Dec 18 09:27:51 2019 -0500
+++ b/plot_coverage.xml	Sat Jan 11 11:58:25 2020 -0500
@@ -1,7 +1,7 @@
-<tool id="plot_coverage" name="Plot coverage" version="0.5.18">
+<tool id="plot_coverage" name="Plot coverage" version="0.5.19">
     <description>as area plot between BAM files</description>
     <requirements>
-        <requirement type="package" version="0.5.18">readtagger</requirement>
+        <requirement type="package" version="0.5.19">readtagger</requirement>
     </requirements>
     <command detect_errors="aggressive"><![CDATA[
         #import re
diff -r b090e190c813 -r 8ef26717ba8b update_mapq.xml
--- a/update_mapq.xml	Wed Dec 18 09:27:51 2019 -0500
+++ b/update_mapq.xml	Sat Jan 11 11:58:25 2020 -0500
@@ -1,7 +1,7 @@
-<tool id="update_mapq" name="Update MAPQ score" version="0.5.18">
+<tool id="update_mapq" name="Update MAPQ score" version="0.5.19">
     <description>of supplementary alignments</description>
     <requirements>
-        <requirement type="package" version="0.5.18">readtagger</requirement>
+        <requirement type="package" version="0.5.19">readtagger</requirement>
     </requirements>
     <version_command>update_mapq --version</version_command>
     <command detect_errors="aggressive"><![CDATA[
diff -r b090e190c813 -r 8ef26717ba8b write_supplementary_fastq.xml
--- a/write_supplementary_fastq.xml	Wed Dec 18 09:27:51 2019 -0500
+++ b/write_supplementary_fastq.xml	Sat Jan 11 11:58:25 2020 -0500
@@ -1,7 +1,7 @@
-<tool id="write_supplementary_fastq" name="Extract supplementary alignments" version="0.5.18">
+<tool id="write_supplementary_fastq" name="Extract supplementary alignments" version="0.5.19">
     <description>from SAM/BAM alignment files as FASTQ</description>
     <requirements>
-        <requirement type="package" version="0.5.18">readtagger</requirement>
+        <requirement type="package" version="0.5.19">readtagger</requirement>
     </requirements>
     <version_command>write_supplementary_fastq --version</version_command>
     <command detect_errors="aggressive"><![CDATA[