Mercurial > repos > mvdbeek > bam_readtagger

changeset 48:72c9afb724a6 draft

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planemo upload for repository https://github.com/bardin-lab/readtagger/tree/master/galaxy commit d71c7dbbf4deb4e3300e34a5c756f46cf7504888
author mvdbeek
date Sun, 10 Feb 2019 15:59:07 -0500
parents a4e30210fc3d
children f4344d943248
files add_matesequence.xml allow_dovetailing.xml bam_readtagger.xml filter_insertions.xml findcluster.xml plot_coverage.xml update_mapq.xml write_supplementary_fastq.xml
diffstat 8 files changed, 16 insertions(+), 16 deletions(-) [+]
line wrap: on
line diff
--- a/add_matesequence.xml	Mon Jan 28 03:26:58 2019 -0500
+++ b/add_matesequence.xml	Sun Feb 10 15:59:07 2019 -0500
@@ -1,7 +1,7 @@
-<tool id="add_matesequence" name="Add matesequence" version="0.4.16">
+<tool id="add_matesequence" name="Add matesequence" version="0.4.17">
     <description>into tag field</description>
     <requirements>
-        <requirement type="package" version="0.4.16">readtagger</requirement>
+        <requirement type="package" version="0.4.17">readtagger</requirement>
     </requirements>
     <version_command>add_matesequence --version</version_command>
     <command detect_errors="aggressive"><![CDATA[
--- a/allow_dovetailing.xml	Mon Jan 28 03:26:58 2019 -0500
+++ b/allow_dovetailing.xml	Sun Feb 10 15:59:07 2019 -0500
@@ -1,7 +1,7 @@
-<tool id="allow_dovetailing" name="Allow dovetailing" version="0.4.16">
+<tool id="allow_dovetailing" name="Allow dovetailing" version="0.4.17">
     <description>modifies proper_pair flag in bam files</description>
     <requirements>
-        <requirement type="package" version="0.4.16">readtagger</requirement>
+        <requirement type="package" version="0.4.17">readtagger</requirement>
     </requirements>
     <command detect_errors="aggressive"><![CDATA[
         allow_dovetailing -i '$input' -o '$output'
--- a/bam_readtagger.xml	Mon Jan 28 03:26:58 2019 -0500
+++ b/bam_readtagger.xml	Sun Feb 10 15:59:07 2019 -0500
@@ -1,10 +1,10 @@
-<tool id="bam_readtagger" name="Tag alignment files" version="0.4.16">
+<tool id="bam_readtagger" name="Tag alignment files" version="0.4.17">
     <description>from multiple bam files</description>
     <macros>
         <import>macros.xml</import>
     </macros>
     <requirements>
-        <requirement type="package" version="0.4.16">readtagger</requirement>
+        <requirement type="package" version="0.4.17">readtagger</requirement>
     </requirements>
     <command detect_errors="aggressive"><![CDATA[
         readtagger -t '$tag_file' -s
--- a/filter_insertions.xml	Mon Jan 28 03:26:58 2019 -0500
+++ b/filter_insertions.xml	Sun Feb 10 15:59:07 2019 -0500
@@ -1,7 +1,7 @@
-<tool id="confirm_insertions" name="Confirm or discard insertions" version="0.4.16">
+<tool id="confirm_insertions" name="Confirm or discard insertions" version="0.4.17">
     <description>based on softclips in control files</description>
     <requirements>
-        <requirement type="package" version="0.4.16">readtagger</requirement>
+        <requirement type="package" version="0.4.17">readtagger</requirement>
     </requirements>
     <version_command>confirm_insertions --version</version_command>
     <command detect_errors="aggressive"><![CDATA[
--- a/findcluster.xml	Mon Jan 28 03:26:58 2019 -0500
+++ b/findcluster.xml	Sun Feb 10 15:59:07 2019 -0500
@@ -1,10 +1,10 @@
-<tool id="findcluster" name="Find clusters of reads" version="0.4.16">
+<tool id="findcluster" name="Find clusters of reads" version="0.4.17">
     <description>in bam files</description>
     <macros>
         <import>macros.xml</import>
     </macros>
     <requirements>
-        <requirement type="package" version="0.4.16">readtagger</requirement>
+        <requirement type="package" version="0.4.17">readtagger</requirement>
     </requirements>
     <version_command>findcluster --version</version_command>
     <command detect_errors="aggressive"><![CDATA[
--- a/plot_coverage.xml	Mon Jan 28 03:26:58 2019 -0500
+++ b/plot_coverage.xml	Sun Feb 10 15:59:07 2019 -0500
@@ -1,7 +1,7 @@
-<tool id="plot_coverage" name="Plot coverage" version="0.4.16">
+<tool id="plot_coverage" name="Plot coverage" version="0.4.17">
     <description>as area plot between BAM files</description>
     <requirements>
-        <requirement type="package" version="0.4.16">readtagger</requirement>
+        <requirement type="package" version="0.4.17">readtagger</requirement>
     </requirements>
     <command detect_errors="aggressive"><![CDATA[
         #import re
--- a/update_mapq.xml	Mon Jan 28 03:26:58 2019 -0500
+++ b/update_mapq.xml	Sun Feb 10 15:59:07 2019 -0500
@@ -1,7 +1,7 @@
-<tool id="update_mapq" name="Update MAPQ score" version="0.4.16">
+<tool id="update_mapq" name="Update MAPQ score" version="0.4.17">
     <description>of supplementary alignments</description>
     <requirements>
-        <requirement type="package" version="0.4.16">readtagger</requirement>
+        <requirement type="package" version="0.4.17">readtagger</requirement>
     </requirements>
     <version_command>update_mapq --version</version_command>
     <command detect_errors="aggressive"><![CDATA[
--- a/write_supplementary_fastq.xml	Mon Jan 28 03:26:58 2019 -0500
+++ b/write_supplementary_fastq.xml	Sun Feb 10 15:59:07 2019 -0500
@@ -1,7 +1,7 @@
-<tool id="write_supplementary_fastq" name="Extract supplementary alignments" version="0.4.16">
+<tool id="write_supplementary_fastq" name="Extract supplementary alignments" version="0.4.17">
     <description>from SAM/BAM alignment files as FASTQ</description>
     <requirements>
-        <requirement type="package" version="0.4.16">readtagger</requirement>
+        <requirement type="package" version="0.4.17">readtagger</requirement>
     </requirements>
     <version_command>write_supplementary_fastq --version</version_command>
     <command detect_errors="aggressive"><![CDATA[