Mercurial > repos > petr-novak > re_utils

changeset 30:cab41d23e2a3 draft

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planemo upload commit 20bdf879b52796d3fb251a20807191ff02084d3c-dirty
author petr-novak
date Thu, 03 Aug 2023 08:40:38 +0000
parents 53dc6aef5441
children be1f407e1018
files cluster_table2krona_format.xml extract_files_from_re_archive.xml fasta_affixer.xml fasta_interlacer.xml fastq_name_affixer.xml pairScan.xml renameSequences.xml
diffstat 7 files changed, 20 insertions(+), 4 deletions(-) [+]
line wrap: on
line diff
--- a/cluster_table2krona_format.xml	Thu Aug 03 07:32:40 2023 +0000
+++ b/cluster_table2krona_format.xml	Thu Aug 03 08:40:38 2023 +0000
@@ -1,4 +1,7 @@
 <tool id="cluster_table2krona_format" name="Convert RepeatExplorer2 CLUSTER_table.csv to Krona formatted input " version="1.0.0.3" python_template_version="3.5">
+    <requirements>
+        <requirement type="package" version="3">python</requirement>
+    </requirements>
     <required_files>
         <include type="literal" path="cluster_table2krona_format.py"/>
     </required_files>
--- a/extract_files_from_re_archive.xml	Thu Aug 03 07:32:40 2023 +0000
+++ b/extract_files_from_re_archive.xml	Thu Aug 03 08:40:38 2023 +0000
@@ -1,5 +1,5 @@
 <tool id="extract_var_files_from_re"
-      name="Extract various files from RepeatExplorer2 archive" version="1.0.0.3">
+      name="Extract various files from RepeatExplorer2 archive" version="1.0.0.4">
     <command detect_errors="exit_code">
         <![CDATA[
 
--- a/fasta_affixer.xml	Thu Aug 03 07:32:40 2023 +0000
+++ b/fasta_affixer.xml	Thu Aug 03 08:40:38 2023 +0000
@@ -1,5 +1,8 @@
-<tool id="fasta_affixer" name="FASTA read name affixer" version="1.0.0.3">
+<tool id="fasta_affixer" name="FASTA read name affixer" version="1.0.0.4">
     <description>Appending suffix and prefix to the read names</description>
+    <requirements>
+        <requirement type="package" version="3">python</requirement>
+    </requirements>
     <required_files>
         <include type="literal" path="fasta_affixer.py"/>
     </required_files>
--- a/fasta_interlacer.xml	Thu Aug 03 07:32:40 2023 +0000
+++ b/fasta_interlacer.xml	Thu Aug 03 08:40:38 2023 +0000
@@ -1,5 +1,8 @@
-<tool id="fasta_interlacer" name="FASTA interlacer" version="1.0.0.3">
+<tool id="fasta_interlacer" name="FASTA interlacer" version="1.0.0.4">
     <description>Join pared reads into single file</description>
+    <requirements>
+        <container type="package" version="3">python</container>
+    </requirements>
     <required_files>
         <include type="literal" path="fasta_interlacer.py"/>
     </required_files>
--- a/fastq_name_affixer.xml	Thu Aug 03 07:32:40 2023 +0000
+++ b/fastq_name_affixer.xml	Thu Aug 03 08:40:38 2023 +0000
@@ -1,5 +1,8 @@
-<tool id="names_affixer" name="FASTQ Read name affixer" version="1.0.0.3">
+<tool id="names_affixer" name="FASTQ Read name affixer" version="1.0.0.4">
     <description>Tool appending suffix and prefix to sequences names</description>
+    <requirements>
+        <requirement type="package" version="3">python</requirement>
+    </requirements>
     <required_files>
         <include type="literal" path="name_affixer.py"/>
     </required_files>
--- a/pairScan.xml	Thu Aug 03 07:32:40 2023 +0000
+++ b/pairScan.xml	Thu Aug 03 08:40:38 2023 +0000
@@ -2,6 +2,7 @@
 <tool id="pairScan" name="Scan paired-end reads for overlap" version="1.0.0.3">
   <description> Scan paired-end reads for overlap </description>
   <requirements>
+    <container type="package" version="3">python</container>
     <requirement type="package">python-levenshtein</requirement>
   </requirements>
   <required_files>
--- a/renameSequences.xml	Thu Aug 03 07:32:40 2023 +0000
+++ b/renameSequences.xml	Thu Aug 03 08:40:38 2023 +0000
@@ -2,6 +2,9 @@
     <description>Rename sequences using numerical counter, keep required prefix and pair
         information
     </description>
+    <requirements>
+        <requirement type="package" version="3">python</requirement>
+    </requirements>
     <required_files>
         <include type="literal" path="renameSequences2.py"/>
     </required_files>