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changeset 34:5210db15a5fa draft default tip

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planemo upload commit 5c1674d0b06b74cd98d5cd95e8b006e430569086-dirty
author petr-novak
date Thu, 19 Jun 2025 10:21:26 +0000
parents 726b8447eb09
children
files dante.xml dante_gff_output_filtering.xml dante_gff_to_dna.xml dante_gff_to_tabular.xml summarize_gff.xml
diffstat 5 files changed, 11 insertions(+), 10 deletions(-) [+]
line wrap: on
line diff
--- a/dante.xml	Fri Feb 07 10:09:04 2025 +0000
+++ b/dante.xml	Thu Jun 19 10:21:26 2025 +0000
@@ -1,7 +1,7 @@
-<tool id="dante" name="Domain based ANnotation of Transposable Elements - DANTE" version="2.6.2">
+<tool id="dante" name="Domain based ANnotation of Transposable Elements - DANTE" version="2.9.1">
   <description> Tool for annotation of transposable elements based on the similarity to conserved protein domains database. </description>
   <requirements>
-    <requirement type="package">dante=0.2.6</requirement>
+    <requirement type="package" version="0.2.9">dante</requirement>
   </requirements>
   <stdio>
     <regex match="Traceback" source="stderr" level="fatal" description="Unknown error" />
--- a/dante_gff_output_filtering.xml	Fri Feb 07 10:09:04 2025 +0000
+++ b/dante_gff_output_filtering.xml	Thu Jun 19 10:21:26 2025 +0000
@@ -1,7 +1,7 @@
-<tool id="domains_filter" name="Protein Domains Filter" version="2.6.1">
+<tool id="domains_filter" name="Protein Domains Filter" version="2.9.1">
   <description> Tool for filtering of gff3 output from DANTE. Filtering can be performed based domain type and alignment quality. </description>
     <requirements>
-        <requirement type="package">dante=0.2.6</requirement>
+        <requirement type="package" version="0.2.9">dante</requirement>
     </requirements>
     <stdio>
         <regex match="Traceback" source="stderr" level="fatal" description="Unknown error" />
--- a/dante_gff_to_dna.xml	Fri Feb 07 10:09:04 2025 +0000
+++ b/dante_gff_to_dna.xml	Thu Jun 19 10:21:26 2025 +0000
@@ -1,7 +1,7 @@
-<tool id="domains_extract" name="Extract Domains Nucleotide Sequences" version="2.6.1">
+<tool id="domains_extract" name="Extract Domains Nucleotide Sequences" version="2.9.1">
   <description> Tool to extract nucleotide sequences of protein domains found by DANTE </description>
   <requirements>
-    <requirement type="package">dante=0.2.6</requirement>
+    <requirement type="package" version="0.2.9">dante</requirement>
   </requirements>
   <command>
     TEMP_DIR_LINEAGES=\$(mktemp -d) &amp;&amp;
--- a/dante_gff_to_tabular.xml	Fri Feb 07 10:09:04 2025 +0000
+++ b/dante_gff_to_tabular.xml	Thu Jun 19 10:21:26 2025 +0000
@@ -1,6 +1,6 @@
-<tool id="gff_to_tabular" name="Convert dante gff3 to tab delimited file" version="2.6.1" python_template_version="3.5">
+<tool id="gff_to_tabular" name="Convert dante gff3 to tab delimited file" version="2.9.1" python_template_version="3.5">
     <requirements>
-        <requirement type="package">dante=0.2.6</requirement>
+        <requirement type="package" version="0.2.9">dante</requirement>
     </requirements>
     <command detect_errors="exit_code"><![CDATA[
         summarize_gff.R '$inputgff' '$output'
--- a/summarize_gff.xml	Fri Feb 07 10:09:04 2025 +0000
+++ b/summarize_gff.xml	Thu Jun 19 10:21:26 2025 +0000
@@ -1,6 +1,6 @@
-<tool id="gff_summary" name="Summarize gff3 output from DANTE" version="2.6.1" python_template_version="3.5">
+<tool id="gff_summary" name="Summarize gff3 output from DANTE" version="2.9.1" python_template_version="3.5">
     <requirements>
-        <requirement type="package">dante=0.2.6</requirement>
+        <requirement type="package" version="0.2.9">dante</requirement>
     </requirements>
     <command detect_errors="exit_code"><![CDATA[
         summarize_gff.R '$inputgff' '$output' '$group'
@@ -20,3 +20,4 @@
         TODO: Fill in help.
     ]]></help>
 </tool>
+z
\ No newline at end of file