Mercurial > repos > iuc > teloscope

changeset 2:6ffd06266ef3 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/teloscope commit 201733bc2332c99e30f65ae90a3c2f299153fff2
author iuc
date Thu, 15 Jan 2026 17:33:16 +0000
parents 089c6e8122c8
children
files macros.xml teloscope.xml
diffstat 2 files changed, 11 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/macros.xml	Wed Dec 03 18:54:06 2025 +0000
+++ b/macros.xml	Thu Jan 15 17:33:16 2026 +0000
@@ -5,7 +5,7 @@
         </requirements>
     </xml>
     <token name="@TOOL_VERSION@">0.1.3</token>
-    <token name="@VERSION_SUFFIX@">0</token>
+    <token name="@VERSION_SUFFIX@">1</token>
     <token name="@PROFILE@">23.02</token>
     <xml name="citations">
         <citations>
--- a/teloscope.xml	Wed Dec 03 18:54:06 2025 +0000
+++ b/teloscope.xml	Thu Jan 15 17:33:16 2026 +0000
@@ -29,7 +29,7 @@
             $out_its
             $ultra_fast
             $verbose
-            > output/${input_sequence.name}.telo.report
+            > '$telo_report'
     ]]></command>
     <inputs>
         <param argument="--input-sequence" type="data" format="fasta,fasta.gz" label="Input assembly"/>
@@ -72,7 +72,7 @@
     <outputs>
         <!-- BASIC OUTFILES -->
         <data name="terminal_telomeres" format="bed" from_work_dir="output/*_terminal_telomeres.bed" label="${tool.name} on ${on_string}: Terminal telomeres"/>
-        <data name="telo_report" format="tabular" from_work_dir="output/*.telo.report" label="${tool.name} on ${on_string}: Summary report"/>
+        <data name="telo_report" format="tabular" label="${tool.name} on ${on_string}: Summary report"/>
 
         <!-- OPTIONAL OUTFILES -->
         <data name="interstitial_telomeres" format="bed" from_work_dir="output/*_interstitial_telomeres.bed" label="${tool.name} on ${on_string}: Interstitial telomeres">
@@ -181,6 +181,10 @@
             <output name="telo_report">
                 <assert_contents>
                     <has_line_matching expression="\+\+\+ Path Summary Report \+\+\+"/>
+                    <has_line_matching expression="\+\+\+ Assembly Summary Report \+\+\+"/>
+                    <has_line_matching expression="\+\+\+ Telomere Statistics \+\+\+"/>
+                    <has_line_matching expression="\+\+\+ Chromosome Telomere Counts\+\+\+"/>
+                    <has_line_matching expression="\+\+\+ Chromosome Telomere/Gap Completeness\+\+\+"/>
                 </assert_contents>
             </output>
         </test>
@@ -202,6 +206,10 @@
             <output name="telo_report">
                 <assert_contents>
                     <has_line_matching expression="\+\+\+ Path Summary Report \+\+\+"/>
+                    <has_line_matching expression="\+\+\+ Assembly Summary Report \+\+\+"/>
+                    <has_line_matching expression="\+\+\+ Telomere Statistics \+\+\+"/>
+                    <has_line_matching expression="\+\+\+ Chromosome Telomere Counts\+\+\+"/>
+                    <has_line_matching expression="\+\+\+ Chromosome Telomere/Gap Completeness\+\+\+"/>
                 </assert_contents>
             </output>
         </test>