Mercurial > repos > iuc > meryl_count_kmers

changeset 1:bb6774c6aeaf draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meryl commit a3a16149db71f9b72dd7e949df0db08797637312
author iuc
date Tue, 08 Oct 2024 16:43:53 +0000
parents a33c838729c5
children
files count-kmers.xml macros.xml
diffstat 2 files changed, 6 insertions(+), 5 deletions(-) [+]
line wrap: on
line diff
--- a/count-kmers.xml	Thu Apr 25 21:00:36 2024 +0000
+++ b/count-kmers.xml	Tue Oct 08 16:43:53 2024 +0000
@@ -27,7 +27,7 @@
     ./input.${input_reads.ext}
     output read-db.meryl &&
     echo 'K-mer size: ${size}' &&
-    tar -zcf read-db.meryldb read-db.meryl
+    tar -cf read-db.meryldb --use-compress-program="pigz -p \${GALAXY_SLOTS:-1}" read-db.meryl
     ]]></command>
     <inputs>
         <param name="count_operation" type="select" label="Count operations" help="Select an operation to be executed">
@@ -63,7 +63,7 @@
             <param name="count_operation" value="count"/>
             <output name="read_db" ftype="meryldb">
                 <assert_contents>
-                    <has_size value="22152" delta="1000"/>
+                    <has_size value="23404" delta="3000"/>
                     <expand macro="meryldb_archive_assumptions"/>
                 </assert_contents>
             </output>
@@ -80,7 +80,7 @@
             <param name="count_operation" value="count"/>
             <output name="read_db" ftype="meryldb">
                 <assert_contents>
-                    <has_size value="22200" delta="1000"/>
+                    <has_size value="22700" delta="3000"/>
                     <expand macro="meryldb_archive_assumptions"/>
                 </assert_contents>
             </output>
@@ -97,7 +97,7 @@
             <param name="count_operation" value="count"/>
             <output name="read_db" ftype="meryldb">
                 <assert_contents>
-                    <has_size value="22200" delta="1000"/>
+                    <has_size value="23155" delta="3000"/>
                     <expand macro="meryldb_archive_assumptions"/>
                 </assert_contents>
             </output>
--- a/macros.xml	Thu Apr 25 21:00:36 2024 +0000
+++ b/macros.xml	Tue Oct 08 16:43:53 2024 +0000
@@ -1,7 +1,7 @@
 <macros>
     <token name="@TOOL_VERSION@">1.3</token>
     <token name="@GALAXY_TOOL_VERSION@">galaxy</token>
-    <token name="@SUFFIX_VERSION@">6</token>
+    <token name="@SUFFIX_VERSION@">7</token>
     <token name="@PROFILE@">22.01</token>
     <xml name="edam_ontology">
         <edam_topics>                                                                                  
@@ -16,6 +16,7 @@
             <requirement type="package" version="1.1">merqury</requirement>
             <requirement type="package" version="@TOOL_VERSION@">meryl</requirement>
             <requirement type="package" version="1.34">tar</requirement>
+            <requirement type="package" version="2.8">pigz</requirement>
         </requirements>
     </xml>
     <xml name="meryldb_archive_assumptions">