Mercurial > repos > iuc > meryl_arithmetic_kmers

changeset 2:ee4f9a0cb72a draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/meryl commit 6935ad9dddbbb913817552d682d0b2208481dc7f
author iuc
date Sun, 09 Nov 2025 18:37:06 +0000
parents 8d594609538e
children
files macros.xml
diffstat 1 files changed, 17 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/macros.xml	Tue Oct 08 16:43:43 2024 +0000
+++ b/macros.xml	Sun Nov 09 18:37:06 2025 +0000
@@ -1,7 +1,7 @@
 <macros>
-    <token name="@TOOL_VERSION@">1.3</token>
+    <token name="@TOOL_VERSION@">1.4.1</token>
     <token name="@GALAXY_TOOL_VERSION@">galaxy</token>
-    <token name="@SUFFIX_VERSION@">7</token>
+    <token name="@SUFFIX_VERSION@">0</token>
     <token name="@PROFILE@">22.01</token>
     <xml name="edam_ontology">
         <edam_topics>                                                                                  
@@ -19,6 +19,21 @@
             <requirement type="package" version="2.8">pigz</requirement>
         </requirements>
     </xml>
+    <xml name="kmer_param">
+        <conditional name="options_kmer_size">
+            <param name="kmer_size" type="select" label="K-mer size selector">
+                <option value="provide">Set a k-mer size</option>
+                <option value="estimate">Estimate the best k-mer size</option>
+            </param>
+            <when value="provide">
+                <param name="input_kmer_size" type="integer" min="1" value="" label="K-mer size" help="For a human genome, the best k-mer size is k=21 for both haploid (3.1G) or diploid (6.2G).."/>
+            </when>
+            <when value="estimate">
+                <param name="genome_size" type="integer" min="1000" max="70000000000" value="1000" label="Genome size" help="Haploid genome size or diploid genome size, depending on what we evaluate. In bp. Only required if the k-mer size is not provided."/>
+                <param name="collision_rate" type="float" min="0.0001" max="0.01" value="0.001" label="Tolerable collision rate" help="Tolerable collision rate. By default is 0.001."/>
+            </when>
+        </conditional>
+    </xml>
     <xml name="meryldb_archive_assumptions">
         <has_archive_member path="^[^/]+.meryl$" n="1"/>  <!-- folder also counts -->
         <has_archive_member path="[^/]+.meryl/merylIndex" n="1" all="true">