# HG changeset patch
# User iuc
# Date 1739316432 0
# Node ID 00e0347751b1a2c0d174758d626aec80da387e64
# Parent  e8fba04706d381e77e2a55362b2fa8e19052ab3e
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit bbbc0e71b1db299a7c7296f25ac7adcccd27fbe3

diff -r e8fba04706d3 -r 00e0347751b1 dada2_filterAndTrim.xml
--- a/dada2_filterAndTrim.xml	Fri May 24 11:41:31 2024 +0000
+++ b/dada2_filterAndTrim.xml	Tue Feb 11 23:27:12 2025 +0000
@@ -1,4 +1,4 @@
-<tool id="dada2_filterAndTrim" name="dada2: filterAndTrim" version="@DADA2_VERSION@+galaxy@WRAPPER_VERSION@" profile="19.09">
+<tool id="dada2_filterAndTrim" name="dada2: filterAndTrim" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
     <description>Filter and trim short read data</description>
     <macros>
         <import>macros.xml</import>
@@ -294,8 +294,7 @@
 
 - Truncation of the read length is enforced after trimming of the right end.
 - The long read filter is applied before trimming and the short read filter after trimming.
-- For details on the calculation of the number of expected errors see also https://doi.org/10.1093/bioinformatics/btv401
-
+- For details on the calculation of the number of expected errors see also Calahan et al. 2016
 
 *String present at the start of valid reads* (orient.fwd):
 
@@ -316,4 +315,4 @@
 @HELP_OVERVIEW@
     ]]></help>
     <expand macro="citations"/>
-</tool>
+</tool>
\ No newline at end of file
diff -r e8fba04706d3 -r 00e0347751b1 macros.xml
--- a/macros.xml	Fri May 24 11:41:31 2024 +0000
+++ b/macros.xml	Tue Feb 11 23:27:12 2025 +0000
@@ -2,7 +2,7 @@
 <macros>
     <xml name="requirements">
         <requirements>
-            <requirement type="package" version="@DADA2_VERSION@">bioconductor-dada2</requirement>
+            <requirement type="package" version="@TOOL_VERSION@">bioconductor-dada2</requirement>
             <yield/>
         </requirements>
     </xml>
@@ -12,8 +12,9 @@
             <xref type="bioconductor">dada2</xref>
         </xrefs>
     </xml>
-    <token name="@DADA2_VERSION@">1.30.0</token>
-    <token name="@WRAPPER_VERSION@">0</token>
+    <token name="@PROFILE@">23.2</token>
+    <token name="@TOOL_VERSION@">1.34.0</token>
+    <token name="@VERSION_SUFFIX@">0</token>
 
     <xml name="version_command">
         <version_command><![CDATA[