# HG changeset patch
# User iuc
# Date 1667504226 0
# Node ID 6b4916819621706fa4d44b0301780e5812af7ace
# Parent  f66e4858ca26a138489728b396d0f5f69c8237b0
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bowtie2 commit 3ae56dd669038a65c3f60ba64c67cbefb254ab5e

diff -r f66e4858ca26 -r 6b4916819621 bowtie2_macros.xml
--- a/bowtie2_macros.xml	Wed Jul 06 10:24:52 2022 +0000
+++ b/bowtie2_macros.xml	Thu Nov 03 19:37:06 2022 +0000
@@ -1,5 +1,6 @@
 <macros>
-    <token name="@TOOL_VERSION@">2.4.5</token>
+    <token name="@TOOL_VERSION@">2.5.0</token>
+    <token name="@VERSION_SUFFIX@">0</token>
     <!-- Import this at the top of your command block and then
          define rg_auto_name. -->
     <token name="@define_read_group_helpers@">
diff -r f66e4858ca26 -r 6b4916819621 bowtie2_wrapper.xml
--- a/bowtie2_wrapper.xml	Wed Jul 06 10:24:52 2022 +0000
+++ b/bowtie2_wrapper.xml	Thu Nov 03 19:37:06 2022 +0000
@@ -1,4 +1,4 @@
-<tool id="bowtie2" name="Bowtie2" version="@TOOL_VERSION@+galaxy1" profile="20.05">
+<tool id="bowtie2" name="Bowtie2" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.05">
     <description>- map reads against reference genome</description>
     <macros>
         <import>bowtie2_macros.xml</import>
@@ -8,7 +8,7 @@
     </xrefs>
     <requirements>
         <requirement type="package" version="@TOOL_VERSION@">bowtie2</requirement>
-        <requirement type="package" version="1.14">samtools</requirement>
+        <requirement type="package" version="1.16.1">samtools</requirement>
     </requirements>
     <version_command>bowtie2 --version</version_command>
     <command detect_errors="exit_code"><![CDATA[
diff -r f66e4858ca26 -r 6b4916819621 test-data/bowtie2-test1.bam
Binary file test-data/bowtie2-test1.bam has changed
diff -r f66e4858ca26 -r 6b4916819621 test-data/bowtie2-test2.bam
Binary file test-data/bowtie2-test2.bam has changed
diff -r f66e4858ca26 -r 6b4916819621 test-data/bowtie2-test_fasta_in.bam
Binary file test-data/bowtie2-test_fasta_in.bam has changed
diff -r f66e4858ca26 -r 6b4916819621 test-data/bowtie2-test_fasta_in_bam_qname_input_sorted.bam
Binary file test-data/bowtie2-test_fasta_in_bam_qname_input_sorted.bam has changed
diff -r f66e4858ca26 -r 6b4916819621 test-data/bowtie2-test_il.bam
Binary file test-data/bowtie2-test_il.bam has changed