# HG changeset patch
# User iuc
# Date 1772793614 0
# Node ID 8fca6e1eac9886643be8ca0012abdfd5a9cab292
# Parent  57934e90e27cebefe84142668c9aa7d5e20819c2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tool_collections/samtools/samtools_stats commit 26763d398d563ccafd2d66ab325f50f5708b5ebc

diff -r 57934e90e27c -r 8fca6e1eac98 samtools_stats.xml
--- a/samtools_stats.xml	Wed Nov 12 13:01:23 2025 +0000
+++ b/samtools_stats.xml	Fri Mar 06 10:40:14 2026 +0000
@@ -1,4 +1,4 @@
-<tool id="samtools_stats" name="Samtools stats" version="2.0.8" profile="@PROFILE@">
+<tool id="samtools_stats" name="Samtools stats" version="2.0.9" profile="@PROFILE@">
     <description>generate statistics for BAM dataset</description>
     <macros>
         <import>macros.xml</import>
@@ -175,8 +175,8 @@
         <test expect_num_outputs="1">
             <param name="input" value="2_equal_cigar_full_seq.sam" ftype="sam" />
             <conditional name="addref_cond">
-                <param name="addref_select" value="history" />
-                <param name="ref" value="test.fa" ftype="fasta" />
+                <param name="addref_select" value="cached" />
+                <param name="ref" value="test" />
             </conditional>
             <output name="output" file="2.stats.expected" ftype="tabular" lines_diff="8" />
         </test>
diff -r 57934e90e27c -r 8fca6e1eac98 test-data/fasta_indexes.loc
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/fasta_indexes.loc	Fri Mar 06 10:40:14 2026 +0000
@@ -0,0 +1,1 @@
+test	hg38	test_name	${__HERE__}/test.fa
diff -r 57934e90e27c -r 8fca6e1eac98 test-data/test.fa.fai
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/test.fa.fai	Fri Mar 06 10:40:14 2026 +0000
@@ -0,0 +1,1 @@
+alpha	100	7	60	61
diff -r 57934e90e27c -r 8fca6e1eac98 tool_data_table_conf.xml.test
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_data_table_conf.xml.test	Fri Mar 06 10:40:14 2026 +0000
@@ -0,0 +1,7 @@
+<!-- Use the file tool_data_table_conf.xml.oldlocstyle if you don't want to update your loc files as changed in revision 4550:535d276c92bc-->
+<tables>
+    <table name="fasta_indexes" comment_char="#">
+        <columns>value, dbkey, name, path</columns>
+        <file path="${__HERE__}/test-data/fasta_indexes.loc" />
+    </table>
+</tables>