Mercurial > repos > devteam > samtools_stats
changeset 16:8fca6e1eac98 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tool_collections/samtools/samtools_stats commit 26763d398d563ccafd2d66ab325f50f5708b5ebc
| author | iuc |
|---|---|
| date | Fri, 06 Mar 2026 10:40:14 +0000 |
| parents | 57934e90e27c |
| children | |
| files | samtools_stats.xml test-data/fasta_indexes.loc test-data/test.fa.fai tool_data_table_conf.xml.test |
| diffstat | 4 files changed, 12 insertions(+), 3 deletions(-) [+] |
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--- 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>
--- /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 ${__HERE__}/test.fa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/test.fa.fai Fri Mar 06 10:40:14 2026 +0000 @@ -0,0 +1,1 @@ +alpha 100 7 60 61
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_data_table_conf.xml.test Fri Mar 06 10:40:14 2026 +0000 @@ -0,0 +1,7 @@ +<!-- Use the file tool_data_table_conf.xml.oldlocstyle if you don't want to update your loc files as changed in revision 4550:535d276c92bc--> +<tables> + <table name="fasta_indexes" comment_char="#"> + <columns>value, dbkey, name, path</columns> + <file path="${__HERE__}/test-data/fasta_indexes.loc" /> + </table> +</tables>