Mercurial > repos > richard-burhans > segalign
changeset 6:6c95c380bfa7 draft
planemo upload for repository https://github.com/richard-burhans/galaxytools/tree/main/tools/segalign commit a4be517dbe8277bed184b915721964820d7a3af0
| author | richard-burhans |
|---|---|
| date | Mon, 06 May 2024 17:44:50 +0000 |
| parents | 75e15ba3b4c1 |
| children | 39c21be8f8b9 |
| files | macros.xml segalign.xml |
| diffstat | 2 files changed, 11 insertions(+), 11 deletions(-) [+] |
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--- a/macros.xml Wed Apr 24 20:50:20 2024 +0000 +++ b/macros.xml Mon May 06 17:44:50 2024 +0000 @@ -3,11 +3,11 @@ <requirements> <requirement type="package" version="@TOOL_VERSION@">segalign-full</requirement> <requirement type="package" version="0.18">bashlex</requirement> - <yield/> + <requirement type="package" version="3.12">python</requirement> </requirements> </xml> - <token name="@TOOL_VERSION@">0.1.2.1</token> - <token name="@VERSION_SUFFIX@">1</token> + <token name="@TOOL_VERSION@">0.1.2.2</token> + <token name="@VERSION_SUFFIX@">0</token> <token name="@PROFILE@">21.05</token> <xml name="edam_ontology"> <edam_operations>
--- a/segalign.xml Wed Apr 24 20:50:20 2024 +0000 +++ b/segalign.xml Mon May 06 17:44:50 2024 +0000 @@ -174,8 +174,8 @@ <option value="segalign_repeat_masker">SegAlign repeat masker</option> </param> <when value="segalign"> - <param name="target" type="data" format="fasta" label="Target sequence file in FASTA format"/> - <param name="query" type="data" format="fasta" label="Query sequence file in FASTA format"/> + <param name="target" type="data" format="fasta,fasta.gz" label="Target sequence file in FASTA format"/> + <param name="query" type="data" format="fasta,fasta.gz" label="Query sequence file in FASTA format"/> <expand macro="sequence_options"/> <expand macro="scoring_options"/> <expand macro="seeding_options"/> @@ -191,7 +191,7 @@ </section> </when> <when value="segalign_repeat_masker"> - <param name="seq_file" type="data" format="fasta" label="Sequence file in FASTA format"/> + <param name="seq_file" type="data" format="fasta,fasta.gz" label="Sequence file in FASTA format"/> <expand macro="sequence_options"> <param argument="--neighbor_proportion" type="float" value="0.2" label="Proportion of neighbouring intervals to align the query interval to"/> </expand> @@ -224,19 +224,19 @@ <tests> <test expect_num_outputs="1" expect_test_failure="true"> <param name="mode_selector" value="segalign"/> - <param name="target" value="hg38.chr20.chunk.fa.gz" ftype="fasta"/> - <param name="query" value="mm39.chr2.chunk.fa.gz" ftype="fasta"/> + <param name="target" value="hg38.chr20.chunk.fa.gz" ftype="fasta.gz"/> + <param name="query" value="mm39.chr2.chunk.fa.gz" ftype="fasta.gz"/> <output name="segalign_output" decompress="true" file="segalign-output.maf.gz" ftype="maf"/> </test> <test expect_num_outputs="1" expect_test_failure="true"> <param name="mode_selector" value="segalign_repeat_masker"/> - <param name="seq_file" value="hg38.chr20.chunk.fa.gz" ftype="fasta"/> + <param name="seq_file" value="hg38.chr20.chunk.fa.gz" ftype="fasta.gz"/> <output name="segalign_repeat_masker_output" decompress="true" file="segalign-repeat-masker-output.tab.gz" ftype="tabular"/> </test> <test expect_num_outputs="1" expect_test_failure="true"> <param name="mode_selector" value="segalign"/> - <param name="target" value="hg38.chr20.chunk.fa.gz" ftype="fasta"/> - <param name="query" value="mm39.chr2.chunk.fa.gz" ftype="fasta"/> + <param name="target" value="hg38.chr20.chunk.fa.gz" ftype="fasta.gz"/> + <param name="query" value="mm39.chr2.chunk.fa.gz" ftype="fasta.gz"/> <param name="diagonal_partition" value="true"/> <output name="segalign_diagonal_partition_output" ftype="tgz"> <assert_contents>