Mercurial > repos > iuc > hal_halpctid
changeset 2:95f0cb8ccfe1 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/haltools commit 30ac0af6dfa729277011bcd73cd5560efa03fb97
| author | iuc |
|---|---|
| date | Wed, 18 Mar 2026 15:21:14 +0000 |
| parents | 3abff47d131b |
| children | |
| files | hal_halPctId.xml macros.xml test-data/halAddToBranch_bot_input.hal test-data/halAddToBranch_top_input.hal test-data/halTestExtended.hal |
| diffstat | 5 files changed, 10 insertions(+), 9 deletions(-) [+] |
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--- a/hal_halPctId.xml Thu Mar 05 11:35:31 2026 +0000 +++ b/hal_halPctId.xml Wed Mar 18 15:21:14 2026 +0000 @@ -11,7 +11,7 @@ --numSamples $numSamples --seed $seed ## Pipes output to replace commas with tabs. Output is mostly numerical, and Genome names contain no commas, as this would invalidate the HAL Newick tree. - '$input_hal' '$refGenome' | tr ',' '\t' > '$out_file' + '$input_hal' '$refGenome' | sed $'s/, */\t/g' > '$out_file' ]]></command> <inputs> <expand macro="input_hal"/> @@ -29,9 +29,9 @@ <param name="seed" value="100"/> <output name="out_file" ftype="tabular"> <assert_contents> - <has_line line="Genome	 IdenticalSites	 AlignedSites	 PercentIdentity"/> - <has_line line="Genome_1	 856475	 856475	 100"/> - <has_line line="Genome_2	 374132	 374132	 100"/> + <has_line line="Genome	IdenticalSites	AlignedSites	PercentIdentity"/> + <has_line line="Genome_1	856475	856475	100"/> + <has_line line="Genome_2	374132	374132	100"/> <has_n_lines n="4"/> </assert_contents> </output> @@ -43,9 +43,9 @@ <param name="seed" value="100"/> <output name="out_file" ftype="tabular"> <assert_contents> - <has_line line="Genome	 IdenticalSites	 AlignedSites	 PercentIdentity"/> - <has_line line="Genome_1	 839	 839	 100"/> - <has_line line="Genome_2	 339	 339	 100"/> + <has_line line="Genome	IdenticalSites	AlignedSites	PercentIdentity"/> + <has_line line="Genome_1	839	839	100"/> + <has_line line="Genome_2	339	339	100"/> <has_n_lines n="4"/> </assert_contents> </output>
--- a/macros.xml Thu Mar 05 11:35:31 2026 +0000 +++ b/macros.xml Wed Mar 18 15:21:14 2026 +0000 @@ -4,8 +4,9 @@ <requirement type="package" version="@TOOL_VERSION@">cactus</requirement> </requirements> </xml> - <token name="@TOOL_VERSION@">2.9.9</token> - <token name="@VERSION_SUFFIX@">1</token> + <token name="@TOOL_VERSION@">3.1.4</token> + <token name="@VERSION_SUFFIX@">0</token> + <token name="@VERSION_SUFFIX_HAL2VG@">1</token> <token name="@PROFILE@">25.1</token> <xml name="stdio"> <stdio>