Mercurial > repos > iuc > nanocompore_sampcomp
changeset 4:c0fb573c1e8d draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanocompore commit 51078f4c0eab9cc41a0cb2190000e428322631a4
| author | iuc |
|---|---|
| date | Thu, 23 Jun 2022 17:29:34 +0000 |
| parents | b833eff63b10 |
| children | |
| files | macros.xml sampcomp.xml |
| diffstat | 2 files changed, 11 insertions(+), 2 deletions(-) [+] |
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--- a/macros.xml Thu Jul 09 02:38:37 2020 -0400 +++ b/macros.xml Thu Jun 23 17:29:34 2022 +0000 @@ -2,6 +2,11 @@ <macros> <token name="@TOOL_VERSION@">1.0.0rc3.post2</token> <token name="@DESCRIPTION@"></token> + <xml name="bio_tools"> + <xrefs> + <xref type="bio.tools">Nanocompore</xref> + </xrefs> + </xml> <xml name="requirements"> <requirements> <requirement type="package" version="@TOOL_VERSION@">nanocompore</requirement>
--- a/sampcomp.xml Thu Jul 09 02:38:37 2020 -0400 +++ b/sampcomp.xml Thu Jun 23 17:29:34 2022 +0000 @@ -1,6 +1,7 @@ <?xml version="1.0"?> -<tool id="nanocompore_sampcomp" name="SampComp" version="@TOOL_VERSION@+galaxy0"> +<tool id="nanocompore_sampcomp" name="SampComp" version="@TOOL_VERSION@+galaxy1"> <description>to compare Nanopolished datasets</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> @@ -20,6 +21,9 @@ ln -s '$current.index' 'sample_2_${i}.tsv.idx' && #end for + ## symlink fasta file because a .fai file is created + ln -s '$fasta' reference.fa && + ## run nanocompore sampcomp ## required @@ -29,7 +33,7 @@ --label2 '$label2' #set files2 = ','.join(['sample_2_' + str(item) + '.tsv' for item in range(len($file2_rep))]) --file_list2 '$files2' - --fasta '$fasta' + --fasta reference.fa ## optional #if $ap.bed --bed '$ap.bed'