Mercurial > repos > iuc > arriba
diff arriba.xml @ 4:98163e8ed458 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/arriba commit 26aa67fb926f54dfda456f8e25b3c3a21aa63685
| author | iuc |
|---|---|
| date | Wed, 25 Sep 2024 15:29:26 +0000 |
| parents | 2eca65b822be |
| children | 5e03d09d5fdc |
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--- a/arriba.xml Fri Mar 24 08:12:15 2023 +0000 +++ b/arriba.xml Wed Sep 25 15:29:26 2024 +0000 @@ -217,7 +217,7 @@ Asterisks (*) are treated as wild-cards. Default: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 X Y AC_* NC_* </help> - <validator type="regex" message="not a valid contig name">^((@GENOME_CONTIG@|@VIRAL_CONTIG@)([,\s]\s*(*@GENOME_CONTIG@|@VIRAL_CONTIG@))*)*</validator> + <validator type="regex" message="not a valid contig name">^((@GENOME_CONTIG@|@VIRAL_CONTIG@)([,\s]\s*(@GENOME_CONTIG@|@VIRAL_CONTIG@))*)$</validator> </param> <param name="viral_contigs" argument="-v" type="text" value="" optional="true" label="Comma/space-separated list of viral contigs"> <help>Comma-/space-separated list of viral contigs for reporting of viral integration sites. @@ -472,8 +472,8 @@ <test expect_num_outputs="4"> <param name="input" ftype="sam" value="Aligned.out.sam"/> <conditional name="genome"> - <param name="genome_source" value="history"/> - <param name="assembly" ftype="fasta" value="genome.fasta.gz"/> + <param name="genome_source" value="cached"/> + <param name="ref_file" value="genome_id"/> </conditional> <conditional name="genome_gtf"> <param name="gtf_source" value="history"/>