Mercurial > repos > lparsons > cutadapt
changeset 41:5eb7e84243f2 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/cutadapt commit fff23da3bceafb57de06af03d4c8ab4d66d4b098
| author | iuc |
|---|---|
| date | Thu, 18 Jul 2024 09:54:30 +0000 |
| parents | aa784cb3810d |
| children | |
| files | macros.xml |
| diffstat | 1 files changed, 3 insertions(+), 29 deletions(-) [+] |
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--- a/macros.xml Mon Jul 08 16:21:21 2024 +0000 +++ b/macros.xml Thu Jul 18 09:54:30 2024 +0000 @@ -1,6 +1,6 @@ <macros> <token name="@TOOL_VERSION@">4.9</token> - <token name="@VERSION_SUFFIX@">0</token> + <token name="@VERSION_SUFFIX@">1</token> <token name="@FASTQ_TYPES@">fastq.bz2,fastq.gz,fastq,fasta.bz2,fasta.gz,fasta</token> <xml name="edam_ontology"> <edam_topics> @@ -38,34 +38,8 @@ #end if </token> <xml name="adapter_sanitizer"> - <sanitizer> - <valid initial="string.digits"> - <add value="A"/><!--standard nucleotides--> - <add value="T"/> - <add value="C"/> - <add value="G"/> - <add value="U"/><!--ambiguous nucleotides--> - <add value="R"/> - <add value="Y"/> - <add value="S"/> - <add value="W"/> - <add value="K"/> - <add value="M"/> - <add value="B"/> - <add value="D"/> - <add value="H"/> - <add value="V"/> - <add value="N"/> - <add value="X"/><!-- don't match any nucleotide--> - <add value="{"/><!--specify repeats .. needs digits which are added as default--> - <add value="}"/> - <add value="^"/><!--anchoring--> - <add value="$"/> - <add value="."/> - <add value="("/><!--specify what to keep--> - <add value=")"/> - </valid> - </sanitizer> + <sanitizer sanitize="false" /> + <validator type="regex" message="Invalid adapter sequence. Allowed are strings consisting of digits IUPAC nucleotides (including wildcards) and any of the following '{}^$.()'. See https://cutadapt.readthedocs.io/en/stable/guide.html#specifying-adapter-sequences"><![CDATA[[0-9ATCGURYSWKMBDHVNX{}^$.()]+$]]></validator> </xml> <xml name="adapter_conditional" tokens="adapter_type,argument"> <conditional name="adapter_source">