Mercurial > repos > sanbi-uwc > lukasa
changeset 5:9a99e9984a26 draft
planemo upload for repository https://github.com/pvanheus/lukasa commit 255737ae00647a7e240a4b92a7946dccc3133ef7-dirty
| author | sanbi-uwc |
|---|---|
| date | Tue, 25 Oct 2022 05:11:43 +0000 |
| parents | e4ebea0307b6 |
| children | 959c6c234ae7 |
| files | lukasa.xml |
| diffstat | 1 files changed, 11 insertions(+), 3 deletions(-) [+] |
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--- a/lukasa.xml Thu Oct 20 15:12:57 2022 +0000 +++ b/lukasa.xml Tue Oct 25 05:11:43 2022 +0000 @@ -1,9 +1,9 @@ -<tool id="lukasa" name="Lukasa" version="@TOOL_VERSION@+galaxy0" python_template_version="3.5"> +<tool id="lukasa" name="Lukasa" version="@TOOL_VERSION@+galaxy0"> <description>Align protein evidence against genomic contigs using metaeuk and spaln</description> <macros> - <token name="@TOOL_VERSION@">0.12.0</token> + <token name="@TOOL_VERSION@">0.13.0</token> <!-- note that this DOI is for lukasa 0.0.6 - update as needed --> - <token name="@DOI@">10.5281/zenodo.4084862</token> + <token name="@DOI@">10.5281/zenodo.7236571</token> </macros> <requirements> <requirement type="package" version="@TOOL_VERSION@">lukasa</requirement> @@ -13,12 +13,20 @@ #if str($species_table).strip() != '' --species_table '$species_table' #end if + #if str($max_intron).strip(): + --max_intron $max_intron + #end if + #if str($min_intron).strip(): + --min_intron $min_intron + #end if --output_filename '$output_gff' '$contigs_fasta' '$proteins_fasta' ]]></command> <inputs> <param name="contigs_fasta" type="data" format="fasta" label="Genomic contigs (FASTA)"/> <param name="proteins_fasta" type="data" format="fasta" label="Proteins (FASTA)"/> <param name="species_table" type="text" label="Spaln species table to use (optional)"/> + <param argument="--max_intron" type="integer" min="0" label="Max intron length" help="Maximum intron length (passed to metaeuk)" optional="true" /> + <param argument="--min_intron" type="integer" min="0" label="Min intron length" help="Minimum intron length (passed to metaeuk and spaln)" optional="true" /> </inputs> <outputs> <data name="output_gff" format="gff3" label="Map proteins to genome ${on_string}"/>