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Commit message:
planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/main/tools/GAFA/ commit 6e40bbe92367310e9d3ec69571d08eb49af7c0a6-dirty |
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modified:
GAFA.xml |
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| diff -r b9f1bcf5ee59 -r a6c4483a02be GAFA.xml --- a/GAFA.xml Wed Apr 25 10:59:55 2018 -0400 +++ b/GAFA.xml Mon Feb 24 11:06:56 2025 +0000 |
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| @@ -1,4 +1,4 @@ -<tool id="gafa" name="Gene Align and Family Aggregator" version="0.3.0"> +<tool id="gafa" name="Gene Align and Family Aggregator" version="0.3.1"> <description>generates an SQLite database that can be visualised with Aequatus</description> <command detect_errors="exit_code"> <![CDATA[ @@ -14,7 +14,7 @@ ]]> </command> <inputs> - <param name="treeFile" type="data" format="nhx" multiple="true" label="Gene tree" help="Gene tree in Newick format, e.g. generated from 'TreeBeST best' or 'Get gene tree by Ensembl ID' tool" /> + <param name="treeFile" type="data" format="nhx,newick" multiple="true" label="Gene tree" help="Gene tree in Newick format, e.g. generated from 'TreeBeST best' or 'Get gene tree by Ensembl ID' tool" /> <param name="alignmentFile" type="data" format="fasta" multiple="true" label="Protein alignments" help="Protein alignments in fasta_aln format generated by T-Coffee" /> <param name="genesFile" type="data" format="sqlite" label="Gene features" help="Gene features in SQLite format generated by 'GSTF preparation' tool" /> </inputs> @@ -37,9 +37,10 @@ N.B.: The tool will modify the sequence identifiers found in the "Protein alignments" dataset by removing everything from the first underscore to the end of the string. -.. _Aequatus: http://aequatus.earlham.ac.uk +.. _Aequatus: https://github.com/TGAC/Aequatus ]]> </help> <citations> + <citation type="doi">https://doi.org/10.1093/gigascience/giy005</citation> </citations> </tool> |