Mercurial > repos > gga > chado_phylogeny_load_tree
comparison phylogeny_load_tree.xml @ 8:723bc379a0e8 draft
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit f5c5d81fc9781371e12b91c0d609b9201587cda5
| author | gga |
|---|---|
| date | Fri, 23 Nov 2018 10:42:44 -0500 |
| parents | 13f1af5391a2 |
| children | 0cbdf665f459 |
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| 7:14edbf07ef8b | 8:723bc379a0e8 |
|---|---|
| 32 | jq -S . > $results | 32 | jq -S . > $results |
| 33 ]]></command> | 33 ]]></command> |
| 34 <inputs> | 34 <inputs> |
| 35 <!-- arguments --> | 35 <!-- arguments --> |
| 36 <param name="newick" label="Newick" argument="newick" type="data" format="txt" help="Newick file to load (or directory containing multiple newick files to load)" /> | 36 <param name="newick" label="Newick" argument="newick" type="data" format="txt" help="Newick file to load (or directory containing multiple newick files to load)" /> |
| 37 <param argument="--analysis_id" | 37 <param argument="analysis_id" |
| 38 type="select" | 38 type="select" |
| 39 dynamic_options="list_analyses()" | 39 dynamic_options="list_analyses()" |
| 40 label="Analysis" /> | 40 label="Analysis" /> |
| 41 | 41 |
| 42 <!-- options --> | 42 <!-- options --> |
| 43 <param name="name" label="Name" argument="name" type="text" help="The name given to the phylotree entry in the database" /> | 43 <param name="name" label="Name" argument="--name" type="text" help="The name given to the phylotree entry in the database" /> |
| 44 <param name="xref_db" label="Xref db" argument="xref_db" value="null" type="text" help="The name of the db to link dbxrefs for the trees" /> | 44 <param name="xref_db" label="Xref db" argument="--xref_db" value="null" type="text" help="The name of the db to link dbxrefs for the trees" /> |
| 45 <param name="xref_accession" label="Xref Accession" argument="xref_accession" type="text" help="The accession to use for dbxrefs for the trees (assumed same as name unless otherwise specified)" /> | 45 <param name="xref_accession" label="Xref Accession" argument="--xref_accession" type="text" help="The accession to use for dbxrefs for the trees (assumed same as name unless otherwise specified)" /> |
| 46 <param name="match_on_name" label="Match On Name" argument="match_on_name" type="boolean" truevalue="--match_on_name" falsevalue="" help="Match polypeptide features using their name instead of their uniquename" /> | 46 <param name="match_on_name" label="Match On Name" argument="--match_on_name" type="boolean" truevalue="--match_on_name" falsevalue="" help="Match polypeptide features using their name instead of their uniquename" /> |
| 47 <param name="prefix" label="Prefix" argument="prefix" type="text" help="Comma-separated list of prefix to be removed from identifiers (e.g species prefixes when loading OrthoFinder output)" /> | 47 <param name="prefix" label="Prefix" argument="--prefix" type="text" help="Comma-separated list of prefix to be removed from identifiers (e.g species prefixes when loading OrthoFinder output)" /> |
| 48 <expand macro="wait_for"/> | 48 <expand macro="wait_for"/> |
| 49 | 49 |
| 50 </inputs> | 50 </inputs> |
| 51 <outputs> | 51 <outputs> |
| 52 <data format="json" name="results"/> | 52 <data format="json" name="results"/> |