Mercurial > repos > iuc > ncbi_eutils_elink
diff elink.xml @ 1:127515819562 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ncbi_entrez_eutils commit 2d92a2be8d8725e76a32600e332dfb67cc0db10b
| author | iuc |
|---|---|
| date | Mon, 02 Nov 2015 12:58:21 -0500 |
| parents | ffc6d6234c8a |
| children | 0ea9815942d2 |
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--- a/elink.xml Sat Oct 31 12:44:05 2015 -0400 +++ b/elink.xml Mon Nov 02 12:58:21 2015 -0500 @@ -5,13 +5,12 @@ <import>macros.xml</import> </macros> <expand macro="requirements"/> - <expand macro="stdio"/> <version_command>python elink.py --version</version_command> - <command interpreter="python"><![CDATA[elink.py + <command detect_errors="aggressive" interpreter="python"><![CDATA[elink.py #if $cmd.cmd_select in ('neighbor', 'neighbor_score', 'neighbor_history'): -$cmd.db_select_to + $cmd.db_select_to #else: -"none" + "none" #end if $db_select_from @@ -27,53 +26,7 @@ > $default]]></command> <inputs> - <param name="db_select_from" type="select" label="From NCBI Database"> - <option value="assembly">Assembly</option> - <option value="bioproject">BioProject</option> - <option value="biosample">BioSample</option> - <option value="biosystems">Biosystems</option> - <option value="blastdbinfo">Blast Database Information</option> - <option value="books">Books</option> - <option value="cdd">Conserved Domains</option> - <option value="clinvar">Clinical Variants</option> - <option value="clone">CLone</option> - <option value="dbvar">dbVar</option> - <option value="epigenomics">Epigenomics</option> - <option value="gap">dbGaP</option> - <option value="gds">GEO Datasets</option> - <option value="gene">Gene</option> - <option value="genome">Genome</option> - <option value="geoprofiles">GEO Profiles</option> - <option value="gtr">Genetic Testing Registry</option> - <option value="homologene">HomoloGene</option> - <option value="journals">Journals</option> - <option value="medgen">MedGen</option> - <option value="mesh">MeSH</option> - <option value="ncbisearch">NCBI Web Site</option> - <option value="nlmcatalog">NLM Catalog</option> - <option value="nuccore">Nucleotide</option> - <option value="nucest">EST</option> - <option value="nucgss">GSS</option> - <option value="omim">OMIM</option> - <option value="pcassay">PubChem BioAssay</option> - <option value="pccompound">PubChem Compound</option> - <option value="pcsubstance">PubChem Substance</option> - <option value="pmc">PubMed Central</option> - <option value="popset">PopSet</option> - <option value="probe">Probe</option> - <option value="protein">Protein</option> - <option value="proteinclusters">Protein Clusters</option> - <option value="pubmed">PubMed</option> - <option value="pubmedhealth">PubMed Health</option> - <option value="snp">SNP</option> - <option value="sra">SRA</option> - <option value="structure">Structure</option> - <option value="taxonomy">Taxonomy</option> - <option value="toolkit">NCBI C++ Toolkit</option> - <option value="toolkitall">NCBI C++ Toolkit All</option> - <option value="toolkitbook">NCBI C++ Toolkit Book</option> - <option value="unigene">UniGene</option> - </param> + <expand macro="dbselect" name="db_select_from" label="From NCBI Database" /> <conditional name="cmd"> <param name="cmd_select" type="select" label="ELink command to execute"> <option value="neighbor">Neighbor: Fetch a set of UIDs in DB linked to input UIDs in DBFROM</option> @@ -87,16 +40,16 @@ <option value="prlinks">Provider Links: List the primary LinkOut provider for each input UID</option> </param> <when value="neighbor"> - <expand macro="db_select_to"/> + <expand macro="dbselect" name="db_select_to" label="To NCBI Database" /> </when> <when value="neighbor_score"> - <expand macro="db_select_to"/> + <expand macro="dbselect" name="db_select_to" label="To NCBI Database" /> </when> <when value="neighbor_history"> - <expand macro="db_select_to"/> + <expand macro="dbselect" name="db_select_to" label="To NCBI Database" /> </when> <when value="acheck"> - <expand macro="db_select_to"/> + <expand macro="dbselect" name="db_select_to" label="To NCBI Database" /> </when> <when value="ncheck"/> <when value="lcheck"/>
