Mercurial > repos > iuc > ncbi_eutils_elink
changeset 5:9b628ed09553 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ncbi_entrez_eutils commit dd9b889d83f058d2ddb87a4e7709ee3d93dddd69"
author | iuc |
---|---|
date | Fri, 27 Aug 2021 11:30:43 +0000 |
parents | 5c42fe46188f |
children | e4f8623b8b9b |
files | elink.xml test-data/elink.esearchin_id_alllinks.json |
diffstat | 2 files changed, 14 insertions(+), 46 deletions(-) [+] |
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--- a/elink.xml Mon Jan 04 11:46:17 2021 +0000 +++ b/elink.xml Fri Aug 27 11:30:43 2021 +0000 @@ -35,7 +35,7 @@ </collection> </outputs> <tests> - <test> + <test expect_num_outputs="1"> <param name="cmd_select" value="neighbor"/> <param name="db_select_to" value="pubmed"/> <param name="db_select_from_link" value="taxonomy"/> @@ -45,7 +45,7 @@ <param name="linkname" value="None"/> <output name="default" file="pm-tax-neighbor.xml" ftype="xml"/> </test> - <test> + <test expect_num_outputs="1"> <param name="cmd_select" value="neighbor"/> <param name="db_select_to" value="nuccore"/> <param name="db_select_from_link" value="gene"/> @@ -55,7 +55,7 @@ <param name="linkname" value="gene_nuccore"/> <output name="default" file="elink.esearch_in_xmlid_1link.tabular" ftype="tabular"/> </test> - <test> + <test expect_num_outputs="1"> <param name="cmd_select" value="neighbor"/> <param name="db_select_to" value="nuccore"/> <param name="db_select_from_link" value="gene"/> @@ -63,9 +63,15 @@ <param name="id_json" value="elink.esearchin_id.json"/> <param name="output_format" value="json"/> <param name="linkname" value="None"/> - <output name="default" file="elink.esearchin_id_alllinks.json" ftype="json"/> + <output name="default" ftype="json"> + <assert_contents> + <has_text text="gene_nuccore_refseqrna"/> + <has_text text="gene_nuccore"/> + <has_text text="1899688395"/> + </assert_contents> + </output> </test> - <test> + <test expect_num_outputs="1"> <param name="cmd_select" value="neighbor"/> <param name="db_select_to" value="nuccore"/> <param name="db_select_from_link" value="gene"/> @@ -75,7 +81,7 @@ <param name="linkname" value="gene_nuccore_refseqrna"/> <output name="default" file="elink.esearchin_id_1link.xml" ftype="xml"/> </test> - <test> + <test expect_num_outputs="1"> <param name="cmd_select" value="neighbor_history"/> <param name="db_select_to" value="gene"/> <param name="db_select_from_link" value="nuccore"/> @@ -85,7 +91,7 @@ <param name="linkname" value="nuccore_gene"/> <output name="default" file="elink.elinkin_1link_hist.json" ftype="json" lines_diff="2"/> </test> - <test> + <test expect_num_outputs="1"> <param name="cmd_select" value="neighbor_history"/> <param name="db_select_to" value="gene"/> <param name="db_select_from_link" value="nuccore"/> @@ -95,7 +101,7 @@ <param name="linkname" value="nuccore_gene"/> <output name="default" file="elink.elinkin_allalllinks_id.xml" ftype="xml" lines_diff="2"/> </test> - <test> + <test expect_num_outputs="1"> <param name="cmd_select" value="neighbor_score"/> <param name="db_select_to" value="gene"/> <param name="db_select_from_link" value="nuccore"/>
--- a/test-data/elink.esearchin_id_alllinks.json Mon Jan 04 11:46:17 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,38 +0,0 @@ -{ - "header": { - "type": "elink", - "version": "0.3" - }, - "linksets": [ - { - "dbfrom": "gene", - "ids": [ - "118502329" - ], - "linksetdbs": [ - { - "dbto": "nuccore", - "linkname": "gene_nuccore", - "links": [ - "1899688395", - "1896832511" - ] - }, - { - "dbto": "nuccore", - "linkname": "gene_nuccore_pos", - "links": [ - "1896832511" - ] - }, - { - "dbto": "nuccore", - "linkname": "gene_nuccore_refseqrna", - "links": [ - "1899688395" - ] - } - ] - } - ] -}