Mercurial > repos > bgruening > uniprot_rest_interface

comparison uniprot.xml @ 10:95fb5712344f draft default tip

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/uniprot_rest_interface commit 1c020106d4d7f957c9f1ec0d9885bbb2d56e70e7
author bgruening
date Tue, 06 Aug 2024 14:49:45 +0000
parents 468c71dac78a
children
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9:468c71dac78a 10:95fb5712344f
1 <tool id="uniprot" name="UniProt" version="0.5" profile="23.1"> 1 <tool id="uniprot" name="UniProt" version="0.6" profile="23.1">
2 <description>ID mapping and retrieval</description> 2 <description>ID mapping and retrieval</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="2.25.1">requests</requirement> 4 <requirement type="package" version="2.25.1">requests</requirement>
5 </requirements> 5 </requirements>
6 <version_command>echo "UniProt ID mapping for Galaxy in version 0.1"</version_command> 6 <version_command>echo "UniProt ID mapping for Galaxy in version 0.1"</version_command>
863 <test expect_num_outputs="1"> 863 <test expect_num_outputs="1">
864 <param name="infile" value="id_uniprot.tab" ftype="tabular"/> 864 <param name="infile" value="id_uniprot.tab" ftype="tabular"/>
865 <param name="id_column" value="c1"/> 865 <param name="id_column" value="c1"/>
866 <param name="format" value="gff"/> 866 <param name="format" value="gff"/>
867 <param name="tool_choice" value="retrieve"/> 867 <param name="tool_choice" value="retrieve"/>
868 <output name="outfile_retrieve_gff" file="test2_retrieve.gff" ftype="gff" compare="sim_size" /> 868 <output name="outfile_retrieve_gff" ftype="gff">
869 <assert_contents>
870 <has_n_lines min="80"/>
871 <has_text text="UniProtKB"/>
872 </assert_contents>
873 </output>
869 </test> 874 </test>
870 <test expect_num_outputs="1"> 875 <test expect_num_outputs="1">
871 <param name="infile" value="id_uniprot.tab" ftype="tabular"/> 876 <param name="infile" value="id_uniprot.tab" ftype="tabular"/>
872 <param name="id_column" value="c1"/> 877 <param name="id_column" value="c1"/>
873 <param name="tool_choice" value="map"/> 878 <param name="tool_choice" value="map"/>
874 <param name="from" value="UniProtKB_AC-ID"/> 879 <param name="from" value="UniProtKB_AC-ID"/>
875 <param name="to" value="Gene_Name"/> 880 <param name="to" value="Gene_Name"/>
876 <output name="outfile_map" file="test1_map.tab" ftype="tabular"/> 881 <output name="outfile_map" file="test1_map.tab" ftype="tabular" sort="true"/>
877 </test> 882 </test>
878 <test expect_num_outputs="1"> 883 <test expect_num_outputs="1">
879 <param name="infile" value="id_map_refseq.txt" ftype="tabular"/> 884 <param name="infile" value="id_map_refseq.txt" ftype="tabular"/>
880 <param name="id_column" value="c1"/> 885 <param name="id_column" value="c1"/>
881 <param name="tool_choice" value="map"/> 886 <param name="tool_choice" value="map"/>
882 <param name="from" value="RefSeq_Nucleotide"/> 887 <param name="from" value="RefSeq_Nucleotide"/>
883 <param name="to" value="UniProtKB"/> 888 <param name="to" value="UniProtKB"/>
884 <output name="outfile_map" file="test2_map.tab" ftype="tabular"/> 889 <output name="outfile_map" file="test2_map.tab" ftype="tabular" sort="true"/>
885 </test> 890 </test>
886 </tests> 891 </tests>
887 <help><![CDATA[ 892 <help><![CDATA[
888 893
889 .. class:: infomark 894 .. class:: infomark