Mercurial > repos > iuc > dada2_makesequencetable
comparison dada2_makeSequenceTable.xml @ 2:99c6929236fa draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit f2a33fe115fef9d711112b53136cf7619f1b19be"
author | iuc |
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date | Mon, 16 Mar 2020 07:54:26 -0400 |
parents | 9ccec6ed8e82 |
children | 8470de786d47 |
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1:9ccec6ed8e82 | 2:99c6929236fa |
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47 write.data( seqtab, '$stable', "dada2_sequencetable" ) | 47 write.data( seqtab, '$stable', "dada2_sequencetable" ) |
48 ]]></configfile> | 48 ]]></configfile> |
49 </configfiles> | 49 </configfiles> |
50 <inputs> | 50 <inputs> |
51 <param argument="samples" type="data" multiple="true" format="@DADA_UNIQUES@" label="samples" /> | 51 <param argument="samples" type="data" multiple="true" format="@DADA_UNIQUES@" label="samples" /> |
52 <param argument="orderBy" type="select" label="Column order"> | 52 <param argument="orderBy" type="select" label="Order ASVs by"> |
53 <option value="abundance">abundance</option> | 53 <option value="abundance">abundance</option> |
54 <option value="nsamples">nsamples</option> | 54 <option value="nsamples">nsamples</option> |
55 </param> | 55 </param> |
56 <conditional name="filter_cond"> | 56 <conditional name="filter_cond"> |
57 <param name="filter_select" type="select" label="Length filter method"> | 57 <param name="filter_select" type="select" label="Length filter method"> |
72 <filter>plot</filter> | 72 <filter>plot</filter> |
73 </data> | 73 </data> |
74 </outputs> | 74 </outputs> |
75 <tests> | 75 <tests> |
76 <test expect_num_outputs="2"> | 76 <test expect_num_outputs="2"> |
77 <param name="samples" ftype="dada2_mergepairs" value="mergePairs_F3D0.Rdata"/> | 77 <param name="samples" ftype="dada2_mergepairs" value="mergePairs_F3D0_S188_L001.Rdata,mergePairs_F3D141_S207_L001.Rdata"/> |
78 <output name="stable" value="makeSequenceTable_F3D0.tab" ftype="dada2_sequencetable" lines_diff="2"/> | 78 <output name="stable" value="makeSequenceTable.tab" ftype="dada2_sequencetable" lines_diff="2"/> |
79 <output name="plot_output" value="makeSequenceTable_F3D0.pdf" ftype="pdf" compare="sim_size" delta="3000" /> | 79 <output name="plot_output" value="makeSequenceTable.pdf" ftype="pdf" compare="sim_size" delta="3000" /> |
80 </test> | 80 </test> |
81 <test expect_num_outputs="1"> | 81 <test expect_num_outputs="1"> |
82 <param name="samples" ftype="dada2_mergepairs" value="mergePairs_F3D0.Rdata"/> | 82 <param name="samples" ftype="dada2_mergepairs" value="mergePairs_F3D0_S188_L001.Rdata,mergePairs_F3D141_S207_L001.Rdata"/> |
83 <param name="filter_cond|filter_select" value="minmax"/> | 83 <param name="filter_cond|filter_select" value="minmax"/> |
84 <param name="filter_cond|min" value="200"/> | 84 <param name="filter_cond|min" value="200"/> |
85 <param name="filter_cond|max" value="300"/> | 85 <param name="filter_cond|max" value="300"/> |
86 <param name="plot" value="no" /> | 86 <param name="plot" value="no" /> |
87 <output name="stable" value="makeSequenceTable_F3D0.tab" ftype="dada2_sequencetable" lines_diff="2" /> | 87 <output name="stable" value="makeSequenceTable.tab" ftype="dada2_sequencetable" lines_diff="2" /> |
88 </test> | 88 </test> |
89 </tests> | 89 </tests> |
90 <help><![CDATA[ | 90 <help><![CDATA[ |
91 Description | 91 Description |
92 ........... | 92 ........... |