Mercurial > repos > dfornika > mash
diff mash_screen.xml @ 4:033da434cfaf draft
planemo upload for repository https://github.com/dfornika/galaxy/tree/master/tools/mash commit 54c5ec0b3958115ccb9071184268bfe4f7425baa-dirty
| author | dfornika |
|---|---|
| date | Mon, 28 Jan 2019 22:00:44 -0500 |
| parents | 351388dbbc0a |
| children | cf0d6a872bd4 |
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--- a/mash_screen.xml Tue Jan 22 17:18:46 2019 -0500 +++ b/mash_screen.xml Mon Jan 28 22:00:44 2019 -0500 @@ -1,4 +1,4 @@ -<tool id="mash_screen" name="mash screen" version="@TOOL_VERSION@+galaxy0">fastq_ +<tool id="mash_screen" name="mash screen" version="@TOOL_VERSION@+galaxy0"> <description>determines how well query sequences are contained within a pool of sequences.</description> <macros> <import>macros.xml</import> @@ -26,22 +26,22 @@ > '$output' ]]></command> <inputs> - <conditional name="pool_input"> - <param name="pool_input_selector" type="select" label="Single or Paired-end reads" help="Select between paired and single end data"> - <option value="paired">Paired</option> - <option value="single">Single</option> - <option value="paired_collection">Paired Collection</option> - </param> - <when value="paired"> - <param name="pool_1" type="data" format="@INTYPES@" label="Select first set of reads" help="Specify dataset with forward reads"/> - <param name="pool_2" type="data" format="@INTYPES@" label="Select second set of reads" help="Specify dataset with reverse reads"/> - </when> - <when value="single"> - <param name="pool" type="data" format="@INTYPES@" label="Select fastq dataset" help="Specify dataset with single reads"/> - </when> - <when value="paired_collection"> - <param name="pool" format="@INTYPES@" type="data_collection" collection_type="paired" label="Select a paired collection" help="See help section for an explanation of dataset collections"/> - </when> + <conditional name="pool_input"> + <param name="pool_input_selector" type="select" label="Single or Paired-end reads" help="Select between paired and single end data"> + <option value="paired">Paired</option> + <option value="single">Single</option> + <option value="paired_collection">Paired Collection</option> + </param> + <when value="paired"> + <param name="pool_1" type="data" format="@INTYPES@" label="Select first set of reads" help="Specify dataset with forward reads"/> + <param name="pool_2" type="data" format="@INTYPES@" label="Select second set of reads" help="Specify dataset with reverse reads"/> + </when> + <when value="single"> + <param name="pool" type="data" format="@INTYPES@" label="Select fastq dataset" help="Specify dataset with single reads"/> + </when> + <when value="paired_collection"> + <param name="pool" format="@INTYPES@" type="data_collection" collection_type="paired" label="Select a paired collection" help="See help section for an explanation of dataset collections"/> + </when> </conditional> <param name="queries" type="data" format="binary" /> <param type="boolean" name="winner_takes_all" argument="-w" truevalue="-w" falsevalue=""/> @@ -71,6 +71,17 @@ <param name="pool_2" value="ERR024951_seqtk_sample_1000_2.fastq"/> <output name="output" file="mash_screen_NZ_MYON01000010.1_ERR024951_seqtk_sample_1000_1and2.tsv"/> </test> + <test> + <param name="queries" value="NZ_MYON01000010.1.msh"/> + <param name="pool_input_selector" value="paired_collection"/> + <param name="pool"> + <collection type="paired"> + <element name="forward" value="ERR024951_seqtk_sample_1000_1.fastq"/> + <element name="reverse" value="ERR024951_seqtk_sample_1000_2.fastq"/> + </collection> + </param> + <output name="output" file="mash_screen_NZ_MYON01000010.1_ERR024951_seqtk_sample_1000_1and2.tsv"/> + </test> </tests> <help><![CDATA[ Description: