Mercurial > repos > rplanel > sequence_splitter
diff sequence-splitter.xml @ 1:7b509a1801e4 draft
"planemo upload for repository https://github.com/rplanel/galaxy-tools/tree/master/tools/sequence-splitter commit 85ffc2e3805940c0ebb21d5450b86524bd788d7b"
| author | rplanel |
|---|---|
| date | Tue, 20 Aug 2019 09:46:49 -0400 |
| parents | 3e33310a7082 |
| children | 6dd4f53b9964 |
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--- a/sequence-splitter.xml Thu Aug 08 11:18:30 2019 -0400 +++ b/sequence-splitter.xml Tue Aug 20 09:46:49 2019 -0400 @@ -1,4 +1,7 @@ -<tool id="sequence-splitter" name="Sequence Splitter" version="0.1.0"> +<tool id="sequence-splitter" name="Sequence Splitter" version="0.1.1"> + <macros> + <import>macros.xml</import> + </macros> <requirements> <requirement type="package" version="2.7.11">python</requirement> <requirement type="package" version="1.73">biopython</requirement> @@ -50,17 +53,7 @@ <data format="text" name="logfile" from_work_dir="sequence-splitter.log" label="${tool.name} logfile on ${on_string}"/> </outputs> <tests> - <test> - <param name="sequences" value="sample.fasta"/> - <conditional name="split_mode"> - <param name="selector" value="chunk_size"/> - <param name="chunk_size" value="2"/> - </conditional> - <output_collection name="split_output" type="list" count="2"> - <element name="sequences-chunk-1" file="sample-chunk-1.fasta" ftype="fasta"/> - <element name="sequences-chunk-2" file="sample-chunk-2.fasta" ftype="fasta"/> - </output_collection> - </test> + <!-- CHUNK SIZE --> <test> <param name="sequences" value="sample.fastq"/> <conditional name="split_mode"> @@ -68,14 +61,24 @@ <param name="chunk_size" value="2"/> </conditional> <output_collection name="split_output" type="list" count="5"> - <element name="sequences-chunk-1" file="sample-chunk-1.fastq" ftype="fastqsanger"/> - <element name="sequences-chunk-2" file="sample-chunk-2.fastq" ftype="fastqsanger"/> - <element name="sequences-chunk-3" file="sample-chunk-3.fastq" ftype="fastqsanger"/> - <element name="sequences-chunk-4" file="sample-chunk-4.fastq" ftype="fastqsanger"/> - <element name="sequences-chunk-5" file="sample-chunk-5.fastq" ftype="fastqsanger"/> + <element name="sequences-chunk-1" file="sample-chunk-1.fastq" ftype="fastqsanger" compare="diff"/> + <element name="sequences-chunk-2" file="sample-chunk-2.fastq" ftype="fastqsanger" compare="diff"/> + <element name="sequences-chunk-3" file="sample-chunk-3.fastq" ftype="fastqsanger" compare="diff"/> + <element name="sequences-chunk-4" file="sample-chunk-4.fastq" ftype="fastqsanger" compare="diff"/> + <element name="sequences-chunk-5" file="sample-chunk-5.fastq" ftype="fastqsanger" compare="diff"/> </output_collection> </test> - + <test> + <param name="sequences" value="sample.fasta"/> + <conditional name="split_mode"> + <param name="selector" value="chunk_size" /> + <param name="chunk_size" value="5"/> + </conditional> + <output_collection name="split_output" type="list" count="1"> + <element name="sequences-chunk-1" file="sample-5-chunk-1.fasta" ftype="fasta" compare="diff"/> + </output_collection> + </test> + <!-- NUMBER CHUNK --> <test> <param name="sequences" value="sample.fastq"/> <conditional name="split_mode"> @@ -83,8 +86,21 @@ <param name="nb_chunk" value="2"/> </conditional> <output_collection name="split_output" type="list" count="2"> - <element name="sequences-chunk-1" file="sample-3-chunk-1.fastq" ftype="fastqsanger"/> - <element name="sequences-chunk-2" file="sample-3-chunk-2.fastq" ftype="fastqsanger"/> + <element name="sequences-chunk-1" file="sample-3-chunk-1.fastq" ftype="fastqsanger" compare="diff"/> + <element name="sequences-chunk-2" file="sample-3-chunk-2.fastq" ftype="fastqsanger" compare="diff"/> + </output_collection> + </test> + <test> + <param name="sequences" value="sample.fastq"/> + <conditional name="split_mode"> + <param name="selector" value="nb_chunk" /> + <param name="nb_chunk" value="4"/> + </conditional> + <output_collection name="split_output" type="list" count="4"> + <element name="sequences-chunk-1" file="sample-4-chunk-1.fastq" ftype="fastqsanger" compare="diff"/> + <element name="sequences-chunk-2" file="sample-4-chunk-2.fastq" ftype="fastqsanger" compare="diff"/> + <element name="sequences-chunk-3" file="sample-4-chunk-3.fastq" ftype="fastqsanger" compare="diff"/> + <element name="sequences-chunk-4" file="sample-4-chunk-4.fastq" ftype="fastqsanger" compare="diff"/> </output_collection> </test> <test> @@ -94,10 +110,10 @@ <param name="nb_chunk" value="10"/> </conditional> <output_collection name="split_output" type="list" count="4"> - <element name="sequences-chunk-1" file="sample-2-chunk-1.fasta" ftype="fasta"/> - <element name="sequences-chunk-2" file="sample-2-chunk-2.fasta" ftype="fasta"/> - <element name="sequences-chunk-3" file="sample-2-chunk-3.fasta" ftype="fasta"/> - <element name="sequences-chunk-4" file="sample-2-chunk-4.fasta" ftype="fasta"/> + <element name="sequences-chunk-1" file="sample-2-chunk-1.fasta" ftype="fasta" compare="diff"/> + <element name="sequences-chunk-2" file="sample-2-chunk-2.fasta" ftype="fasta" compare="diff"/> + <element name="sequences-chunk-3" file="sample-2-chunk-3.fasta" ftype="fasta" compare="diff"/> + <element name="sequences-chunk-4" file="sample-2-chunk-4.fasta" ftype="fasta" compare="diff"/> </output_collection> </test> @@ -129,4 +145,5 @@ ]]> </help> + <expand macro="citations" /> </tool> \ No newline at end of file