Mercurial > repos > dfornika > readucks
diff readucks.xml @ 0:1710fc590220 draft default tip
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/readucks commit 5803dd6efc58e812f3181261b290039bfe011602-dirty"
| author | dfornika |
|---|---|
| date | Tue, 10 Mar 2020 15:20:39 +0000 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/readucks.xml Tue Mar 10 15:20:39 2020 +0000 @@ -0,0 +1,42 @@ +<tool id="readucks" name="readucks" version="@TOOL_VERSION@+galaxy0"> + <description>Nanopore read de-multiplexer</description> + <macros> + <token name="@TOOL_VERSION@">0.0.2</token> + </macros> + <requirements> + <requirement type="package" version="@TOOL_VERSION@">readucks</requirement> + </requirements> + <command detect_errors="exit_code"> + <![CDATA[ + mkdir demuxed && + readucks + -t \${GALAXY_SLOTS:-1} + -i ${input_fastq} + --threshold '${barcode_identity_threshold}' + --bin_barcodes + --native_barcodes + -o demuxed + ]]> + </command> + <inputs> + <param format="fastq,fastqsanger" name="input_fastq" type="data" label="FASTQ Input" help="FASTQ dataset"/> + <outputs> + <data name="barcode_NB01" format="fastq" from_work_dir="demuxed/NB01.fastq" label="${tool.name} on ${on_string}: Barcode 01"/> + <data name="barcode_NB02" format="fastq" from_work_dir="demuxed/NB02.fastq" label="${tool.name} on ${on_string}: Barcode 02"/> + <data name="barcode_NB03" format="fastq" from_work_dir="demuxed/NB02.fastq" label="${tool.name} on ${on_string}: Barcode 03"/> + <data name="barcode_NB04" format="fastq" from_work_dir="demuxed/NB02.fastq" label="${tool.name} on ${on_string}: Barcode 04"/> + <data name="unassigned" format="fastq" from_work_dir="demuxed/unassigned.fastq" label="${tool.name} on ${on_string}: Unassigned"/> + </outputs> + <tests> + <test> + <param name="input_fastq" value="simulated_badreads_1_first100reads.fastq" /> + <output name="barcode_NB02" ftype="fastq" file="demuxed/NB02.fastq" /> + </test> + </tests> + <help> + <![CDATA[ + ]]> + </help> + <citations> + </citations> +</tool>