Mercurial > repos > iuc > ont_fast5_api_single_to_multi_fast5
diff single_to_multi_fast5.xml @ 0:ceec541f4955 draft
"planemo upload for repository https://github.com/nanoporetech/ont_fast5_api/ commit a5d038871ff0e1b133039b59183dee795449b383"
author | iuc |
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date | Fri, 12 Jun 2020 15:08:04 -0400 |
parents | |
children | ea77d69db382 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/single_to_multi_fast5.xml Fri Jun 12 15:08:04 2020 -0400 @@ -0,0 +1,103 @@ +<?xml version="1.0"?> +<tool id="ont_fast5_api_single_to_multi_fast5" name="@TOOL_NAME@ Single to multi" version="@TOOL_VERSION@+galaxy0" profile="18.01"> + <description>read file(s)</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements"/> + <version_command><![CDATA[single_to_multi -v]]></version_command> + <command detect_errors="exit_code"><![CDATA[ +## initialize +@INITIALIZE@ + +## run +single_to_multi_fast5 +## required +@INPUTPATH@ +@SAVEPATH@ +## optional +@COMPRESSION@ +@BATCHSIZE@ +@THREADS@ + +## create tarball +@TARBALL@ + ]]></command> + <inputs> + <expand macro="input" label="single"/> + <expand macro="batch_size"/> + <expand macro="compression"> + <option value="none" selected="true">None</option> + <option value="vbz">VBZ</option> + </expand> + </inputs> + <outputs> + <expand macro="output"/> + </outputs> + <tests> + <!-- #1 default --> + <test expect_num_outputs="1"> + <param name="input_path" value="single.fast5.tar"/> + <output name="out_results"> + <assert_contents> + <has_size value="40960"/> + </assert_contents> + </output> + </test> + <!-- #2 --> + <test expect_num_outputs="1"> + <param name="input_path" value="single.fast5.tar"/> + <param name="batch_size" value="3"/> + <param name="compression" value="vbz"/> + <output name="out_results"> + <assert_contents> + <has_size value="51200"/> + </assert_contents> + </output> + </test> + <!-- #3 --> + <test expect_num_outputs="1"> + <param name="input_path" value="single.fast5.tar"/> + <param name="compression" value="vbz_legacy_v0"/> + <output name="out_results"> + <assert_contents> + <has_size value="40960"/> + </assert_contents> + </output> + </test> + <!-- #4 --> + <test expect_num_outputs="1"> + <param name="input_path" value="single.fast5.tar"/> + <param name="compression" value="gzip"/> + <output name="out_results"> + <assert_contents> + <has_size value="40960"/> + </assert_contents> + </output> + </test> + </tests> + <help><![CDATA[ +.. class:: infomark + +**What it does** + +@WID@ + +*single_to_multi_fast5* converts single read FAST5 files into multi read FAST5 file(s). + +**Input** + +Single read files in FAST5 format that are stored in a flat TAR. + +**Output** + +Multi read file(s) in FAST5 format that are stored in a flat TAR. + +.. class:: infomark + +**References** + +@REFERENCES@ + ]]></help> + <expand macro="citations"/> +</tool> \ No newline at end of file