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annotate data_manager/twobit_builder.xml @ 4:fced964b054a draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_twobit_builder commit ba82deebf385e4b2d4c55a43f34f0553478e6059
author iuc
date Fri, 09 Jun 2017 05:30:02 -0400
parents e697ffc1197e
children ced9f4a48806
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298d15849a14 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit ddee21fa767f3234a4e5a9acfeeabdded32e7d01
devteam
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1 <tool id="twobit_builder_data_manager" name="TwoBit" tool_type="manage_data" version="0.0.2">
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26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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2 <requirements>
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298d15849a14 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit ddee21fa767f3234a4e5a9acfeeabdded32e7d01
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3 <requirement type="package" version="324">ucsc-fatotwobit</requirement>
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26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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4 </requirements>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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5 <description>builder</description>
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c9896bb1f03c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_twobit_builder commit 8652f36a3a3838dca989426961561e81432acf4f
iuc
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6 <command detect_errors="exit_code"><![CDATA[
c9896bb1f03c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_twobit_builder commit 8652f36a3a3838dca989426961561e81432acf4f
iuc
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7 python '$__tool_directory__/twobit_builder.py'
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fced964b054a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_twobit_builder commit ba82deebf385e4b2d4c55a43f34f0553478e6059
iuc
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8 '${out_file}'
fced964b054a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_twobit_builder commit ba82deebf385e4b2d4c55a43f34f0553478e6059
iuc
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9 --fasta_filename '${all_fasta_source.fields.path}'
fced964b054a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_twobit_builder commit ba82deebf385e4b2d4c55a43f34f0553478e6059
iuc
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10 --fasta_dbkey '${all_fasta_source.fields.dbkey}'
fced964b054a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_twobit_builder commit ba82deebf385e4b2d4c55a43f34f0553478e6059
iuc
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11 --fasta_description '${all_fasta_source.fields.name}'
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c9896bb1f03c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_twobit_builder commit 8652f36a3a3838dca989426961561e81432acf4f
iuc
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12 ]]></command>
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26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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13 <inputs>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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14 <param name="all_fasta_source" type="select" label="Source FASTA Sequence">
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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15 <options from_data_table="all_fasta"/>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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16 </param>
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c9896bb1f03c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_twobit_builder commit 8652f36a3a3838dca989426961561e81432acf4f
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17 <param name="sequence_name" type="text" value="" label="Name of sequence" />
c9896bb1f03c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_twobit_builder commit 8652f36a3a3838dca989426961561e81432acf4f
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18 <param name="sequence_id" type="text" value="" label="ID for sequence" />
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26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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19 </inputs>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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20 <outputs>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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21 <data name="out_file" format="data_manager_json"/>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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22 </outputs>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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24 <tests>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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25 <test>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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26 <param name="all_fasta_source" value="sacCer2"/>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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27 <param name="sequence_name" value=""/>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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28 <output name="sequence_id" file="data_manager_two_bit_out_1.dat"/>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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29 </test>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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30 </tests>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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32 <help>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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33 .. class:: infomark
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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c9896bb1f03c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_twobit_builder commit 8652f36a3a3838dca989426961561e81432acf4f
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35 **Notice:** If you leave name, description, or id blank, it will be generated automatically.
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26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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36 </help>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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37 </tool>
26e3ae5f74ed planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_twobit_builder commit 4ec9eb1570ea116d83f5464a786af6e14fb5b57d
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