Mercurial > repos > iuc > data_manager_plant_tribes_scaffolds_downloader
view data_manager/data_manager_plant_tribes_scaffolds_download.xml @ 5:1550b1741780 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_plant_tribes_scaffolds_downloader commit 02d2967f77e3fa5a18aea63dc84aa9ab418dc165"
author | iuc |
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date | Sun, 22 Nov 2020 12:52:36 +0000 |
parents | 93253aebaf2e |
children | 898b956719ee |
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<tool id="data_manager_plant_tribes_scaffolds_download" name="PlantTribes Scaffolds Download" version="1.1.1" tool_type="manage_data"> <description></description> <requirements> <requirement type="package" version="3.8.3">python</requirement> </requirements> <command detect_errors="exit_code"><![CDATA[ python $__tool_directory__/data_manager_plant_tribes_scaffolds_download.py --name '$name' --description '$description' --web_url '$web_url' --config_web_url '$config_web_url' --out_file '$out_file']]> </command> <inputs> <param name="name" type="text" value="" label="Data table entry unique ID"/> <param name="description" type="text" value="" label="Description of the data" help="Value is optional"/> <param name="web_url" type="text" value="" label="URL for downloading scaffolds" help="Must be same version as configs" optional="False" /> <param name="config_web_url" type="text" value="" label="URL for downloading configs" help="Must be same version as scaffolds" optional="False" /> </inputs> <outputs> <data name="out_file" format="data_manager_json" /> </outputs> <tests> <test> <param name="name" value="12Gv1.0"/> <param name="description" value="12 plant genomes (Monocots, version 1.0)"/> <param name="web_url" value="https://github.com/gregvonkuster/galaxy_tools/raw/master/test/plant_tribes/scaffolds/12Gv1.0.tar.bz2"/> <param name="config_web_url" value="http://bigdata.bx.psu.edu/PlantTribes_scaffolds/configs/12Gv1.0.tar.gz"/> <output name="out_file" value="plant_tribes_scaffolds.json" compare="contains"/> </test> </tests> <help> .. class:: infomark **What it does** This tool fetches scaffolds data and default configuration files used by the PlantTribes Galaxy tools and populates the plant_tribes_scaffolds data table. Both the scaffolds data and the default configuration files can be imported using a URL, and an optional description can be provided that will appear next to the scaffolds file name in the data table entry. Scaffolds data provided by the Floral Genome Project can be downloaded using these URLs: * 22 plant genomes (Angiosperms clusters, version 1.0): http://bigdata.bx.psu.edu/PlantTribes_scaffolds/data/22Gv1.0.tar.bz2 * 22 plant genomes (Angiosperms clusters, version 1.1): http://bigdata.bx.psu.edu/PlantTribes_scaffolds/data/22Gv1.1.tar.bz2 Default configuration files provided by the Floral Genome Project can be downloaded using these URLs: * 22 plant genomes (Angiosperms clusters, version 1.0): http://bigdata.bx.psu.edu/PlantTribes_scaffolds/configs/22Gv1.0.tar.gz * 22 plant genomes (Angiosperms clusters, version 1.1): http://bigdata.bx.psu.edu/PlantTribes_scaffolds/configs/22Gv1.1.tar.gz </help> <citations> <citation type="bibtex"> @unpublished{None, author = {Greg Von Kuster}, title = {None}, year = {None}, eprint = {None}, url = {https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_plant_tribes_scaffolds_downloader} }</citation> </citations> </tool>