| Previous changeset 1:80b0bd65cbfb (2017-03-29) Next changeset 3:5833ef61c1f8 (2018-08-17) |
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modified:
data_manager/data_manager_plant_tribes_scaffolds_download.xml |
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| diff -r 80b0bd65cbfb -r 13c235ded82e data_manager/data_manager_plant_tribes_scaffolds_download.xml --- a/data_manager/data_manager_plant_tribes_scaffolds_download.xml Wed Mar 29 12:08:57 2017 -0400 +++ b/data_manager/data_manager_plant_tribes_scaffolds_download.xml Wed Mar 29 12:09:09 2017 -0400 |
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| @@ -1,4 +1,4 @@ -<tool id="data_manager_plant_tribes_scaffolds_download" name="PlantTribes Scaffolds Download" version="1.0.0" tool_type="manage_data"> +<tool id="data_manager_plant_tribes_scaffolds_download" name="PlantTribes Scaffolds Download" version="1.1.0" tool_type="manage_data"> <description></description> <stdio> <exit_code range=":-1" level="fatal" description="Error: Cannot open file" /> @@ -7,16 +7,18 @@ <command> <![CDATA[ python $__tool_directory__/data_manager_plant_tribes_scaffolds_download.py - --name "$name" - --description "$description" - --web_url "$web_url" - --out_file "$out_file" + --name '$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="Web URL" optional="False" /> + <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" /> @@ -28,13 +30,20 @@ **What it does** -This tool fetches scaffolds data used by the PlantTribes Galaxy tools and populates the plant_tribes_scaffolds data table. -The scaffolds data 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 here: +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://fgp.huck.psu.edu/planttribes_data/22Gv1.0.tar.bz2 * 22 plant genomes (Angiosperms clusters, version 1.1): http://fgp.huck.psu.edu/planttribes_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://fgp.huck.psu.edu/planttribes_config/22Gv1.0.tar.gz + * 22 plant genomes (Angiosperms clusters, version 1.1): http://fgp.huck.psu.edu/planttribes_config/22Gv1.1.tar.gz + </help> <citations> <citation type="bibtex"> @@ -43,7 +52,7 @@ title = {None}, year = {None}, eprint = {None}, - url = {None} + url = {https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_plant_tribes_scaffolds_downloader} }</citation> </citations> </tool> |