Mercurial > repos > greg > plant_tribes_gene_family_scaffold_loader
comparison gene_family_scaffold_loader.xml @ 0:177b62db4320 draft
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| author | greg |
|---|---|
| date | Tue, 22 May 2018 13:26:49 -0400 |
| parents | |
| children | 488bf95641d2 |
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| -1:000000000000 | 0:177b62db4320 |
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| 1 <tool id="plant_tribes_gene_family_scaffold_loader" name="Load scaffold" version="@WRAPPER_VERSION@.0.0"> | |
| 2 <description>into Galaxy PlantTribes database</description> | |
| 3 <macros> | |
| 4 <import>macros.xml</import> | |
| 5 </macros> | |
| 6 <command detect_errors="exit_code"><![CDATA[ | |
| 7 python '$__tool_directory__/gene_family_scaffold_loader.py' | |
| 8 --database_connection_string '$__app__.config.plant_tribes_database_connection' | |
| 9 --output '$output' | |
| 10 --scaffold_path '$GALAXY_DATA_INDEX_DIR/plant_tribes/scaffolds/$scaffold' | |
| 11 --output '$output']]></command> | |
| 12 <inputs> | |
| 13 <expand macro="param_scaffold" /> | |
| 14 </inputs> | |
| 15 <outputs> | |
| 16 <data name="output" format="txt"/> | |
| 17 </outputs> | |
| 18 <tests> | |
| 19 <test> | |
| 20 </test> | |
| 21 </tests> | |
| 22 <help> | |
| 23 This tool is one of the PlantTribes collection of automated modular analysis pipelines for comparative and evolutionary | |
| 24 analyses of genome-scale gene families and transcriptomes. This tool analyzes a scaffold installed by the Data Manager | |
| 25 for installing PlantTribes scaffolds into Galaxy and inserts information about them into the Galaxy PlantTribes database | |
| 26 for querying and additional analysis. | |
| 27 | |
| 28 ----- | |
| 29 | |
| 30 **Required options** | |
| 31 | |
| 32 * **Gene family scaffold** - one of the PlantTribes gene family scaffolds, installed into Galaxy by the PlantTribes Scaffold Data Manager tool, that has not yet been analyzed and loaded into the Galaxy PlantTribes database. | |
| 33 </help> | |
| 34 <citations> | |
| 35 <citation type="bibtex"> | |
| 36 @unpublished{None, | |
| 37 author = {Greg Von Kuster,Eric Wafula}, | |
| 38 title = {None}, | |
| 39 year = {None}, | |
| 40 eprint = {None}, | |
| 41 url = {https://github.com/dePamphilis/PlantTribes}} | |
| 42 </citation> | |
| 43 </citations> | |
| 44 </tool> |