Mercurial > repos > ecology > geo_cov_template
diff geo_cov_template.xml @ 4:d53b708cb348 draft
planemo upload for repository https://github.com/galaxyecology/tools-ecology/tree/master/tools/EMLassemblyline commit 2d36dc964f548b5acbc43ffd78e51e6fc7dc80bb
| author | ecology |
|---|---|
| date | Tue, 10 Sep 2024 12:51:06 +0000 |
| parents | 0fe3b8bd9d8b |
| children |
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--- a/geo_cov_template.xml Mon Jan 22 14:55:15 2024 +0000 +++ b/geo_cov_template.xml Tue Sep 10 12:51:06 2024 +0000 @@ -2,7 +2,7 @@ <description>for EML metadata creation</description> <requirements> <requirement type="package" version="4.3.1">r-base</requirement> - <requirement type="package" version="3.5.5">r-emlassemblyline</requirement> + <container type="docker">outils-patrinat.mnhn.fr/metashark:latest</container> </requirements> <command detect_errors="exit_code"><![CDATA[ @@ -22,9 +22,9 @@ ]]></command> <inputs> <param name="inputdata" type="data" format="tabular" label="Upload table containing geographic coordinates" /> - <param name="lat_col" type="data_column" label="What column of your table contains latitude coordinates in decimal degrees?" data_ref="inputdata" /> - <param name="long_col" type="data_column" label="What column of your table contains longitude coordinates in decimal degrees ?" data_ref="inputdata"/> - <param name="site_col" type="data_column" label="What column of your table contains site names ?" data_ref="inputdata"/> + <param name="lat_col" type="data_column" label="What column of your table contains latitude coordinates in decimal degrees?" data_ref="inputdata" use_header_names="true"/> + <param name="long_col" type="data_column" label="What column of your table contains longitude coordinates in decimal degrees ?" data_ref="inputdata" use_header_names="true"/> + <param name="site_col" type="data_column" label="What column of your table contains site names ?" data_ref="inputdata" use_header_names="true"/> <param name="empty" type="boolean" label="Write an empty template file ?" /> </inputs> <outputs> @@ -32,7 +32,7 @@ </outputs> <tests> <test> - <param name="inputdata" value="test-geocov.tabular"/> + <param name="inputdata" value="test_geocov.tsv"/> <param name="lat_col" value="2"/> <param name="long_col" value="3"/> <param name="site_col" value="1"/> @@ -66,4 +66,13 @@ | ... | ... | ... | +------+------+----------------------+ ]]></help> + <citations> + <citation type="bibtex">@Manual{, + title = {EMLassemblyline: A tool kit for building EML metadata workflows}, + author = {Colin Smith}, + year = {2022}, + note = {https://github.com/EDIorg/EMLassemblyline, + https://ediorg.github.io/EMLassemblyline/}, + }</citation> + </citations> </tool>