Mercurial > repos > mmonsoor > camera_combinexsannos
diff abims_CAMERA_combinexsAnnos.xml @ 3:4ca5c7bbc6cf draft
planemo upload
author | lecorguille |
---|---|
date | Mon, 22 Feb 2016 16:49:04 -0500 |
parents | 0c730c636867 |
children | 87570e9b71f5 |
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--- a/abims_CAMERA_combinexsAnnos.xml Thu Dec 17 09:12:40 2015 -0500 +++ b/abims_CAMERA_combinexsAnnos.xml Mon Feb 22 16:49:04 2016 -0500 @@ -1,4 +1,4 @@ -<tool id="abims_CAMERA_combinexsAnnos" name="CAMERA.combinexsAnnos" version="2.0.1"> +<tool id="abims_CAMERA_combinexsAnnos" name="CAMERA.combinexsAnnos" version="2.0.3"> <description>Wrapper function for the combinexsAnnos CAMERA function. Returns a dataframe with recalculated annotations.</description> @@ -7,20 +7,24 @@ <requirement type="binary">Rscript</requirement> <requirement type="package" version="1.44.0">xcms</requirement> <requirement type="package" version="1.22.0">camera</requirement> - <requirement type="package" version="2.1">camera_w4m_script</requirement> + <requirement type="package" version="2.2.0">camera_w4m_script</requirement> </requirements> <stdio> <exit_code range="1:" level="fatal" /> </stdio> - <command> + <command><![CDATA[ CAMERA.r - xfunction combinexsAnnos image_pos $image_pos image_neg $image_neg - pos $pos tol $tol ruleset $ruleset convert_param $convert_param keep_meta $keep_meta && ( - mv variableMetadata.tsv $variableMetadata); - cat xset.log - </command> + xfunction combinexsAnnos + image_pos $image_pos + image_neg $image_neg + + variableMetadataOutput $variableMetadata + + pos $pos tol $tol ruleset $ruleset convert_param $convert_param keep_meta $keep_meta + + ]]></command> <inputs> <param name="image_pos" type="data" label="Positive RData ion mode" format="rdata.camera.positive,rdata" help="output file from CAMERA.annotate using a positive polarity mode" /> @@ -58,7 +62,7 @@ </tests> - <help> + <help><![CDATA[ .. class:: infomark @@ -199,7 +203,32 @@ .. image:: combinexsannos_variableMetadata.png - </help> + +--------------------------------------------------- + +Changelog/News +-------------- + +**Version 2.0.3 - 10/02/2016** + +- BUGFIX: better management of errors. Datasets remained green although the process failed + +- UPDATE: refactoring of internal management of inputs/outputs + + +**Version 2.0.1 - 07/06/2015** + +- IMPROVEMENT: new datatype/dataset formats (rdata.camera.positive, rdata.camera.negative, rdata.camera.quick ...) will facilitate the sequence of tools and so avoid incompatibility errors. + +- IMPROVEMENT: parameter labels have changed to facilitate their reading. + + +**Version 2.0.0 - 09/06/2015** + +- NEW: combinexsAnnos Check CAMERA ion species annotation due to matching with opposite ion mode + + + ]]></help> <citations> <citation type="doi"> 10.1021/ac202450g</citation>