Mercurial > repos > lecorguille > xcms_xcmsset
diff abims_xcms_xcmsSet.xml @ 33:f5d51091cf84 draft default tip
planemo upload for repository https://github.com/workflow4metabolomics/tools-metabolomics/ commit 2cb157bd9a8701a3d6874e084032cbd050b8953e
| author | workflow4metabolomics |
|---|---|
| date | Mon, 11 Sep 2023 09:22:36 +0000 |
| parents | b02d1992a43a |
| children |
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--- a/abims_xcms_xcmsSet.xml Wed Apr 07 16:47:14 2021 +0000 +++ b/abims_xcms_xcmsSet.xml Mon Sep 11 09:22:36 2023 +0000 @@ -1,4 +1,4 @@ -<tool id="abims_xcms_xcmsSet" name="xcms findChromPeaks (xcmsSet)" version="@TOOL_VERSION@+galaxy0"> +<tool id="abims_xcms_xcmsSet" name="xcms findChromPeaks (xcmsSet)" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> <description>Chromatographic peak detection</description> <macros> @@ -187,11 +187,8 @@ <outputs> <data name="xsetRData" format="rdata.xcms.findchrompeaks" label="${image.name.rsplit('.',1)[0]}.xset.RData" from_work_dir="xcmsSet.RData" /> <data name="log" format="txt" label="${image.name.rsplit('.',1)[0]}.xset.log.txt" from_work_dir="log.txt" /> - <data name="peaklist_out1" format="tabular" label="${image.name[:-6]}.chromPeak_table.tsv" from_work_dir="chromPeak_table.tsv" > - <filter>methods['method'] == 'CentWave' and (methods['CentWaveAdv']['peaklist'])</filter> - </data> - <data name="peaklist_out2" format="tabular" label="${image.name[:-6]}.chromPeak_table.tsv" from_work_dir="chromPeak_table.tsv" > - <filter>methods['method'] == 'MatchedFilter' and (methods['MatchedFilterAdv']['peaklist'])</filter> + <data name="peaklist_out" format="tabular" label="${image.name[:-6]}.chromPeak_table.tsv" from_work_dir="chromPeak_table.tsv" > + <filter>methods['method'] in ['CentWave', 'MatchedFilter'] and (methods['CentWaveAdv']['peaklist'])</filter> </data> </outputs> @@ -227,7 +224,7 @@ <has_text text="Sample classes: KO, WT" /> </assert_stdout> </test>--> - <test> + <test expect_num_outputs="2"> <param name="image" value="ko15-raw.RData" ftype="rdata" /> <conditional name="methods"> <param name="method" value="CentWave" />