Mercurial > repos > lecorguille > msnbase_readmsdata
comparison msnbase_readmsdata.xml @ 16:12def6edac2f draft default tip
planemo upload for repository https://github.com/workflow4metabolomics/tools-metabolomics/ commit 03db090375a4ceb553dbf5ae77ef3866e98fbe9e
| author | workflow4metabolomics |
|---|---|
| date | Tue, 21 Nov 2023 09:44:25 +0000 |
| parents | 7faf9b2d83f6 |
| children |
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| 15:7faf9b2d83f6 | 16:12def6edac2f |
|---|---|
| 1 <tool id="msnbase_readmsdata" name="MSnbase readMSData" version="@WRAPPER_VERSION@+galaxy1"> | 1 <tool id="msnbase_readmsdata" name="MSnbase readMSData" version="@WRAPPER_VERSION@+galaxy2"> |
| 2 <description>Imports mass-spectrometry data files</description> | 2 <description>Imports mass-spectrometry data files</description> |
| 3 | 3 |
| 4 <macros> | 4 <macros> |
| 5 <import>macros.xml</import> | 5 <import>macros.xml</import> |
| 6 <import>macros_msnbase.xml</import> | 6 <import>macros_msnbase.xml</import> |
| 32 | 32 |
| 33 </inputs> | 33 </inputs> |
| 34 | 34 |
| 35 <outputs> | 35 <outputs> |
| 36 <data name="xsetRData" format="rdata.msnbase.raw" label="${input.name.rsplit('.',1)[0]}.raw.RData" from_work_dir="readmsdata.RData" /> | 36 <data name="xsetRData" format="rdata.msnbase.raw" label="${input.name.rsplit('.',1)[0]}.raw.RData" from_work_dir="readmsdata.RData" /> |
| 37 <data name="sampleMetadata" format="tabular" label="${input.name.rsplit('.',1)[0]}.sampleMetadata.tsv" from_work_dir="sampleMetadata.tsv" > | |
| 38 <filter>input.extension not in ["mzxml","mzml","mzdata","netcdf"]</filter> | |
| 39 </data> | |
| 40 </outputs> | 37 </outputs> |
| 41 | 38 |
| 42 <tests> | 39 <tests> |
| 43 | 40 |
| 44 <test expect_num_outputs="2"> | 41 <test expect_num_outputs="1"> |
| 45 <param name="input" value="faahKO_reduce.zip" ftype="zip" /> | 42 <param name="input" value="faahKO_reduce.zip" ftype="zip" /> |
| 46 <assert_stdout> | 43 <assert_stdout> |
| 47 <has_text text="rowNames: faahKO_reduce/KO/ko15.CDF faahKO_reduce/KO/ko16.CDF" /> | 44 <has_text text="rowNames: faahKO_reduce/KO/ko15.CDF faahKO_reduce/KO/ko16.CDF" /> |
| 48 <has_text text="faahKO_reduce/WT/wt15.CDF faahKO_reduce/WT/wt16.CDF" /> | 45 <has_text text="faahKO_reduce/WT/wt15.CDF faahKO_reduce/WT/wt16.CDF" /> |
| 49 <has_text text="featureNames: F1.S0001 F1.S0002 ... F4.S1278 (5112 total)" /> | 46 <has_text text="featureNames: F1.S0001 F1.S0002 ... F4.S1278 (5112 total)" /> |
| 51 <has_text text="faahKO_reduce/KO/ko15.CDF ko15 KO" /> | 48 <has_text text="faahKO_reduce/KO/ko15.CDF ko15 KO" /> |
| 52 <has_text text="faahKO_reduce/KO/ko16.CDF ko16 KO" /> | 49 <has_text text="faahKO_reduce/KO/ko16.CDF ko16 KO" /> |
| 53 <has_text text="faahKO_reduce/WT/wt15.CDF wt15 WT" /> | 50 <has_text text="faahKO_reduce/WT/wt15.CDF wt15 WT" /> |
| 54 <has_text text="faahKO_reduce/WT/wt16.CDF wt16 WT" /> | 51 <has_text text="faahKO_reduce/WT/wt16.CDF wt16 WT" /> |
| 55 </assert_stdout> | 52 </assert_stdout> |
| 56 <output name="sampleMetadata" value="sampleMetadata.tsv" /> | |
| 57 </test> | 53 </test> |
| 58 <test expect_num_outputs="1"> | 54 <test expect_num_outputs="1"> |
| 59 <param name="input" value="ko15.CDF" ftype="netcdf" /> | 55 <param name="input" value="ko15.CDF" ftype="netcdf" /> |
| 60 <assert_stdout> | 56 <assert_stdout> |
| 61 <has_text text="rowNames: ko15.CDF" /> | 57 <has_text text="rowNames: ko15.CDF" /> |