Mercurial > repos > galaxyp > openms_proteinresolver

comparison macros_test.xml @ 11:95f90fab5ce8 draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 55a2aeba8bfd8a6910630721de9857dcdfe05d3c"
author galaxyp
date Tue, 13 Oct 2020 20:11:11 +0000
parents f7ef238cc21e
children
comparison
equal deleted inserted replaced
10:f7ef238cc21e 11:95f90fab5ce8
175 <param name="adv_opts_cond|test" value="true"/> 175 <param name="adv_opts_cond|test" value="true"/>
176 <param name="in" ftype="consensusxml" value="ConsensusXMLFile_1.consensusXML"/> 176 <param name="in" ftype="consensusxml" value="ConsensusXMLFile_1.consensusXML"/>
177 <output name="out" ftype="txt" value="MapStatistics2.txt"/> 177 <output name="out" ftype="txt" value="MapStatistics2.txt"/>
178 </test> 178 </test>
179 </xml> 179 </xml>
180 <xml name="manutest_MetaboliteAdductDecharger">
181 <test expect_num_outputs="3"><!-- same input as used by Decharger -->
182 <param name="adv_opts_selector" value="advanced"/>
183 <param name="adv_opts_cond|test" value="true"/>
184 <param name="in" ftype="featurexml" value="Decharger_input.featureXML"/>
185 <output name="out_cm" ftype="consensusxml" value="MetaboliteAdductDecharger_cm.consensusXML" compare="sim_size"/>
186 <param name="OPTIONAL_OUTPUTS" value="out_fm_FLAG,outpairs_FLAG"/>
187 <output name="out_fm" ftype="featurexml" value="MetaboliteAdductDecharger_fm.featureXML" compare="sim_size"/>
188 <output name="outpairs" ftype="consensusxml" value="MetaboliteAdductDecharger_pairs.consensusXML" compare="sim_size"/>
189 </test>
190 </xml>
191 <xml name="manutest_MetaboliteSpectralMatcher"> 180 <xml name="manutest_MetaboliteSpectralMatcher">
192 <!-- https://github.com/OpenMS/OpenMS/issues/2078
193 https://github.com/OpenMS/OpenMS/pull/4468-->
194 <!-- same input as used in the MSGF+Adapter, should use database CHEMISTRY/MetaboliteSpectralDB.mzML --> 181 <!-- same input as used in the MSGF+Adapter, should use database CHEMISTRY/MetaboliteSpectralDB.mzML -->
195 <test expect_num_outputs="1"><!-- same input as used in the MSGF+Adapter, used as input and database --> 182 <test expect_num_outputs="1"><!-- same input as used in the MSGF+Adapter, used as input and database -->
196 <param name="adv_opts_selector" value="advanced"/> 183 <param name="adv_opts_selector" value="advanced"/>
197 <param name="adv_opts_cond|test" value="true"/> 184 <param name="adv_opts_cond|test" value="true"/>
198 <param name="in" ftype="mzml" value="spectra.mzML"/> 185 <param name="in" ftype="mzml" value="spectra.mzML"/>
272 <element name="part2of2" file="MzMLSplitter_2_output_part2of2.mzML" ftype="mzml"/> 259 <element name="part2of2" file="MzMLSplitter_2_output_part2of2.mzML" ftype="mzml"/>
273 </output_collection> 260 </output_collection>
274 </test> 261 </test>
275 </xml> 262 </xml>
276 <xml name="manutest_OpenSwathDIAPreScoring"> 263 <xml name="manutest_OpenSwathDIAPreScoring">
277 <!-- TODO data from a test that included all the needed test files
278 currently unusable https://github.com/OpenMS/OpenMS/pull/4443 -->
279 <!-- data from a test that included all the needed test files --> 264 <!-- data from a test that included all the needed test files -->
280 <!-- <test>--> 265 <test>
281 <!-- <param name="tr" value="OpenSwathWorkflow_1_input.TraML"/>--> 266 <param name="tr" value="OpenSwathWorkflow_1_input.TraML"/>
282 <!-- <param name="swath_files" value="OpenSwathWorkflow_10.chrom.mzML.tmp"/> or OpenSwathAnalyzer_2_swathfile.mzML--> 267 <param name="swath_files" value="OpenSwathAnalyzer_2_swathfile.mzML"/>
283 <!-- <output name="out" ftype="tabular" value="OpenSwathDIAPreScoring_2.tmp"/>--> 268 <output_collection name="output_files" count="1">
284 <!-- </test>--> 269 <element name="OpenSwathAnalyzer_2_swathfile_mzML.tsv" file="OpenSwathDIAPreScoring.tsv" ftype="tabular"/>
270 </output_collection>
271 </test>
272
273 <!-- test with two inputs (actually the same file .. symlinked) -->
274 <test>
275 <param name="tr" value="OpenSwathWorkflow_1_input.TraML"/>
276 <param name="swath_files" value="OpenSwathDIAPreScoring_in1.mzML,OpenSwathDIAPreScoring_in2.mzML"/>
277 <output_collection name="output_files" count="2">
278 <element name="OpenSwathDIAPreScoring_in1.tsv" file="OpenSwathDIAPreScoring.tsv" ftype="tabular"/>
279 <element name="OpenSwathDIAPreScoring_in1.tsv" file="OpenSwathDIAPreScoring.tsv" ftype="tabular"/>
280 </output_collection>
281 </test>
285 </xml> 282 </xml>
286 <!-- adapted from macros_discarded_auto.xml (due to prefix-output)--> 283 <!-- adapted from macros_discarded_auto.xml (due to prefix-output)-->
287 <xml name="manutest_OpenSwathFileSplitter"> 284 <xml name="manutest_OpenSwathFileSplitter">
288 <test expect_num_outputs="3"> 285 <test expect_num_outputs="3">
289 <conditional name="adv_opts_cond"> 286 <conditional name="adv_opts_cond">
290 <param name="adv_opts_selector" value="advanced"/> 287 <param name="adv_opts_selector" value="advanced"/>
291 <param name="force" value="false"/> 288 <param name="force" value="false"/>
292 <param name="test" value="true"/> 289 <param name="test" value="true"/>
293 </conditional> 290 </conditional>
294 <param name="in" value="OpenSwathWorkflow_1_input.mzML"/> 291 <param name="in" value="OpenSwathWorkflow_1_input.mzML"/>
295 <param name="OPTIONAL_OUTPUTS" value="out_qc_FLAG,ctd_out_FLAG"/> 292 <param name="OPTIONAL_OUTPUTS" value="out_qc_FLAG,ctd_out_FLAG"/>
296 <output_collection name="outputDirectory" count="6"> 293 <output_collection name="outputDirectory" count="6">
297 <element name="OpenSwathWorkflow_1_input_mzML_4" file="openswath_tmpfile_4.mzML" ftype="mzml"/> 294 <element name="OpenSwathWorkflow_1_input_mzML_4" file="openswath_tmpfile_4.mzML" ftype="mzml"/>
298 <element name="OpenSwathWorkflow_1_input_mzML_ms1" file="openswath_tmpfile_ms1.mzML" ftype="mzml"/> 295 <element name="OpenSwathWorkflow_1_input_mzML_ms1" file="openswath_tmpfile_ms1.mzML" ftype="mzml"/>
299 </output_collection> 296 </output_collection>
300 <output name="out_qc" file="OpenSwathFileSplitter_1.json" compare="sim_size" delta="5700" ftype="json"/> 297 <output name="out_qc" file="OpenSwathFileSplitter_1.json" compare="sim_size" delta="5700" ftype="json"/>
301 <output name="ctd_out" ftype="xml"> 298 <output name="ctd_out" ftype="xml">
302 <assert_contents> 299 <assert_contents>
303 <is_valid_xml/> 300 <is_valid_xml/>
304 </assert_contents> 301 </assert_contents>
305 </output> 302 </output>
306 </test> 303 </test>
307 </xml> 304 </xml>
308 <xml name="manutest_OpenSwathRewriteToFeatureXML"> 305 <xml name="manutest_OpenSwathRewriteToFeatureXML">
309 <test expect_num_outputs="1"><!-- same input as used in the MSGF+Adapter --> 306 <test expect_num_outputs="1"><!-- same input as used in the MSGF+Adapter -->
310 <param name="featureXML" value="OpenSwathFeatureXMLToTSV_input.featureXML"/> 307 <param name="featureXML" value="OpenSwathFeatureXMLToTSV_input.featureXML"/>
311 <param name="adv_opts_cond|test" value="true"/> 308 <param name="adv_opts_cond|test" value="true"/>
344 <param name="in" ftype="idxml" value="MSGFPlusAdapter_1_out.idXML,XTandemAdapter_1_out.idXML"/> 341 <param name="in" ftype="idxml" value="MSGFPlusAdapter_1_out.idXML,XTandemAdapter_1_out.idXML"/>
345 <param name="multiple_search_engines" value="true"/> 342 <param name="multiple_search_engines" value="true"/>
346 <param name="adv_opts_cond|adv_opts_selector" value="advanced"/> 343 <param name="adv_opts_cond|adv_opts_selector" value="advanced"/>
347 <param name="adv_opts_cond|skip_db_check" value="true"/> 344 <param name="adv_opts_cond|skip_db_check" value="true"/>
348 <param name="out_type" value="idxml"/> 345 <param name="out_type" value="idxml"/>
349 <output name="out" ftype="idxml" value="PSMFeatureExtractor.idxml" compare="sim_size" delta="100"/> 346 <output name="out" ftype="idxml" value="PSMFeatureExtractor.idxml" compare="sim_size" delta="500"/>
350 </test> 347 </test>
351 <test expect_num_outputs="1"><!-- using the idXML outputs of two SearchAdapters that should be compatible --> 348 <test expect_num_outputs="1"><!-- using the idXML outputs of two SearchAdapters that should be compatible -->
352 <param name="adv_opts_cond|test" value="true"/> 349 <param name="adv_opts_cond|test" value="true"/>
353 <param name="in" ftype="idxml" value="MSGFPlusAdapter_1_out.idXML,XTandemAdapter_1_out.idXML"/> 350 <param name="in" ftype="idxml" value="MSGFPlusAdapter_1_out.idXML,XTandemAdapter_1_out.idXML"/>
354 <param name="multiple_search_engines" value="true"/> 351 <param name="multiple_search_engines" value="true"/>
355 <param name="adv_opts_cond|adv_opts_selector" value="advanced"/> 352 <param name="adv_opts_cond|adv_opts_selector" value="advanced"/>
356 <param name="adv_opts_cond|skip_db_check" value="true"/> 353 <param name="adv_opts_cond|skip_db_check" value="true"/>
357 <param name="out_type" value="mzid"/> 354 <param name="out_type" value="mzid"/>
358 <output name="out" ftype="mzid" value="PSMFeatureExtractor.mzid" compare="sim_size" delta="100" lines_diff="4"/> 355 <output name="out" ftype="mzid" value="PSMFeatureExtractor.mzid" compare="sim_size" delta="500"/>
359 </test> 356 </test>
360 </xml> 357 </xml>
361 <xml name="manutest_QCCalculator"> 358 <xml name="manutest_QCCalculator">
362 <test expect_num_outputs="1"><!-- took test data from another test w mzML input --> 359 <test expect_num_outputs="1"><!-- took test data from another test w mzML input -->
363 <param name="adv_opts_selector" value="advanced"/> 360 <param name="adv_opts_selector" value="advanced"/>
427 <output name="out" ftype="mzml" value="RNPxlXICFilter.mzML"/> 424 <output name="out" ftype="mzml" value="RNPxlXICFilter.mzML"/>
428 </test> 425 </test>
429 </xml> 426 </xml>
430 <xml name="manutest_RTEvaluation"> 427 <xml name="manutest_RTEvaluation">
431 <!-- just chosen an arbitrary input and autgenerated output--> 428 <!-- just chosen an arbitrary input and autgenerated output-->
432 <!-- https://github.com/OpenMS/OpenMS/pull/4429 -->
433 <test expect_num_outputs="1"> 429 <test expect_num_outputs="1">
434 <param name="adv_opts_selector" value="advanced"/> 430 <param name="adv_opts_selector" value="advanced"/>
435 <param name="adv_opts_cond|test" value="true"/> 431 <param name="adv_opts_cond|test" value="true"/>
436 <param name="in" ftype="idxml" value="PeptideIndexer_1.idXML"/> 432 <param name="in" ftype="idxml" value="PeptideIndexer_1.idXML"/>
437 <output name="out" ftype="csv" value="RTEvaluation.tsv"/> 433 <output name="out" ftype="tabular" value="RTEvaluation.tsv"/>
438 </test> 434 </test>
439 </xml> 435 </xml>
440 <xml name="manutest_SemanticValidator"> 436 <xml name="manutest_SemanticValidator">
441 <test expect_num_outputs="1"><!-- just chosen an arbitrary input (same as XMLValidator) and autgenerated output--> 437 <test expect_num_outputs="1"><!-- just chosen an arbitrary input (same as XMLValidator) and autgenerated output-->
442 <param name="adv_opts_selector" value="advanced"/> 438 <param name="adv_opts_selector" value="advanced"/>
544 <output name="stdout" ftype="txt" value="XMLValidator.stdout" lines_diff="4"> 540 <output name="stdout" ftype="txt" value="XMLValidator.stdout" lines_diff="4">
545 <assert_contents><has_text text="Success: the file is valid!"/></assert_contents> 541 <assert_contents><has_text text="Success: the file is valid!"/></assert_contents>
546 </output> 542 </output>
547 </test> 543 </test>
548 </xml> 544 </xml>
549 <xml name="manutest_IDMapper"/><xml name="manutest_ProteinQuantifier"/><xml name="manutest_PeakPickerIterative"/><xml name="manutest_FeatureLinkerUnlabeledQT"/><xml name="manutest_TICCalculator"/><xml name="manutest_IDFilter"/><xml name="manutest_IDPosteriorErrorProbability"/><xml name="manutest_FeatureFinderIdentification"/><xml name="manutest_XFDR"/><xml name="manutest_OpenSwathWorkflow"/><xml name="manutest_MassCalculator"/><xml name="manutest_IDFileConverter"/><xml name="manutest_MultiplexResolver"/><xml name="manutest_FeatureFinderSuperHirn"/><xml name="manutest_AssayGeneratorMetabo"/><xml name="manutest_MassTraceExtractor"/><xml name="manutest_SiriusAdapter"/><xml name="manutest_IDMerger"/><xml name="manutest_MSstatsConverter"/><xml name="manutest_FileMerger"/><xml name="manutest_Decharger"/><xml name="manutest_PTPredict"/><xml name="manutest_XTandemAdapter"/><xml name="manutest_FeatureFinderMetabo"/><xml name="manutest_CruxAdapter"/><xml name="manutest_OpenSwathConfidenceScoring"/><xml name="manutest_PrecursorIonSelector"/><xml name="manutest_ConsensusMapNormalizer"/><xml name="manutest_RTPredict"/><xml name="manutest_PercolatorAdapter"/><xml name="manutest_ProteinInference"/><xml name="manutest_OpenSwathDecoyGenerator"/><xml name="manutest_TextExporter"/><xml name="manutest_FeatureFinderCentroided"/><xml name="manutest_DecoyDatabase"/><xml name="manutest_SpectraFilterWindowMower"/><xml name="manutest_NoiseFilterGaussian"/><xml name="manutest_MaRaClusterAdapter"/><xml name="manutest_ConsensusID"/><xml name="manutest_FileFilter"/><xml name="manutest_InclusionExclusionListCreator"/><xml name="manutest_FeatureLinkerUnlabeledKD"/><xml name="manutest_NovorAdapter"/><xml name="manutest_OpenPepXL"/><xml name="manutest_SeedListGenerator"/><xml name="manutest_FalseDiscoveryRate"/><xml name="manutest_OpenPepXLLF"/><xml name="manutest_SpecLibSearcher"/><xml name="manutest_IDConflictResolver"/><xml name="manutest_MRMMapper"/><xml name="manutest_OMSSAAdapter"/><xml name="manutest_ExternalCalibration"/><xml name="manutest_PeakPickerHiRes"/><xml name="manutest_MascotAdapter"/><xml name="manutest_FeatureFinderMultiplex"/><xml name="manutest_MetaProSIP"/><xml name="manutest_FuzzyDiff"/><xml name="manutest_TargetedFileConverter"/><xml name="manutest_MapAlignerIdentification"/><xml name="manutest_IDRTCalibration"/><xml name="manutest_MRMTransitionGroupPicker"/><xml name="manutest_RTModel"/><xml name="manutest_OpenSwathAssayGenerator"/><xml name="manutest_IDSplitter"/><xml name="manutest_OpenSwathMzMLFileCacher"/><xml name="manutest_HighResPrecursorMassCorrector"/><xml name="manutest_OpenSwathChromatogramExtractor"/><xml name="manutest_OpenSwathAnalyzer"/><xml name="manutest_FeatureLinkerUnlabeled"/><xml name="manutest_CompNovoCID"/><xml name="manutest_DTAExtractor"/><xml name="manutest_FileInfo"/><xml name="manutest_MapAlignerSpectrum"/><xml name="manutest_IsobaricAnalyzer"/><xml name="manutest_LowMemPeakPickerHiRes"/><xml name="manutest_MyriMatchAdapter"/><xml name="manutest_InternalCalibration"/><xml name="manutest_TOFCalibration"/><xml name="manutest_MSGFPlusAdapter"/><xml name="manutest_PTModel"/><xml name="manutest_InspectAdapter"/><xml name="manutest_SpectraFilterSqrtMower"/><xml name="manutest_SimpleSearchEngine"/><xml name="manutest_PeakPickerWavelet"/><xml name="manutest_MapNormalizer"/><xml name="manutest_IDScoreSwitcher"/><xml name="manutest_FeatureLinkerLabeled"/><xml name="manutest_MapRTTransformer"/><xml name="manutest_RNPxlSearch"/><xml name="manutest_PrecursorMassCorrector"/><xml name="manutest_MapAlignerPoseClustering"/><xml name="manutest_MzTabExporter"/><xml name="manutest_BaselineFilter"/><xml name="manutest_FeatureFinderMRM"/><xml name="manutest_MascotAdapterOnline"/><xml name="manutest_DatabaseFilter"/><xml name="manutest_ProteinResolver"/><xml name="manutest_OpenSwathFeatureXMLToTSV"/><xml name="manutest_FidoAdapter"/><xml name="manutest_AccurateMassSearch"/><xml name="manutest_CompNovo"/><xml name="manutest_LowMemPeakPickerHiResRandomAccess"/><xml name="manutest_OpenSwathRTNormalizer"/><xml name="manutest_PeptideIndexer"/><xml name="manutest_CometAdapter"/><xml name="manutest_NoiseFilterSGolay"/><xml name="manutest_MSFraggerAdapter"/><xml name="manutest_SpectraSTSearchAdapter"/><xml name="manutest_SequestAdapter"/><xml name="manutest_FeatureFinder"/><xml name="manutest_LuciphorAdapter"/><xml name="manutest_GNPSExport"/><xml name="manutest_Epifany"/><xml name="manutest_NucleicAcidSearchEngine"/><xml name="manutest_QualityControl"/><xml name="manutest_FeatureFinderMetaboIdent"/><xml name="manutest_RNAMassCalculator"/><xml name="manutest_MapAlignerTreeGuided"/><xml name="manutest_IDMassAccuracy"/><xml name="manutest_ProteomicsLFQ"/><xml name="manutest_IDDecoyProbability"/><xml name="manutest_DigestorMotif"/></macros> 545 <xml name="manutest_MetaboliteAdductDecharger"/><xml name="manutest_IDMapper"/><xml name="manutest_ProteinQuantifier"/><xml name="manutest_PeakPickerIterative"/><xml name="manutest_FeatureLinkerUnlabeledQT"/><xml name="manutest_TICCalculator"/><xml name="manutest_IDFilter"/><xml name="manutest_IDPosteriorErrorProbability"/><xml name="manutest_FeatureFinderIdentification"/><xml name="manutest_XFDR"/><xml name="manutest_OpenSwathWorkflow"/><xml name="manutest_MassCalculator"/><xml name="manutest_IDFileConverter"/><xml name="manutest_MultiplexResolver"/><xml name="manutest_FeatureFinderSuperHirn"/><xml name="manutest_AssayGeneratorMetabo"/><xml name="manutest_MassTraceExtractor"/><xml name="manutest_SiriusAdapter"/><xml name="manutest_IDMerger"/><xml name="manutest_MSstatsConverter"/><xml name="manutest_FileMerger"/><xml name="manutest_Decharger"/><xml name="manutest_PTPredict"/><xml name="manutest_XTandemAdapter"/><xml name="manutest_FeatureFinderMetabo"/><xml name="manutest_CruxAdapter"/><xml name="manutest_OpenSwathConfidenceScoring"/><xml name="manutest_PrecursorIonSelector"/><xml name="manutest_ConsensusMapNormalizer"/><xml name="manutest_RTPredict"/><xml name="manutest_PercolatorAdapter"/><xml name="manutest_ProteinInference"/><xml name="manutest_OpenSwathDecoyGenerator"/><xml name="manutest_TextExporter"/><xml name="manutest_FeatureFinderCentroided"/><xml name="manutest_DecoyDatabase"/><xml name="manutest_SpectraFilterWindowMower"/><xml name="manutest_NoiseFilterGaussian"/><xml name="manutest_MaRaClusterAdapter"/><xml name="manutest_ConsensusID"/><xml name="manutest_FileFilter"/><xml name="manutest_InclusionExclusionListCreator"/><xml name="manutest_FeatureLinkerUnlabeledKD"/><xml name="manutest_NovorAdapter"/><xml name="manutest_OpenPepXL"/><xml name="manutest_SeedListGenerator"/><xml name="manutest_FalseDiscoveryRate"/><xml name="manutest_OpenPepXLLF"/><xml name="manutest_SpecLibSearcher"/><xml name="manutest_IDConflictResolver"/><xml name="manutest_MRMMapper"/><xml name="manutest_OMSSAAdapter"/><xml name="manutest_ExternalCalibration"/><xml name="manutest_PeakPickerHiRes"/><xml name="manutest_MascotAdapter"/><xml name="manutest_FeatureFinderMultiplex"/><xml name="manutest_MetaProSIP"/><xml name="manutest_FuzzyDiff"/><xml name="manutest_TargetedFileConverter"/><xml name="manutest_MapAlignerIdentification"/><xml name="manutest_IDRTCalibration"/><xml name="manutest_MRMTransitionGroupPicker"/><xml name="manutest_RTModel"/><xml name="manutest_OpenSwathAssayGenerator"/><xml name="manutest_IDSplitter"/><xml name="manutest_OpenSwathMzMLFileCacher"/><xml name="manutest_HighResPrecursorMassCorrector"/><xml name="manutest_OpenSwathChromatogramExtractor"/><xml name="manutest_OpenSwathAnalyzer"/><xml name="manutest_FeatureLinkerUnlabeled"/><xml name="manutest_CompNovoCID"/><xml name="manutest_DTAExtractor"/><xml name="manutest_FileInfo"/><xml name="manutest_MapAlignerSpectrum"/><xml name="manutest_IsobaricAnalyzer"/><xml name="manutest_LowMemPeakPickerHiRes"/><xml name="manutest_MyriMatchAdapter"/><xml name="manutest_InternalCalibration"/><xml name="manutest_TOFCalibration"/><xml name="manutest_MSGFPlusAdapter"/><xml name="manutest_PTModel"/><xml name="manutest_InspectAdapter"/><xml name="manutest_SpectraFilterSqrtMower"/><xml name="manutest_SimpleSearchEngine"/><xml name="manutest_PeakPickerWavelet"/><xml name="manutest_MapNormalizer"/><xml name="manutest_IDScoreSwitcher"/><xml name="manutest_FeatureLinkerLabeled"/><xml name="manutest_MapRTTransformer"/><xml name="manutest_RNPxlSearch"/><xml name="manutest_PrecursorMassCorrector"/><xml name="manutest_MapAlignerPoseClustering"/><xml name="manutest_MzTabExporter"/><xml name="manutest_BaselineFilter"/><xml name="manutest_FeatureFinderMRM"/><xml name="manutest_MascotAdapterOnline"/><xml name="manutest_DatabaseFilter"/><xml name="manutest_ProteinResolver"/><xml name="manutest_OpenSwathFeatureXMLToTSV"/><xml name="manutest_FidoAdapter"/><xml name="manutest_AccurateMassSearch"/><xml name="manutest_CompNovo"/><xml name="manutest_LowMemPeakPickerHiResRandomAccess"/><xml name="manutest_OpenSwathRTNormalizer"/><xml name="manutest_PeptideIndexer"/><xml name="manutest_CometAdapter"/><xml name="manutest_NoiseFilterSGolay"/><xml name="manutest_MSFraggerAdapter"/><xml name="manutest_SpectraSTSearchAdapter"/><xml name="manutest_SequestAdapter"/><xml name="manutest_FeatureFinder"/><xml name="manutest_LuciphorAdapter"/><xml name="manutest_GNPSExport"/><xml name="manutest_Epifany"/><xml name="manutest_NucleicAcidSearchEngine"/><xml name="manutest_QualityControl"/><xml name="manutest_FeatureFinderMetaboIdent"/><xml name="manutest_RNAMassCalculator"/><xml name="manutest_MapAlignerTreeGuided"/><xml name="manutest_IDMassAccuracy"/><xml name="manutest_ProteomicsLFQ"/><xml name="manutest_IDDecoyProbability"/><xml name="manutest_DigestorMotif"/><xml name="manutest_DatabaseSuitability"/><xml name="manutest_StaticModification"/></macros>