Mercurial > repos > kls286 > chap_test_20230328
diff examples/edd/pipeline.yaml @ 0:cbbe42422d56 draft
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline/tree/galaxy commit 1401a7e1ae007a6bda260d147f9b879e789b73e0-dirty
| author | kls286 |
|---|---|
| date | Tue, 28 Mar 2023 15:07:30 +0000 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/examples/edd/pipeline.yaml Tue Mar 28 15:07:30 2023 +0000 @@ -0,0 +1,47 @@ +pipeline: + + # Download example data + - reader.URLReader: + url: https://gitlab01.classe.cornell.edu/api/v4/projects/308/repository/files/edd%2fdata.tar/raw?ref=main + headers: + PRIVATE-TOKEN: # your token here + - processor.URLResponseProcessor + - writer.ExtractArchiveWriter: + filename: examples/edd + + # Calibrate detector + - reader.YAMLReader: + filename: examples/edd/ceria_calibration_config.yaml + schema: MCACeriaCalibrationConfig + - processor.MCACeriaCalibrationProcessor + - writer.YAMLWriter: + filename: examples/edd/ceria_calibrated.yaml + force_overwrite: true + + # Gather calibrated detector data + - reader.MultipleReader: + readers: + - YAMLReader: + filename: examples/edd/map.yaml + schema: MapConfig + - YAMLReader: + filename: examples/edd/ceria_calibrated.yaml + schema: MCACeriaCalibrationConfig + - processor.MCADataProcessor + - writer.NexusWriter: + filename: examples/edd/map_detector_data.nxs + force_overwrite: true + + # Compute sample strain map + - reader.MultipleReader: + readers: + - NexusReader: + filename: examples/edd/map_detector_data.nxs + - YAMLReader: + filename: examples/edd/strain_analysis_config.yaml + schema: StrainAnalysisConfig + - processor.StrainAnalysisProcessor + - writer.YAMLWriter: + filename: examples/edd/map_strain_data.yaml + force_overwrite: true +