Mercurial > repos > kls286 > chap_test_20230328

diff examples/saxswaxs/pipeline.yaml @ 0:cbbe42422d56 draft

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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
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/examples/saxswaxs/pipeline.yaml	Tue Mar 28 15:07:30 2023 +0000
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+pipeline:
+
+  # Download example data
+  - reader.URLReader:
+      url: https://gitlab01.classe.cornell.edu/api/v4/projects/308/repository/files/saxswaxs%2fdata.tar/raw?ref=main
+      headers:
+        PRIVATE-TOKEN: # your token here
+  - processor.URLResponseProcessor
+  - writer.ExtractArchiveWriter:
+      filename: examples/saxswaxs
+
+  # Collect map data
+  - reader.YAMLReader:
+      filename: examples/saxswaxs/map_1d.yaml
+      schema: MapConfig
+  - processor.MapProcessor
+  - writer.NexusWriter:
+      filename: examples/saxswaxs/saxswaxs_map.nxs
+      force_overwrite: true
+
+  # Integrate map detetcor data
+  - reader.MultipleReader:
+      readers:
+        - YAMLReader:
+            filename: examples/saxswaxs/map_1d.yaml
+            schema: MapConfig
+        - YAMLReader:
+            filename: examples/saxswaxs/integration_saxs_azimuthal.yaml
+            schema: IntegrationConfig
+  - processor.IntegrateMapProcessor
+  - writer.NexusWriter:
+      filename: examples/saxswaxs/saxs_azimuthal_integrated.nxs
+      force_overwrite: true