Phase 1C: Static XES end-to-end YAML execution

[lg345]

Parent: #82

Scope

Wire everything together: write a YAML config for the static XES workflow, run it through the Pipeline class, and verify results match the current XESBatchAnalysisRotation.primary_analysis_static output.

Deliverables

1. Example YAML — A complete config file reproducing the XSpect_P23820.py example workflow:

   experiment:
     hutch: xcs
     experiment_id: xcsp23820
     lcls_run: 21
   
   data:
     runs: [162-181, 183-190]
     keys:
       tt/ttCorr: time_tool_correction
       epics/lxt_ttc: lxt_ttc
       enc/lasDelay: encoder
       ipm4/sum: ipm
       tt/AMPL: time_tool_ampl
     detector_keys:
       epix_1/ROI_0_area:
         name: epix
         rois: [[0, -1]]
         combine_rois: true
   
   pipeline:
     - step: filter_shots
       on: xray
       filter_key: ipm
       threshold: 1.0e3
     - step: union_shots
       on: epix
       filters: [xray, xray]
     - step: filter_detector_adu
       on: epix
       threshold: [30, 9909]
     - step: hit_finding
       on: epix
       cutoff_multiplier: 1
     - step: reduce_detector_shots
       on: epix
     - step: patch_pixels
       on: epix
       pixels: [225, 350, 351, 352, 353, 354, 355, 356, 436, 437]
       mode: average
     - step: rotate
       on: epix
       angle: 1.3
     - step: reduce_detector_spatial
       on: epix
       rois: [[0, -1]]
       combine: true
   
   reduction:
     - step: combine_runs
   
   output:
     format: hdf5
     path: ./results/

2. Validation test — Run both old and new paths on the same data, compare outputs numerically.

3. model/von_hamos.py — Move vonHamos class to model layer.

Acceptance criteria

• Pipeline.from_yaml("xcsp23820_static.yaml").run(cores=16, batch_size=2000) produces results matching the old XESBatchAnalysisRotation.primary_analysis_static path
• Execution log captures all step statuses
• Results saved to HDF5 at specified path

[lg345]

Completed by the YAML pipeline architecture merge (PR #100, merged into master).