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Depmap pipeline reorg 25q3 #443

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Depmap pipeline reorg 25q3 #443

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4e12da8
Reorganized pipeline
naquib314 Oct 24, 2025
0f6f986
Add rows-per-model option to fusion matrix script
naquib314 Oct 22, 2025
b580c56
Update pipeline configs and Docker image references
naquib314 Oct 24, 2025
51b6289
Update README and local_run.sh; remove transform_fusion.py
naquib314 Oct 24, 2025
f558bd0
Centralize pipeline configuration in YAML file
naquib314 Oct 24, 2025
54b8b80
Remove dose replicate reformat pipeline rule
naquib314 Oct 24, 2025
81b32cc
Update preprocessing_pipeline_runner.py
naquib314 Oct 24, 2025
1410e1a
Delete correlation.conseq
naquib314 Oct 24, 2025
37bd927
Delete nonquarterly-processed.conseq
naquib314 Oct 24, 2025
f84bbda
Update reformat_repurposing_data.conseq
naquib314 Oct 24, 2025
f1376e9
Delete xrefs-nonquarterly-unprocessed.conseq
naquib314 Oct 24, 2025
291fa56
Delete filter_repurposing_data.py
naquib314 Oct 24, 2025
5286772
Delete reformat_dose_response_curve_params_repurposing_secondary.py
naquib314 Oct 24, 2025
b99fff8
Delete process_taiga_pulled_aggregated_dose_artifact.py
naquib314 Oct 24, 2025
688ff5f
Consolidate the run_via_container for pipelines
naquib314 Oct 28, 2025
250bfed
Update _run_common.conseq
naquib314 Oct 28, 2025
a774d42
Require environment parameter for local_run.sh
naquib314 Oct 28, 2025
fc32367
Update Celligner docker image and remove dstat_wrapper.py
naquib314 Oct 28, 2025
e3e4eb9
Update Python version and taigapy dependency
naquib314 Oct 28, 2025
0f2b551
Refactor publish pipeline to use RELEASE_PERMANAME
naquib314 Oct 28, 2025
5b2fbd6
Update run_common.conseq
naquib314 Oct 28, 2025
a6fb8cb
Refactor pipeline runners to share common logic
naquib314 Oct 28, 2025
a663bb2
Update data_prep_pipeline_runner.py
naquib314 Oct 30, 2025
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83 changes: 0 additions & 83 deletions analysis-pipeline/Dockerfile
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12 changes: 0 additions & 12 deletions analysis-pipeline/README.md
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1 change: 0 additions & 1 deletion analysis-pipeline/image-name
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119 changes: 0 additions & 119 deletions analysis-pipeline/jenkins-run-pipeline.sh
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