Replace hardcoded paths with placeholders: run_cellvit_pipeline.sh
Browse files
studies/homophily/code/run_cellvit_pipeline.sh
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@@ -37,7 +37,7 @@ for c in bach bracs breakhis; do
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done # -> $MP_RAW/<COHORT>/tiles_new_graph_dataset_224_cellvit_nucls_super/*.pt
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echo ">>> [2/2] stat-reviewer follow-up (slide-clustered bootstrap CI, baselines, distance bands)"
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$PY fat_tail_followup.py # reads MP_raw graphs; writes
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echo "DONE. Then reproduce Report 3 headline numbers from the generated graphs:"
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echo " bash ../reproduce_report3_fattail_cellvit.sh"
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done # -> $MP_RAW/<COHORT>/tiles_new_graph_dataset_224_cellvit_nucls_super/*.pt
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echo ">>> [2/2] stat-reviewer follow-up (slide-clustered bootstrap CI, baselines, distance bands)"
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$PY fat_tail_followup.py # reads MP_raw graphs; writes <SCRATCH_ROOT>/fat_tail_results/<cohort>/followup_analysis.json
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echo "DONE. Then reproduce Report 3 headline numbers from the generated graphs:"
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echo " bash ../reproduce_report3_fattail_cellvit.sh"
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