| ################################################# patho-bench ################################################# | |
| ################################################# patho-bench ################################################# | |
| ################################################# patho-bench ################################################# | |
| # # datasets=("BC" "BCNB" "BOEHMK" "BRACS" "CPTAC" "EBRAINS" "HANCOCK" "HERROI" "IMP" "MBC" "MUT-HET-RCC" "NADT" "NAT" "OVARIAN" "PANDA") # 완료 15 | |
| # # datasets=("SR386" "VISIOMEL") # 미완료 0 | |
| datasets=("SR386") | |
| for dataset in "${datasets[@]}"; do | |
| python -m exaonepath.create_patches.merge_process_lists \ | |
| --input-dir /dsbio/pathology/patches/patho-bench/${dataset}-patches-256-based_on_x20-ver-0.3 \ | |
| --output-dir /dsbio/pathology/patches/patho-bench/${dataset}-patches-256-based_on_x20-ver-0.3 | |
| done | |
| ################################################# closed benchmark ################################################# | |
| ################################################# closed benchmark ################################################# | |
| ################################################# closed benchmark ################################################# | |
| # datasets=("BMS" "SMC_ilwon" "UPMC") | |
| # datasets=("UPMC") | |
| # for dataset in "${datasets[@]}"; do | |
| # python -m exaonepath.create_patches.merge_process_lists \ | |
| # --input-dir /dsbio/pathology/patches/closed-bench/${dataset}-patches-256-based_on_x20-ver-0.3 \ | |
| # --output-dir /dsbio/pathology/patches/closed-bench/${dataset}-patches-256-based_on_x20-ver-0.3 | |
| # done | |
| # # # TCGA | |
| # python create_patches/merge_process_lists.py \ | |
| # --input-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/TCGA_ALL_FFPE_WSI-patches-256-based_on_x20-ver-0.3 \ | |
| # --output-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/TCGA_ALL_FFPE_WSI-patches-256-based_on_x20-ver-0.3 | |
| # # # GTEx | |
| # python create_patches/merge_process_lists.py \ | |
| # --input-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/GTEx_data-patches-256-based_on_x20-ver-0.3 \ | |
| # --output-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/GTEx_data-patches-256-based_on_x20-ver-0.3 | |
| # # SMC | |
| # python create_patches/merge_process_lists.py \ | |
| # --input-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/SMC_ilwon-patches-256-based_on_x20-ver-0.3 \ | |
| # --output-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/SMC_ilwon-patches-256-based_on_x20-ver-0.3 | |
| # # CPTAC | |
| # python create_patches/merge_process_lists.py \ | |
| # --input-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/CPTAC_ALL_WSI-patches-256-based_on_x20-ver-0.3 \ | |
| # --output-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/CPTAC_ALL_WSI-patches-256-based_on_x20-ver-0.3 | |
| # # BMS | |
| # python create_patches/merge_process_lists.py \ | |
| # --input-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/BMS-patches-256-based_on_x20-ver-0.3 \ | |
| # --output-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/BMS-patches-256-based_on_x20-ver-0.3 | |
| # # BCNB | |
| # python create_patches/merge_process_lists.py \ | |
| # --input-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/BCNB-patches-256-based_on_x20-ver-0.3 \ | |
| # --output-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/BCNB-patches-256-based_on_x20-ver-0.3 | |
| # # UPMC_LUAD | |
| # python create_patches/merge_process_lists.py \ | |
| # --input-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/UPMC_LUAD_WSI-patches-256-based_on_x20-ver-0.3 \ | |
| # --output-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/UPMC_LUAD_WSI-patches-256-based_on_x20-ver-0.3 | |
| # # UPMC | |
| # python create_patches/merge_process_lists.py \ | |
| # --input-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/UPMC-patches-256-based_on_x20-ver-0.3 \ | |
| # --output-dir /dsbio/js.yun/projects/dino-distillation/create_patches/results/UPMC-patches-256-based_on_x20-ver-0.3 |