Fix pretrained checkpoint paths for cardinal transformer in finetunin…

…g commands
creatis-myriad · Jul 7, 2024 · 0085824 · 0085824
1 parent 072f419
commit 0085824
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/didactic/scripts/experiments.sh b/didactic/scripts/experiments.sh
@@ -22,9 +22,9 @@ CARDIAC_MULTIMODAL_REPR_PATH=/home/local/USHERBROOKE/pain5474/data/didactic/resu
 
 # finetune
 # tabular data only
-CARDIAC_MULTIMODAL_REPR_PATH=/home/local/USHERBROOKE/pain5474/data/didactic/results/multirun/cardiac-multimodal-representation COMET_PROJECT_NAME=didactic-finetune didactic-runner -m hydra/launcher=joblib hydra.launcher.n_jobs=16 +experiment=finetune trainer.enable_progress_bar=False task/data=tab-selec,tab-no-echo-data,tab-all task.contrastive_loss_weight=0,0.2 task.cls_token=False,True task.ordinal_mode=False,True '+trial=range(10)' 'ckpt="/home/local/USHERBROOKE/pain5474/data/didactic/multirun/cardiac-multimodal-representation/pretrain/data=${hydra:runtime.choices.task/data}/encoder=cardinal-ft-transformer,cross_blocks=0,time_series_tokenizer=${hydra:runtime.choices.task/time_series_tokenizer/model}/cls_token=${task.cls_token}/+trial=${trial}.ckpt"' >>$HOME/data/didactic/results/finetune,data=tabular-only.log 2>&1
+CARDIAC_MULTIMODAL_REPR_PATH=/home/local/USHERBROOKE/pain5474/data/didactic/results/multirun/cardiac-multimodal-representation COMET_PROJECT_NAME=didactic-finetune didactic-runner -m hydra/launcher=joblib hydra.launcher.n_jobs=16 +experiment=finetune trainer.enable_progress_bar=False task/data=tab-selec,tab-no-echo-data,tab-all task.contrastive_loss_weight=0,0.2 task.cls_token=False,True task.ordinal_mode=False,True '+trial=range(10)' 'ckpt="/home/local/USHERBROOKE/pain5474/data/didactic/results/multirun/cardiac-multimodal-representation/pretrain/data=${hydra:runtime.choices.task/data}/encoder=cardinal-ft-transformer,cross_blocks=0,time_series_tokenizer=${hydra:runtime.choices.task/time_series_tokenizer/model}/cls_token=${task.cls_token}/+trial=${trial}/cardinal_default.ckpt"' >>$HOME/data/didactic/results/finetune,data=tabular-only.log 2>&1
 # tabular + time-series data
-CARDIAC_MULTIMODAL_REPR_PATH=/home/local/USHERBROOKE/pain5474/data/didactic/results/multirun/cardiac-multimodal-representation COMET_PROJECT_NAME=didactic-finetune didactic-runner -m hydra/launcher=joblib hydra.launcher.n_jobs=16 +experiment=finetune trainer.enable_progress_bar=False task/data=tab-selec+ts,tab-no-echo-data+ts,tab-all+ts task.contrastive_loss_weight=0,0.2 task/time_series_tokenizer/model=linear-embedding,transformer task.cls_token=False,True task.ordinal_mode=False,True '+trial=range(10)' 'ckpt="/home/local/USHERBROOKE/pain5474/data/didactic/multirun/cardiac-multimodal-representation/pretrain/data=${hydra:runtime.choices.task/data}/encoder=cardinal-ft-transformer,cross_blocks=0,time_series_tokenizer=${hydra:runtime.choices.task/time_series_tokenizer/model}/cls_token=${task.cls_token}/+trial=${trial}.ckpt"' >>$HOME/data/didactic/results/finetune,data=tabular+ts.log 2>&1
+CARDIAC_MULTIMODAL_REPR_PATH=/home/local/USHERBROOKE/pain5474/data/didactic/results/multirun/cardiac-multimodal-representation COMET_PROJECT_NAME=didactic-finetune didactic-runner -m hydra/launcher=joblib hydra.launcher.n_jobs=16 +experiment=finetune trainer.enable_progress_bar=False task/data=tab-selec+ts,tab-no-echo-data+ts,tab-all+ts task.contrastive_loss_weight=0,0.2 task/time_series_tokenizer/model=linear-embedding,transformer task.cls_token=False,True task.ordinal_mode=False,True '+trial=range(10)' 'ckpt="/home/local/USHERBROOKE/pain5474/data/didactic/results/multirun/cardiac-multimodal-representation/pretrain/data=${hydra:runtime.choices.task/data}/encoder=cardinal-ft-transformer,cross_blocks=0,time_series_tokenizer=${hydra:runtime.choices.task/time_series_tokenizer/model}/cls_token=${task.cls_token}/+trial=${trial}/cardinal_default.ckpt"' >>$HOME/data/didactic/results/finetune,data=tabular+ts.log 2>&1
 
 # records-xgb
 CARDIAC_MULTIMODAL_REPR_PATH=/home/local/USHERBROOKE/pain5474/data/didactic/results/multirun/cardiac-records-stratification python ~/remote/didactic/didactic/tasks/cardiac_records_stratification.py -m hydra/launcher=joblib hydra.launcher.n_jobs=10 task/data=tab-selec,tab-no-echo-data,tab-all ~task.time_series_attrs task.target_attr=ht_severity '+trial=range(10)' >>$HOME/data/didactic/results/records-xgb.log 2>&1