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Minor fix to path convention (#323)
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finetuning/livecell/evaluation/evaluate_amg.sbatch

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@@ -9,4 +9,4 @@
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source activate sam
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python evaluate_amg.py -c /scratch/usr/nimanwai/micro-sam/checkpoints/vit_b/livecell_sam/best.pt \
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-m vit_b \
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-e /scratch/projects/nim00007/sam/experiments/new_models/specialists/livecell/vit_b/
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-e /scratch/projects/nim00007/sam/experiments/new_models/specialists/lm/livecell/vit_b/

finetuning/livecell/evaluation/evaluate_instance_segmentation.sbatch

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@@ -9,4 +9,4 @@
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source activate sam
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python evaluate_instance_segmentation.py -c /scratch/usr/nimanwai/micro-sam/checkpoints/vit_h/livecell_sam/best.pt \
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-m vit_h \
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-e /scratch/projects/nim00007/sam/experiments/new_models/specialists/livecell/vit_h/
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-e /scratch/projects/nim00007/sam/experiments/new_models/specialists/lm/livecell/vit_h/

finetuning/livecell/evaluation/iterative_prompting.sbatch

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@@ -9,4 +9,4 @@
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source activate sam
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python iterative_prompting.py -c /scratch/usr/nimanwai/micro-sam/checkpoints/vit_h/livecell_sam/best.pt \
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-m vit_h \
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-e /scratch/projects/nim00007/sam/experiments/new_models/specialists/livecell/vit_h/
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-e /scratch/projects/nim00007/sam/experiments/new_models/specialists/lm/livecell/vit_h/

finetuning/livecell/evaluation/precompute_embeddings.sbatch

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@@ -11,4 +11,4 @@ source ~/.bashrc
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micromamba activate main
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python precompute_embeddings.py -c /scratch/usr/nimanwai/micro-sam/checkpoints/vit_b/lm_generalist_sam/best.pt \
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-m vit_b \
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-e /scratch/projects/nim00007/sam/experiments/new_models/generalists/livecell/vit_b/
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-e /scratch/projects/nim00007/sam/experiments/new_models/generalists/lm/livecell/vit_b/

finetuning/livecell/evaluation/submit_evaluation.py

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@@ -74,7 +74,7 @@ def submit_slurm():
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env_name = "sam"
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model_type = "vit_b"
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checkpoint = f"/scratch/usr/nimanwai/micro-sam/checkpoints/{model_type}/lm_generalist_sam/best.pt"
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experiment_folder = f"/scratch/projects/nim00007/sam/experiments/new_models/generalists/livecell/{model_type}/"
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experiment_folder = f"/scratch/projects/nim00007/sam/experiments/new_models/generalists/lm/livecell/{model_type}/"
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all_setups = ["precompute_embeddings", "evaluate_amg", "evaluate_instance_segmentation", "iterative_prompting"]
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for current_setup in all_setups:

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