git-annex in sfmig@Sofias-MacBook-Pro-SWC.local

README.md

@@ -10,3 +10,5 @@ python get_sha256_hashes.py
 ```
 
 2- Commit the changes to the GIN repository
+
+3- Copy the generated files-registry.txt file to the crabs repository

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/artifacts/slurm_array.5313275-0.gpu-sr670-22.err

@@ -1,268 +0,0 @@
-  Running command git clone --filter=blob:none --quiet https://github.com/SainsburyWellcomeCentre/crabs-exploration.git /tmp/pip-req-build-bazt9owa
-GPU available: True (cuda), used: True
-TPU available: False, using: 0 TPU cores
-HPU available: False, using: 0 HPUs
-`Trainer(limit_train_batches=1.0)` was configured so 100% of the batches per epoch will be used..
-LOCAL_RANK: 0 - CUDA_VISIBLE_DEVICES: [MIG-GPU-242780f9-d85c-a72f-1605-da1bd3f1cb87/4/0]
-
-  | Name  | Type       | Params | Mode 
----------------------------------------------
-0 | model | FasterRCNN | 43.3 M | train
----------------------------------------------
-43.0 M    Trainable params
-225 K     Non-trainable params
-43.3 M    Total params
-173.025   Total estimated model params size (MB)
-SLURM auto-requeueing enabled. Setting signal handlers.
-INFO:root:Average Precision (val): 0.3862,Average Recall (val): 0.3210
-INFO:root:Average Precision (val): 0.8594,Average Recall (val): 0.5508
-INFO:root:Average Precision (val): 0.9418,Average Recall (val): 0.5881
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-INFO:root:Average Precision (val): 0.9779,Average Recall (val): 0.8248
-INFO:root:Average Precision (val): 0.9779,Average Recall (val): 0.8428
-`Trainer.fit` stopped: `max_epochs=250` reached.

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/artifacts/test_val_transform.txt

@@ -1,4 +0,0 @@
-Compose(
-      ToImage()
-      ToDtype(scale=True)
-)

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/artifacts/train_transform.txt

@@ -1,13 +0,0 @@
-Compose(
-      ToImage()
-      GaussianBlur(kernel_size=[5, 9], sigma=[0.1, 5.0])
-      ColorJitter(brightness=(0.5, 1.5), hue=(-0.3, 0.3))
-      RandomHorizontalFlip(p=0.5)
-      RandomRotation(degrees=[-10.0, 10.0], interpolation=InterpolationMode.NEAREST, expand=False, fill=0)
-      RandomAdjustSharpness(p=0.5, sharpness_factor=0.5)
-      RandomAutocontrast(p=0.5)
-      RandomEqualize(p=0.5)
-      ClampBoundingBoxes()
-      SanitizeBoundingBoxes(min_size=1.0)
-      ToDtype(scale=True)
-)

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/checkpoints/last.ckpt

@@ -1 +0,0 @@
-/annex/objects/MD5-s173409994--45a9fdeeb81565cef021614375ab4f92

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/meta.yaml

@@ -1,15 +0,0 @@
-artifact_uri: file:///home/sminano/swc/project_crabs/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/artifacts
-end_time: 1719710783505
-entry_point_name: ''
-experiment_id: '317777717624044570'
-lifecycle_stage: active
-run_id: 40b1688a76d94bd08175cb380d0a6e0e
-run_name: run_slurm_5313275_0
-run_uuid: 40b1688a76d94bd08175cb380d0a6e0e
-source_name: ''
-source_type: 4
-source_version: ''
-start_time: 1719590377088
-status: 3
-tags: []
-user_id: sminano

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/metrics/train_loss

@@ -1,250 +0,0 @@
-1719590878372 1.2403081108670715 0
-1719591369902 0.8497726282942186 1
-1719591854729 0.8006971571423592 2
-1719592323340 0.7629560795399027 3
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test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/cli_args/accelerator

@@ -1 +0,0 @@
-gpu

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/cli_args/annotation_files

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-[]

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/cli_args/checkpoint_path

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-None

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/cli_args/config_file

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-/ceph/zoo/users/sminano/crabs_data_augmentation_configs/01_config_all_data_augmentation.yaml

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/cli_args/dataset_dirs

@@ -1 +0,0 @@
-['/home/sminano/swc/project_crabs/data/sep2023-full']

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/cli_args/experiment_name

@@ -1 +0,0 @@
-Sept2023_data_augm

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/cli_args/fast_dev_run

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-False

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/cli_args/limit_train_batches

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-1.0

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/cli_args/log_data_augmentation

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-True

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/cli_args/mlflow_folder

@@ -1 +0,0 @@
-/ceph/zoo/users/sminano/ml-runs-all/ml-runs

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/cli_args/no_data_augmentation

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-False

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/cli_args/optuna

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-False

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/cli_args/seed_n

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test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/batch_size_test

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-4

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/batch_size_train

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-4

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/batch_size_val

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-4

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/checkpoint_saving/copy_as_mlflow_artifacts

@@ -1 +0,0 @@
-True

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/checkpoint_saving/every_n_epochs

@@ -1 +0,0 @@
-50

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/checkpoint_saving/keep_last_n_ckpts

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-5

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/checkpoint_saving/save_last

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-True

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/checkpoint_saving/save_weights_only

@@ -1 +0,0 @@
-True

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/clamp_and_sanitize_bboxes/min_size

@@ -1 +0,0 @@
-1.0

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/color_jitter/brightness

@@ -1 +0,0 @@
-0.5

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/color_jitter/hue

@@ -1 +0,0 @@
-0.3

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/gaussian_blur/kernel_size

@@ -1 +0,0 @@
-[5, 9]

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/gaussian_blur/sigma

@@ -1 +0,0 @@
-[0.1, 5.0]

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/iou_threshold

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-0.1

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/learning_rate

@@ -1 +0,0 @@
-5e-05

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/n_epochs

@@ -1 +0,0 @@
-250

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/num_classes

@@ -1 +0,0 @@
-2

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/num_workers

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-4

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/random_adjust_sharpness/p

@@ -1 +0,0 @@
-0.5

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/random_adjust_sharpness/sharpness_factor

@@ -1 +0,0 @@
-0.5

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/random_autocontrast/p

@@ -1 +0,0 @@
-0.5

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/random_equalize/p

@@ -1 +0,0 @@
-0.5

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/random_horizontal_flip/p

@@ -1 +0,0 @@
-0.5

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/random_rotation/degrees

@@ -1 +0,0 @@
-[-10.0, 10.0]

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/train_fraction

@@ -1 +0,0 @@
-0.8

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/val_over_test_fraction

@@ -1 +0,0 @@
-0.5

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/config/wdecay

@@ -1 +0,0 @@
-5e-05

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/optuna_log

@@ -1 +0,0 @@
-False

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/path_to_checkpoints

@@ -1 +0,0 @@
-file:/home/sminano/swc/project_crabs/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/checkpoints

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/slurm_array_task_id

@@ -1 +0,0 @@
-0

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/params/slurm_job_id

@@ -1 +0,0 @@
-5313275

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/tags/mlflow.note.content

@@ -1 +0,0 @@
-all data augmentation, after refactor

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/tags/mlflow.runName

@@ -1 +0,0 @@
-run_slurm_5313275_0

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/tags/mlflow.source.name

@@ -1 +0,0 @@
-/tmp/crabs-dev-42-5313275/bin/train-detector

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/tags/mlflow.source.type

@@ -1 +0,0 @@
-LOCAL

test_data/ml-runs/317777717624044570/40b1688a76d94bd08175cb380d0a6e0e/tags/mlflow.user

@@ -1 +0,0 @@
-sminano

test_data/ml-runs/317777717624044570/meta.yaml

@@ -1,6 +0,0 @@
-artifact_location: file:///home/sminano/swc/project_crabs/ml-runs/317777717624044570
-creation_time: 1719590313340
-experiment_id: '317777717624044570'
-last_update_time: 1719590313340
-lifecycle_stage: active
-name: Sept2023_data_augm