Commit 5713426b authored by Andrei-Claudiu Roibu's avatar Andrei-Claudiu Roibu 🖥
Browse files

created settings files

parent a66ad3c8
[DATA]
data_directory = "/well/win-biobank/projects/imaging/data/data3/subjectsAll/"
data_split_flag = True
train_percentage = 90
validation_percentage = 5
train_data_file = "/dMRI/autoptx_preproc/tractsNormSummed.nii.gz"
train_output_targets = "/fMRI/rfMRI_25.dr/dr_stage2.nii.gz"
test_data_file = "/dMRI/autoptx_preproc/tractsNormSummed.nii.gz"
test_target_file = "/fMRI/rfMRI_25.dr/dr_stage2.nii.gz"
[TRAINING]
training_batch_size = 5
test_batch_size = 5
use_pre_trained = False
pre_trained_path = "saved_models/preTrained.pth.tar"
experiment_name = "experiment_name"
learning_rate = 1e-4
optimizer_beta = (0.9, 0.999)
optimizer_epsilon = 1e-8
optimizer_weigth_decay = 1e-5
number_of_epochs = 10
loss_log_period = 50
learning_rate_scheduler_step_size = 3
learning_rate_scheduler_gamma = 1e-1
use_last_checkpoint = True
final_model_output_file = "finetuned_alldata.pth.tar"
[NETWORK]
kernel_heigth = 5
kernel_width = 5
kernel_classification = 1
input_channels = 1
output_channels = 64
convolution_stride = 1
dropout = 0.2
pool_kernel_size = 2
pool_stride = 2
#Valid options: upconv, upsample, unpool
up_mode = "upconv"
number_of_classes = 1
[MISC]
save_model_directory = "saved_models"
model_name = "BrainMapper"
logs_directory = "logs"
device = 1
experiments_directory = "experiments"
[EVAL]
trained_model_path = "saved_models/model.pth.tar"
data_directory = "/well/win-biobank/projects/imaging/data/data3/subjectsAll/"
data_file = "/dMRI/autoptx_preproc/tractsNormSummed.nii.gz"
output_targets = "/fMRI/rfMRI_25.dr/dr_stage2.nii.gz"
data_list = "test.txt"
#Valid options: coronal, sagittal, axial
orientation = "coronal"
saved_predictions_directory = "predictions"
[MAPPING]
trained_model1_path = "path/to/model1"
trained_model2_path = "path/to/model2"
trained_model3_path = "path/to/model3"
data_directory = "path/to/data"
data_list = "path/to/datalist.txt/"
orientation1 = "coronal"
orientation2 = "axial"
orientation3 = "sagittal"
prediction_output_path = "directory-of-saved-predictions"
batch_size = 2
device = 0
exit_on_error = True
number_of_paths = 3
\ No newline at end of file
Supports Markdown
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment