Commit 38498d69 authored by Andrei-Claudiu Roibu's avatar Andrei-Claudiu Roibu 🖥
Browse files

adding svd/pca analysis file settings

parent 9a98d8cc
[ENCODER]
first_kernel_size = 9
first_convolution_stride = 1
input_channels = 1
output_channels = 32
max_number_channels = 128
kernel_size = 3
convolution_stride = 2
number_of_encoder_blocks = 5
transformer_blocks_stride = 1
dropout = 0
custom_weight_reset_flag = False
[DECODER]
number_of_encoder_blocks = 5
kernel_classification = 9
pool_kernel_size = 3
pool_stride = 2
dropout = 0
final_activation = 'tanh'
number_of_classes = 1
custom_weight_reset_flag = False
[MISC]
save_model_directory = "saved_models"
[TRAINING]
pretrained_network_name = "VA2-1.pth.tar"
[MAPPING]
load_using_path = True
trained_model_path = "saved_models/VA2-1.pth.tar"
prediction_output_path = "SVD_VA2-1_predictions"
prediction_output_database_name = "output_test_data.h5"
prediction_reconstructed_output_database_name = "output_reconstructed_test_data.h5"
svd_output_database_name = "output_svd_data.pkl"
data_directory = "/well/win-biobank/projects/imaging/data/data3/subjectsAll/"
mapping_data_file = "dMRI/autoptx_preproc/tractsNormSummed.nii.gz"
mapping_targets_file = "fMRI/rfMRI_25.dr/dr_stage2.nii.gz"
data_list_reduced = "datasets/test_reduced.txt"
data_list_all = "datasets/test_all.txt"
evaluate_all_data = False
brain_mask_path = "utils/MNI152_T1_2mm_brain_mask.nii.gz"
rsfmri_mean_mask_path = "utils/mean_dr_stage2.nii.gz"
dmri_mean_mask_path = "utils/mean_tractsNormSummed_downsampled.nii.gz"
mean_mask_path = "utils/mean_dr_stage2.nii.gz"
regression_factors = "datasets/regression_weights.pkl"
mean_regression_flag = True
mean_regression_all_flag = True
mean_subtraction_flag = False
scale_volumes_flag = True
normalize_flag = False
minus_one_scaling_flag = True
negative_flag = False
outlier_flag = True
shrinkage_flag = False
hard_shrinkage_flag = False
crop_flag = True
device = 0
exit_on_error = True
cross_domain_x2x_flag = False
cross_domain_y2y_flag = False
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