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Andrei-Claudiu Roibu
BrainMapper
Commits
38498d69
Commit
38498d69
authored
Oct 19, 2020
by
Andrei-Claudiu Roibu
🖥
Browse files
adding svd/pca analysis file settings
parent
9a98d8cc
Changes
1
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utils/svd_analysis_settings.ini
0 → 100644
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38498d69
[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
\ No newline at end of file
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