dki-questions
dki-questions > RE: dke_parameters cannot Access Image Files
Sep 26, 2019 07:09 PM | Andrew Taylor - MUSC
RE: dke_parameters cannot Access Image Files
Hello,
In this case, two combinations of inputs that would work are
studydir = '/Applications/Mac64/'; % root folder for data from all study subjects
subject_list = {'dki_example_data_nifti'}; % cell array of subject sub-folders within the root folder studydir
preprocess_options_fn_nii='4d.nii';
OR
studydir = '/Applications/Mac64/dki_example_data_nifti''; % root folder for data from all study subjects
subject_list = {''}; % cell array of subject sub-folders within the root folder studydir
preprocess_options_fn_nii='4d.nii';
This is because DKE will concatenate these three variables to create a full path to your nii images. This was intended for convenience.
If you wanted to run DKE on multiple datasets, you put the following in your parameters file:
studydir = '/Applications/Mac64/'; % root folder for data from all study subjects
subject_list = {'dki_example_data_nifti','dki_example_data_subject2'}; % cell array of subject sub-folders within the root folder studydir
preprocess_options_fn_nii='4d.nii';
This would require the files '/Applications/Mac64/dki_example_data_nifti/4d.nii' and '/Applications/Mac64/dki_example_data_subject2/4d.nii' both to exist.
-Andrew
P.S. You DON'T have to worry about getting the slashes right where path segments from multiple variables are joined e.g. /Applications/Mac64/ and /Applications/Mac64 would both work for "study_dir". All other slashes, however, matter.
In this case, two combinations of inputs that would work are
studydir = '/Applications/Mac64/'; % root folder for data from all study subjects
subject_list = {'dki_example_data_nifti'}; % cell array of subject sub-folders within the root folder studydir
preprocess_options_fn_nii='4d.nii';
OR
studydir = '/Applications/Mac64/dki_example_data_nifti''; % root folder for data from all study subjects
subject_list = {''}; % cell array of subject sub-folders within the root folder studydir
preprocess_options_fn_nii='4d.nii';
This is because DKE will concatenate these three variables to create a full path to your nii images. This was intended for convenience.
If you wanted to run DKE on multiple datasets, you put the following in your parameters file:
studydir = '/Applications/Mac64/'; % root folder for data from all study subjects
subject_list = {'dki_example_data_nifti','dki_example_data_subject2'}; % cell array of subject sub-folders within the root folder studydir
preprocess_options_fn_nii='4d.nii';
This would require the files '/Applications/Mac64/dki_example_data_nifti/4d.nii' and '/Applications/Mac64/dki_example_data_subject2/4d.nii' both to exist.
-Andrew
P.S. You DON'T have to worry about getting the slashes right where path segments from multiple variables are joined e.g. /Applications/Mac64/ and /Applications/Mac64 would both work for "study_dir". All other slashes, however, matter.
Threaded View
Title | Author | Date |
---|---|---|
Rees Ridout | Sep 26, 2019 | |
Andrew Taylor | Sep 26, 2019 | |
Emilie McKinnon | Sep 26, 2019 | |
Rees Ridout | Sep 26, 2019 | |
Andrew Taylor | Sep 26, 2019 | |
Rees Ridout | Sep 26, 2019 | |
Andrew Taylor | Sep 26, 2019 | |
Nian Wang | Sep 26, 2019 | |
Emilie McKinnon | Oct 24, 2019 | |
Emilie McKinnon | Sep 26, 2019 | |