def get_data_dictionary(path_to_clinical_data_folder):
"""Temporary function to get DataDictionary_NIFD_2017.10.18.xlsx file.
See https://github.com/aramis-lab/clinica/issues/122 for details.
Args:
path_to_clinical_data_folder: Path to clinical data folder.
Returns:
Path to 'DataDictionary_NIFD_2017.10.18.xlsx' file.
"""
import os
from clinica.utils.inputs import RemoteFileStructure, get_file_from_server
local_nifd_dictionary = os.path.join(
path_to_clinical, "DataDictionary_NIFD_2017.10.18.xlsx")
if os.path.exists(local_nifd_dictionary):
path_to_nifd_dictionary = local_nifd_dictionary
else:
NIFD_DICTIONNARY = RemoteFileStructure(
filename="DataDictionary_NIFD_2017.10.18.xlsx",
url=
"https://aramislab.paris.inria.fr/files/data/databases/converters/",
checksum=
"e75b23a9f4dad601463f48031cfc00e1180e4877d0bebbdfd340fdbcbacab5cb",
)
path_to_nifd_dictionary = get_file_from_server(NIFD_DICTIONNARY)
return path_to_nifd_dictionary
def get_atlas_labels():
from clinica.utils.inputs import RemoteFileStructure, get_file_from_server
NEUROMORPHOMETRICS_PARC = RemoteFileStructure(
filename="atlas-Neuromorphometrics_dseg.nii.gz",
url=
"https://aramislab.paris.inria.fr/files/software/cat12/CAT12-Atlases/",
checksum=
"19a50136cd2f8a14357a19ad8a1dc4a2ecb6beb3fc16cb5441f4f2ebaf64a9a5",
)
return get_file_from_server(NEUROMORPHOMETRICS_PARC)
def get_atlas_labels():
from clinica.utils.inputs import RemoteFileStructure, get_file_from_server
LPBA40_PARC = RemoteFileStructure(
filename="atlas-LPBA40_dseg.nii.gz",
url=
"https://aramislab.paris.inria.fr/files/software/cat12/CAT12-Atlases/",
checksum=
"20826b572bbbdbcdbf28bbd3801dc0c2fed28d1e54bc4fd5027e64ccc6d50374",
)
return get_file_from_server(LPBA40_PARC)
def get_atlas_labels():
from clinica.utils.inputs import RemoteFileStructure, get_file_from_server
HAMMERS_PARC = RemoteFileStructure(
filename="atlas-Hammers_dseg.nii.gz",
url=
"https://aramislab.paris.inria.fr/files/software/cat12/CAT12-Atlases/",
checksum=
"c034a7bce2dcab390a0b72f4e7d04769eb3fe5b990d0e18d89b0ce73339a5376",
)
return get_file_from_server(HAMMERS_PARC)