def main(): folder = '20200831-mht' full_target = 'G:/FTP_IMPORTS' + '/' + folder #oak_target = 'X:/data/Brezovec/2P_Imaging/imports' #oak_target = 'X:/data/Ashley2/imports' oak_target = 'X:/data/Max/ImagingData/Bruker/imports' extensions_for_oak_transfer = ['.nii', '.csv', '.xml', 'json'] # last 4 chars flow.start_oak_transfer(full_target, oak_target, extensions_for_oak_transfer)
def main():
print('Starting download of fictrac and visual stim files.')
ftp_host = ftputil.FTPHost(ip, username, passwd)
all_fictrac_files = ftp_host.listdir(fictrac_source)
# of the form:
#fictrac-20181116_172030.log
#fictrac-20181116_172038-debug.avi
#fictrac-20181116_172038-raw.avi
#fictrac-20181116_172030.dat
# Should download all fictrac files
# today = datetime.today().strftime('%Y%m%d')
for file in all_fictrac_files:
if file[-4:] in allowable_extensions:
target_path = fictrac_target + '/' + file
source_path = fictrac_source + '/' + file
if os.path.isfile(target_path):
print('File already exists. Skipping. {}'.format(target_path))
else:
print('Downloading {}'.format(target_path))
ftp_host.download(source_path, target_path)
# Copy from visual
flow.start_copy_recursive_ftp(ftp_host, visual_source, visual_target, ip,
username, passwd)
# Send fictrac files to oak
flow.start_oak_transfer(fictrac_target,
oak_target,
allowable_extensions=None,
add_flag=False)
# Send visual files to oak
flow.start_oak_transfer(visual_target,
oak_target,
allowable_extensions=None,
add_flag=False)
print('Finished upload of fictrac and visual stim files to oak.')
def main(args):
''' mode options: tiff_to_nii, to_oak, tiff_to_nii_to_oak
'''
mode = args[0]
output = args[1]
folder = args[2]
#oak_target = 'X:/data/Brezovec/2P_Imaging/imports'
oak_target = 'X:/data/Ashley2/imports'
extensions_for_oak_transfer = ['.nii', '.csv', '.xml', 'json',
'tiff'] # needs to for 4 char
full_target = os.path.join('F:/ftp_imports', folder)
if mode == 'tiff_to_nii':
flow.start_convert_tiff_collections(full_target)
elif mode == 'to_oak':
flow.start_oak_transfer(full_target, oak_target,
extensions_for_oak_transfer)
elif mode == 'tiff_to_nii_to_oak':
if output == 'tiff':
flow.convert_tiff_collections_to_stack(full_target)
elif output == 'nii':
flow.start_convert_tiff_collections(full_target)
else:
print('Invalid mode')
flow.start_oak_transfer(full_target, oak_target,
extensions_for_oak_transfer)
elif mode == 'raw_to_oak':
flow.convert_raw_to_tiff(full_target)
flow.start_convert_tiff_collections(full_target)
flow.start_oak_transfer(full_target, oak_target,
extensions_for_oak_transfer)
else:
print('Invalid mode: {}'.format(mode))
print('Must be tiff_to_nii, to_oak, or tiff_to_nii_to_oak')
import dataflow as flow full_target = 'G:/ftp_imports/20200613' oak_target = 'X:/data/Brezovec/2P_Imaging/imports' #oak_target = 'X:/data/Ashley2/imports' extensions_for_oak_transfer = ['.nii', '.csv', '.xml', 'json'] # last 4 chars flow.convert_raw_to_tiff(full_target) ######################################### ### Convert tiff to nii or tiff stack ### ######################################### flow.start_convert_tiff_collections(full_target) ####################### ### Transfer to Oak ### ####################### flow.start_oak_transfer(full_target, oak_target, extensions_for_oak_transfer)