#from ManageFreesurfer.FS_Study import FS_Study
#import run_freesurfer
print "Reading CogRes Study"
study = Study('/share/studies/CogRes', 'CogRes')
os.chdir(study.path)
studydata = databin()
studydata.maintainer = 'Nikhil Chandra'
studydata.maintainer_email = '*****@*****.**'
studydata.dcmqr_object = dcmqr_wrapper(dcmqr_path='dcmqr', dcm4chee_inst='[email protected]:11112', dcmqr_inst='[email protected]:11139', dcmrcv_inst='CogRes')
#studydata.dcmqr_args_list = [studydata.dcmqr_object.get_dcmqr_args(PatientName='*COGRES*'),
# studydata.dcmqr_object.get_dcmqr_args(PatientName='*BAY0596*')]
studydata.dcmqr_args_list = [studydata.dcmqr_object.get_dcmqr_args(PatientName='*COGRES*')]
studydata.db_connection = db_connect(host='156.145.15.135', port=3306, user='******', passwd='ticabl', db='MRIQualityControl')
studydata.db_connection_main = db_connect_main(host='156.145.15.135', port=3306, user='******', passwd='ticabl', db='cnsdivdb')
format_CSVs(['CSV/Subject_List/CogRes_Subjects.csv'], 'CSV/Subject_List/ref_list.csv', accepted_headings=['MRI1', 'MRI2', 'MRI3', 'PET'])
studydata.ref_csv = CSV_Ref(os.path.join(study.path, 'CSV', 'Subject_List', 'ref_list.csv'))
dcmrcv_port='11114'
#studydata.fs_study = FS_Study(os.path.join(study.path, 'FreeSurfer'), '/usr/local/aleksey/freesurfer/freesurfer5_1', fsIDRE='^P[0-9]{8}_S[0-9]{4}$')
def check_AE_port():
Str="dcmecho "+studydata.dcmqr_object.dcmrcv_inst+"@10.115.15.198:"+dcmrcv_port
RET=os.system(Str)
if RET>0:
print "WARNING: dcmrcv is not running so no data can be imported."
else:
print "dcmrcv is up and running!!"
return RET
dcmrcv_inst='RANN')
studydata.dcmqr_args_list = [
studydata.dcmqr_object.get_dcmqr_args(PatientName='*RANN_4*')
]
studydata.db_connection = db_connect(host='156.145.15.135',
port=3306,
user='******',
passwd='ticabl',
db='MRIQualityControl')
studydata.db_connection_main = db_connect_main(host='156.145.15.135',
port=3306,
user='******',
passwd='ticabl',
db='cnsdivdb')
format_CSVs(['CSV/Subject_List/RANN_Subjects.csv'],
'CSV/Subject_List/ref_list.csv',
accepted_headings=['MRI1', 'MRI2', 'MRI3'])
studydata.ref_csv = CSV_Ref(
os.path.join(study.path, 'CSV', 'Subject_List', 'ref_list.csv'))
#studydata.fs_study = FS_Study(os.path.join(study.path, 'FreeSurfer'), '/usr/local/aleksey/freesurfer/freesurfer5_1', fsIDRE='^P[0-9]{8}_S[0-9]{4}$')
dcmrcv_port = '11121'
#studydata.fs_study = FS_Study(os.path.join(study.path, 'FreeSurfer'), '/usr/local/aleksey/freesurfer/freesurfer5_1', fsIDRE='^P[0-9]{8}_S[0-9]{4}$')
def check_AE_port():
Str = "dcmecho " + studydata.dcmqr_object.dcmrcv_inst + "@10.115.15.198:" + dcmrcv_port
RET = os.system(Str)
if RET > 0:
print "WARNING: dcmrcv is not running so no data can be imported."
else: