Exemple #1
0
import RunQA
import CheckSubject
#from subfnFindFiles import * 
from db_connect_main import db_connect_main
#Optional FreeSurfer
#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)
    
Exemple #2
0
import RunQA
import CheckSubject
#from subfnFindFiles import * 
from db_connect_main import db_connect_main
#Optional FreeSurfer
#from ManageFreesurfer.FS_Study import FS_Study
#import run_freesurfer

print "Reading RANN Study"
study = Study('/share/studies/RANN', 'RANN')
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]:11140', 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."
Exemple #3
0
import CheckSubject
#from subfnFindFiles import *
from db_connect_main import db_connect_main
#Optional FreeSurfer
#from ManageFreesurfer.FS_Study import FS_Study
#import run_freesurfer

print "Reading RANN Study"
study = Study('/share/studies/RANN', 'RANN')
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]:11140',
    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')
Exemple #4
0
import CheckSubject
#from subfnFindFiles import *
from db_connect_main import db_connect_main
#Optional FreeSurfer
#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='******',