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refactor with with #2

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refactor with with #2

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17 changes: 5 additions & 12 deletions check_for_subject.py
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Original file line number Diff line number Diff line change
Expand Up @@ -7,15 +7,8 @@
dest_project = sys.argv[1]
subject = sys.argv[2]

xnat = XnatUtils.InterfaceTemp()

# Subject variables
dest_subject = xnat.select(
'/projects/{0}/subjects/{1}'.format(dest_project,subject) )

if dest_subject.exists():
xnat.disconnect()
raise Exception('Subject {0} exists in project {1}'.format(subject,dest_project))
sys.exit(1)

xnat.disconnect()
with XnatUtils.InterfaceTemp() as xnat:
dest_subject = xnat.select(f'/projects/{dest_project}/subjects/{subject}')
if dest_subject.exists():
raise Exception(f'Subject {subject} exists in project {dest_project}')
sys.exit(1)
62 changes: 27 additions & 35 deletions set_vars.py
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Original file line number Diff line number Diff line change
Expand Up @@ -8,39 +8,31 @@
dest_project = sys.argv[2]
subject = sys.argv[3]

xnat = XnatUtils.InterfaceTemp()

# Subject variables
source_subject = xnat.select(
'/projects/{0}/subjects/{1}'.format(source_project,subject) )
dest_subject = xnat.select(
'/projects/{0}/subjects/{1}'.format(dest_project,subject) )

dob = source_subject.attrs.get('xnat:demographicData/dob')
gender = source_subject.attrs.get('xnat:demographicData/gender')
handedness = source_subject.attrs.get('xnat:demographicData/handedness')
race = source_subject.attrs.get('xnat:demographicData/race')
#sid = source_subject.attrs.get("xnat:subjectData/fields/field[name='id']/field")
sid = source_subject.xpath("/xnat:Subject/xnat:fields/xnat:field[@name='id']/text()[2]")[0]

dest_subject.attrs.set('xnat:subjectData/demographics[@xsi:type=xnat:demographicData]/dob', dob)
dest_subject.attrs.set('xnat:subjectData/demographics[@xsi:type=xnat:demographicData]/gender', gender)
dest_subject.attrs.set('xnat:subjectData/demographics[@xsi:type=xnat:demographicData]/handedness', handedness)
dest_subject.attrs.set('xnat:subjectData/demographics[@xsi:type=xnat:demographicData]/race', race)
dest_subject.attrs.set("xnat:subjectData/fields/field[name='id']/field", sid)

# Session variables
source_session = xnat.select(
'/projects/{0}/subjects/{1}/experiments/{1}'.format(source_project,subject) )
dest_session = xnat.select(
'/projects/{0}/subjects/{1}/experiments/{1}'.format(dest_project,subject) )

sdate = source_session.attrs.get('xnat:mrSessionData/date')
stime = source_session.attrs.get('xnat:mrSessionData/time')
dest_session.attrs.set('xnat:mrSessionData/date',sdate)
dest_session.attrs.set('xnat:mrSessionData/time',stime)


# Clean up
xnat.disconnect()
with XnatUtils.InterfaceTemp() as xnat:

# Subject variables
source_subject = xnat.select(f'/projects/{source_project}/subjects/{subject}')
dest_subject = xnat.select(f'/projects/{dest_project}/subjects/{subject}')

dob = source_subject.attrs.get('xnat:demographicData/dob')
gender = source_subject.attrs.get('xnat:demographicData/gender')
handedness = source_subject.attrs.get('xnat:demographicData/handedness')
race = source_subject.attrs.get('xnat:demographicData/race')
#sid = source_subject.attrs.get("xnat:subjectData/fields/field[name='id']/field")
sid = source_subject.xpath("/xnat:Subject/xnat:fields/xnat:field[@name='id']/text()[2]")[0]

dest_subject.attrs.set('xnat:subjectData/demographics[@xsi:type=xnat:demographicData]/dob', dob)
dest_subject.attrs.set('xnat:subjectData/demographics[@xsi:type=xnat:demographicData]/gender', gender)
dest_subject.attrs.set('xnat:subjectData/demographics[@xsi:type=xnat:demographicData]/handedness', handedness)
dest_subject.attrs.set('xnat:subjectData/demographics[@xsi:type=xnat:demographicData]/race', race)
dest_subject.attrs.set("xnat:subjectData/fields/field[name='id']/field", sid)

# Session variables
source_session = xnat.select(f'/projects/{source_project}/subjects/{subject}/experiments/{subject}')
dest_session = xnat.select(f'/projects/{dest_project}/subjects/{subject}/experiments/{subject}')

sdate = source_session.attrs.get('xnat:mrSessionData/date')
stime = source_session.attrs.get('xnat:mrSessionData/time')
dest_session.attrs.set('xnat:mrSessionData/date',sdate)
dest_session.attrs.set('xnat:mrSessionData/time',stime)