""" DCM Relay Error files """
body += "Begin Error files...\n"
for err in glob(os.path.expanduser('~/dcmrelay/*.err')):
text_lines = []
text_lines.append("Begin %s..." % err)
out, _ = tail(err, n=20)
text_lines.append(out)
text_lines.append("End %s.\n\n" % err)
body += '\n'.join(text_lines)
body += "End Error files.\n"
""" Xnat statistics """
body += "XNAT system statistics...\n"
x = xnat()
body += "# users: %d\n" % len(x.manage.users())
all_projs = x.select.projects().get()
body += "# projects: %d\n" % len(all_projs)
# There's probably a better way to do this, but for now...
all_sessions = []
for p in all_projs:
proj = x.select.project(p)
all_sessions.extend(proj.experiments().get())
body += "# sessions: %d\n" % len(all_sessions)
# We could go deeper into database if we wanted...
body += "Finish at %s" % time.strftime('%H:%M:%S')
to = ['*****@*****.**', '*****@*****.**']
sub = "XNAT Health Check %s" % time.strftime('%a %d %b %Y %H:%M')
mail(to=to, subject=sub, body=body)
# TODO Fix
# We probably are using --force
pass
try:
new_files, message = mirror(xsub.label(), xexp, dcm_dir)
# Make new files only readable to owner and group
[chmod_440(f) for f in new_files]
# Touch touch_file
open(touch_file(top_dir), "w").close()
email_body += "\n".join(new_files)
email_body += message
if args.convert_nii:
email_body += "\n\nDoing DCM --> NII conversion...\n\n"
if new_files:
nii_dir = os.path.join(top_dir, "NIFTI")
if not os.path.isdir(nii_dir):
os.makedirs(nii_dir)
output = dcm_to_nii(new_files[0], nii_dir)
email_body += output
else:
email_body += "No new files to convert\n"
except MirrorError as e:
email_body += "ERROR OCCURED DURING MIRROR FUNCTION\n"
email_body += e.args
else:
# Skip to next subject
pass
if email_body:
email_subject = "%s: Automatic Import Report" % args.project
mail(TO, email_subject, email_body)
