recon_fname = ptr.gen_recon_fname(ecats, arda_dir, real_tracer)
orig_exists, orig_notes = ptr.glob_file('%s/*notes*.txt'%(arda_dir))
copy = ptr.check_recon_notes(recon_fname, orig_notes)
print 'same',same, 'copy reconnotes', copy, arda_dir
logging.info(arda_dir)
logging.info('Same Files (%s): %s'%(same, arda_dir))
logging.info('%s Copy ReconNotes: %s (exists: %s)'%(subid, copy,
has_recon))
if not same: #copy ecats to new dir
logging.info('NEW COPY: %s, %s'%(subid,
os.path.split(arda_dir)[-1]))
ptr.update_outdir(arda_dir, clobber=True)
ptr.copy_files_withdate(ecats, arda_dir)
if copy and has_recon:
ptr.copy_file_withdate(reconnotes_rsync, os.path.join(arda_dir,
recon_fname))
# clean out known problem subid
ardascans = [ x for x in ardascans if not 'B07-275' in x]
if len(ardascans) > 0:
logfile = os.path.join(logdir,'logs',
'ARDAERROR-%s_%s%s.log'%(tracer,
__file__,
cleantime))
fid = open(logfile, 'w+')
for item in ardascans:
fid.write('%s,\n'%item)
fid.close()
print logfile
if copy:
os.system('rm %s/*'%(outdir))
ptr.copy_files_withdate(tgzs, outdir)
logging.info('COPIED TGZ: '%(tgzs))
# check for recon notes in sync
recon_notes = bio.check_reconnotes(recon)
if recon_notes is None:
# nothing to copy
continue
# check for recon notes in arda
_ , rn_fname = os.path.split(recon_notes)
globstr = os.path.join(outdir, rn_fname)
arda_reconnotes = utils.find_single_file(globstr)
# copy recon notes if new or missing
if arda_reconnotes is None:
ptr.copy_file_withdate(recon_notes, outdir)
logging.info('No recon_notes in arda, copy %s'%(recon_notes))
else:
same_recon_notes = ptr.check_dates([recon_notes],
[arda_reconnotes])
if not same_recon_notes:
ptr.copy_file_withdate(recon_notes, outdir)
logging.info('DIFFERENT recon notes, copy %s'%(recon_notes))
else:
logging.info('%s same in arda, NO COPY'%(recon_notes))
# check for timing file
timing_file = bio.check_pib_timing(recon)
if not timing_file is None:
logging.info('copied %s'%timing_file)