def main():
if len(sys.argv)>1:
ds=sys.argv[1]
else:
usage()
if len(sys.argv)>2:
basedir=sys.argv[2]
if not os.path.exists(basedir):
print 'basedir %s does not exist!'%basedir
sys.exit(1)
else:
basedir='/corral-repl/utexas/poldracklab/openfmri/staged'
sk=load_scankey(os.path.join(basedir,ds,'scan_key.txt'))
TR=sk['TR']
outfile=open('run_qa_%s.sh'%ds,'w')
dsdir=os.path.join(basedir,ds)
for d in os.listdir(dsdir):
if d[0:3]=='sub':
for bd in os.listdir('%s/%s/BOLD/'%(dsdir,d)):
for m in os.listdir('%s/%s/BOLD/%s/'%(dsdir,d,bd)):
if m=='bold_mcf.nii.gz':
root='%s/%s/BOLD/%s/'%(dsdir,d,bd)
outfile.write('fmriqa.py %s/%s %s\n'%(root,m,sk['TR']))
outfile.close()
print 'now launching using:'
print 'launch -s run_qa_%s.sh -n qa -r 00:30:00'%ds
launch_qsub.launch_qsub(script_name='run_qa_%s.sh'%ds,runtime='00:30:00',jobname='%sqa'%ds,email=False)
def main():
if len(sys.argv) > 1:
ds = sys.argv[1]
else:
usage()
if len(sys.argv) > 2:
basedir = sys.argv[2]
if not os.path.exists(basedir):
print "basedir %s does not exist!" % basedir
sys.exit(1)
else:
basedir = "/corral-repl/utexas/poldracklab/openfmri/staged"
sk = load_scankey(os.path.join(basedir, ds, "scan_key.txt"))
TR = sk["TR"]
outfile = open("run_qa_%s.sh" % ds, "w")
dsdir = os.path.join(basedir, ds)
for d in glob.glob(os.path.join(dsdir, "sub*/BOLD/*/bold_mcf.nii.gz")):
outfile.write("fmriqa.py %s %s\n" % (d, sk["TR"]))
outfile.close()
if float(sk["TR"]) < 2:
queue = "largemem"
ncores = 24
print "using largemem queue"
else:
queue = "normal"
ncores = 12
print "now launching using:"
print "launch -s run_qa_%s.sh -n qa -r 00:30:00" % ds
launch_qsub.launch_qsub(
script_name="run_qa_%s.sh" % ds,
runtime="00:30:00",
jobname="%sqa" % ds,
email=False,
queue=queue,
ncores=ncores,
)
def main():
if len(sys.argv) > 1:
ds = sys.argv[1]
else:
usage()
if len(sys.argv) > 2:
basedir = sys.argv[2]
if not os.path.exists(basedir):
print 'basedir %s does not exist!' % basedir
sys.exit(1)
else:
basedir = '/corral-repl/utexas/poldracklab/openfmri/staged'
sk = load_scankey(os.path.join(basedir, ds, 'scan_key.txt'))
TR = sk['TR']
outfile = open('run_qa_%s.sh' % ds, 'w')
dsdir = os.path.join(basedir, ds)
for d in glob.glob(os.path.join(dsdir, 'sub*/BOLD/*/bold_mcf.nii.gz')):
outfile.write('fmriqa.py %s %s\n' % (d, sk['TR']))
outfile.close()
if float(sk['TR']) < 2:
queue = 'largemem'
ncores = 24
print 'using largemem queue'
else:
queue = 'normal'
ncores = 12
print 'now launching using:'
print 'launch -s run_qa_%s.sh -n qa -r 00:30:00' % ds
launch_qsub.launch_qsub(script_name='run_qa_%s.sh' % ds,
runtime='00:30:00',
jobname='%sqa' % ds,
email=False,
queue=queue,
ncores=ncores)
