else:
data_min = data[data.nonzero()].min()
return [data_min, data_max]
print 'getting range'
ranges = np.array([get_range(pfile) for pfile in pfiles])
dmin = ranges.min()
dmax = ranges.max()
print 'min=%.4f; max=%.4f' % (dmin, dmax)
###
###
# Surface Viz
for i, pfile in enumerate(pfiles):
print pfile
oprefix = path.join(odir,
"C4_fstats_global_easythresh_surface_scan%i" % (i + 1))
sw = SurfWrap(name=factor,
infile=pfile,
cbar="red-yellow",
outprefix=oprefix)
sw.min = dmin
sw.max = dmax
sw.run(compilation="box")
sw.montage(compilation="stick")
###
from os import path
from surfwrap import SurfWrap
obase = "/home2/data/Projects/CWAS/adhd200_rerun/cwas"
comparisons = ["adhdc_vs_adhdi", "tdc_vs_adhdc", "tdc_vs_adhdi"]
# GLOBAL!
preproc = "global"
for comparison in comparisons:
print "group comparison: %s" % comparison
# Input pfile
distdir = path.join(obase, "%s_rois_random_k3200" % preproc)
mdmrdir = path.join(distdir, "%s_gender+age+iq+mean_FD.mdmr" % comparison)
pfile = path.join(mdmrdir, "log_pvals_%s.nii.gz" % comparison)
# Output oprefix
odir = path.join(mdmrdir, "images")
if not path.exists(odir): os.mkdir(odir)
oprefix = path.join(odir, path.basename(pfile).replace(".nii.gz", ""))
# Surface Viz
sw = SurfWrap(name=comparison, infile=pfile, cbar="red-yellow", outprefix=oprefix)
sw.min = 1.3
sw.run()
# import pysurfer
# pysurfer = reload(pysurfer)
# SurfWrap = pysurfer.SurfWrap
data_max = data.max()
if data_max == 0:
data_min = data_max
else:
data_min = data[data.nonzero()].min()
return [data_min, data_max]
print "getting range"
ranges = np.array([get_range(pfile) for pfile in pfiles])
dmin = ranges[ranges != 0].min()
dmax = ranges[ranges != 0].max()
print "min=%.4f; max=%.4f" % (dmin, dmax)
###
###
# Surface Viz
for i, pfile in enumerate(pfiles):
print pfile
oprefix = path.join(odir, "C2_global_perms_surface_scan%i" % (i + 1))
sw = SurfWrap(name=factor, infile=pfile, cbar="red-yellow", outprefix=oprefix)
sw.min = dmin
sw.max = dmax
sw.run(compilation="box")
sw.montage(compilation="stick")
###
obase = "/home2/data/Projects/CWAS/adhd200_rerun/cwas"
comparisons = ["adhdc_vs_adhdi", "tdc_vs_adhdc", "tdc_vs_adhdi"]
# GLOBAL!
preproc = "global"
for comparison in comparisons:
print "group comparison: %s" % comparison
# Input pfile
distdir = path.join(obase, "%s_rois_random_k3200" % preproc)
mdmrdir = path.join(distdir, "%s_gender+age+iq+mean_FD.mdmr" % comparison)
pfile = path.join(mdmrdir, "log_pvals_%s.nii.gz" % comparison)
# Output oprefix
odir = path.join(mdmrdir, "images")
if not path.exists(odir): os.mkdir(odir)
oprefix = path.join(odir, path.basename(pfile).replace(".nii.gz", ""))
# Surface Viz
sw = SurfWrap(name=comparison,
infile=pfile,
cbar="red-yellow",
outprefix=oprefix)
sw.min = 1.3
sw.run()
# import pysurfer
# pysurfer = reload(pysurfer)
# SurfWrap = pysurfer.SurfWrap
