def check_mask_dim(img, ota):
mask_name = odi.bppath + 'reproj_mask_' + ota + '.' + img.stem()
reproj_img = odi.reprojpath + 'reproj_' + ota + '.' + img.stem()
bgsub_img = odi.bgsubpath + 'bgsub_' + ota + '.' + img.stem()
mask_header = iraf.imhead(mask_name, Stdout=1)[0]
mask_dim1, mask_dim2 = get_dims(mask_header)
reproj_header = iraf.imhead(reproj_img, Stdout=1)[0]
reproj_dim1, reproj_dim2 = get_dims(reproj_header)
bgsub_header = iraf.imhead(bgsub_img, Stdout=1)[0]
bgsub_dim1, bgsub_dim2 = get_dims(bgsub_header)
dim_status = ((mask_dim1 == reproj_dim1 == bgsub_dim1) &
(mask_dim2 == reproj_dim2 == bgsub_dim2))
if dim_status == False:
tqdm.write('mask and image dimensions to not match for: ', img, ota)
tqdm.write('mask: {:5d} {:5d}'.format(mask_dim1, mask_dim2))
tqdm.write('reproj: {:5d} {:5d}'.format(reproj_dim1, reproj_dim2))
tqdm.write('bgsub: {:5d} {:5d}'.format(bgsub_dim1, bgsub_dim2))
else:
tqdm.write('dimension test passed')
tqdm.write('mask: {:5d} {:5d}'.format(mask_dim1, mask_dim2))
tqdm.write('reproj: {:5d} {:5d}'.format(reproj_dim1, reproj_dim2))
tqdm.write('bgsub: {:5d} {:5d}'.format(bgsub_dim1, bgsub_dim2))
return dim_status
def check_mask_dim(img,ota):
mask_name = odi.bppath+'reproj_mask_'+ota+'.'+img.stem()
reproj_img = odi.reprojpath+'reproj_'+ota+'.'+img.stem()
bgsub_img = odi.bgsubpath+'bgsub_'+ota+'.'+img.stem()
mask_header = iraf.imhead(mask_name,Stdout=1)[0]
mask_dim1, mask_dim2 = get_dims(mask_header)
reproj_header = iraf.imhead(reproj_img,Stdout=1)[0]
reproj_dim1, reproj_dim2 = get_dims(reproj_header)
bgsub_header = iraf.imhead(bgsub_img,Stdout=1)[0]
bgsub_dim1, bgsub_dim2 = get_dims(bgsub_header)
dim_status = ((mask_dim1 == reproj_dim1 == bgsub_dim1) &
(mask_dim2 == reproj_dim2 == bgsub_dim2))
if dim_status == False:
tqdm.write('mask and image dimensions to not match for: ', img, ota)
tqdm.write('mask: {:5d} {:5d}'.format(mask_dim1,mask_dim2))
tqdm.write('reproj: {:5d} {:5d}'.format(reproj_dim1,reproj_dim2))
tqdm.write('bgsub: {:5d} {:5d}'.format(bgsub_dim1,bgsub_dim2))
else:
tqdm.write('dimension test passed')
tqdm.write('mask: {:5d} {:5d}'.format(mask_dim1,mask_dim2))
tqdm.write('reproj: {:5d} {:5d}'.format(reproj_dim1,reproj_dim2))
tqdm.write('bgsub: {:5d} {:5d}'.format(bgsub_dim1,bgsub_dim2))
return dim_status
def get_HeaderValue(self, Item, Fit_Address, Digitalize = False):
Header = iraf.imhead(Fit_Address, long='yes', Stdout=1)
for i in range(len(Header)):
key = Header[i].replace(' ','').split('=')[0]
if key == Item:
value = Header[i].replace(' ','').split('=')[1]
value = value.split('/')[0]
if Digitalize == True:
return float(value)
else:
return value
def run_imhead(imageFilename):
'''
invokes the iraf method imhead on the given image filename
parses the result to be returned as a list of string values
parameter imageFilename -
the full path filename of the image on which to invoke imexam
returns -
a string list of image info in the form
[galaxy_id, filt, cam_number, image_number, frame_height, frame_width]
'''
imhead_return = iraf.imhead(imageFilename, Stdout=1)[0].strip()
imhead_info = imhead_return.split("/")[-1]
directory_location = imhead_return.replace(imhead_info, "")
# "VELA01_a0.110_0006317__skipir_CAMERA0-BROADBAND_F125W_simulation.fits[600,600][real]:"
frame_dimensions = imhead_info.split("[")[1].replace("]", "").split(",")
# ["600","600"]
frame_width = frame_dimensions[0]
# "600"
frame_height = frame_dimensions[1]
# "600"
galaxy_id = imhead_info.split("_")[0]
#"VELA01"
filt = imhead_info.split("_")[6]
#"F125W"
image_number = imhead_info.split("_")[1].split(".")[1]
# "110"
cam_str = imhead_info.split("_")[5].split("-")[0]
# "CAMERA0"
#these statements accomodate for camera numbers greater than 9
digits = ["1","2","3","4","5","6","7","8","9"]
#determines if camera number is greater than 10, does not allow greater than 99
# ex: "CAMERA0" -> cam_str[-2] = "M"
# ex: "CAMERA12" -> cam_str[-2] = "1"
if cam_str[-2] in digits:
cam_number = cam_str[-2:]
else:
cam_number = cam_str[-1]
#print cam_number
return [directory_location, galaxy_id, filt, cam_number, image_number, frame_height, frame_width]
def get_HeaderValue(Item, Fit_Address, Digitalize=False):
Header = iraf.imhead(Fit_Address, long="yes", Stdout=1)
for i in range(len(Header)):
key = Header[i].replace(" ", "").split("=")[0]
if key == Item:
value = Header[i].replace(" ", "").split("=")[1]
value = value.split("/")[0]
if Digitalize == True:
return float(value)
else:
return value
def get_files(fileparm):
'''In iraf cl, sometimes a pattern or a file list is given instead of a
proper name. Python doesn't handle that very well, so here's a cludge to
get it to work using imhead.'''
result = iraf.imhead(images=fileparm, longheader=0, Stdout=1)
if len(result) == 0:
return None
if result[0] == '' or result[0] == 'no images found':
return None
out = []
for res in result:
out.append(file_pat.search(res).group(1))
return out
rotoff['MMIRS'] = -90
fitsfiles = sys.argv[1]
mode = sys.argv[2]
fitsfile = average(fitsfiles)
if fitsfile.find('/') is -1:
fitsfile = "%s/%s" % (os.getcwd(), fitsfile)
os.system("rm -f back.fits")
iraf.images()
iraf.images.imfit()
iraf.images.imutil()
#iraf.crutil()
if mode == 'MMIRS':
flipme = True
headers = iraf.imhead(fitsfile, long='yes', Stdout=1)
for line in headers:
if re.match('WAT', line):
flipme = False
if flipme:
print "not flipped"
iraf.imsurfit(fitsfile, 'back.fits', xorder=2, yorder=2, upper=2, lower=2, ngrow=15)
iraf.imarith(fitsfile, '-', 'back.fits', fitsfile)
iraf.imcopy(fitsfile + '[*,*]', fitsfile)
# iraf.cosmicrays(fitsfile, fitsfile, interactive='no')
else:
print "flipped"
else:
def get_head(image):
s = iraf.imhead(image, long='yes', Stdout=1)
for i in s:
print i
def test_imhead(self):
out = six.StringIO()
iraf.imhead('dev$pix', Stdout=out)
assert out.getvalue() == 'dev$pix[512,512][short]: m51 B 600s\n'
import os
import sys
from astropy.utils.data import get_pkg_data_contents
from distutils.spawn import find_executable
IS_PY2 = sys.version_info < (3, 0)
DATA_DIR = os.path.join(os.path.dirname(__file__), 'data')
HAS_PYRAF_EXEC = bool(find_executable('pyraf'))
try:
from pyraf import iraf
iraf.imhead("dev$pix", Stdout=os.devnull, Stderr=os.devnull)
except: # Only this can catch the error!
HAS_IRAF = False
else:
HAS_IRAF = True
def diff_outputs(fin, reffile):
"""Compare output lines with reference file."""
if isinstance(fin, list):
lines = fin
else:
with open(fin) as f:
lines = f.readlines()
ans = get_pkg_data_contents(reffile).split(os.linesep)
all_bad_lines = []
for x, y in zip(lines, ans):
def test_imhead(self):
out = six.StringIO()
iraf.imhead('dev$pix', Stdout=out)
assert out.getvalue() == 'dev$pix[512,512][short]: m51 B 600s\n'
import os
import sys
from astropy.utils.data import get_pkg_data_contents
from distutils.spawn import find_executable
IS_PY2 = sys.version_info < (3, 0)
DATA_DIR = os.path.join(os.path.dirname(__file__), 'data')
HAS_PYRAF_EXEC = bool(find_executable('pyraf'))
try:
from pyraf import iraf
iraf.imhead("dev$pix", Stdout=os.devnull, Stderr=os.devnull)
except: # Only this can catch the error!
HAS_IRAF = False
else:
HAS_IRAF = True
def diff_outputs(fin, reffile):
"""Compare output lines with reference file."""
if isinstance(fin, list):
lines = fin
else:
with open(fin) as f:
lines = f.readlines()
ans = get_pkg_data_contents(reffile).split(os.linesep)
all_bad_lines = []
files.append(filelist)
else:
files.extend(open(filelist).read().split())
if len(files) == 0:
raise FileError("Error: No images in filelists. Exiting")
print files
#Display images
for i, afile in enumerate(files):
if not isfile(afile):
raise FileError("Error: Image %s does not exist" % afile)
iraf.display.frame = i + 1
iraf.display(afile)
iraf.imhead(afile)
############################### Aligning ##########################################################
if do_align and len(files) > 1:
#Determine reference image
if not reference:
print 'Image number , Header info'
for k, afile in enumerate(files):
head = iraf.imhead(afile, Stdout=1)
print str(k) + ' ', head[0]
print green(
"Choose which image to use as reference, by typing in it's number."
)
print green(
"Note that due to a bug in iraf.imalign you should use the smallest"
)
def get_head(image):
s=iraf.imhead(image,long='yes', Stdout=1)
for i in s:
print i