def main(args):
# Load fits file
cfg_lines, data_files, frametype, usrdata, setups = parse_pypeit_file(args.file, runtime=False)
# Get the raw fits file name
sciIdx = get_science_frame(usrdata)
fname = data_files[sciIdx]
# Load the spectrograph
cfg = ConfigObj(cfg_lines)
spectrograph_name = cfg['rdx']['spectrograph']
spectrograph = load_spectrograph(spectrograph_name, ifile=data_files[sciIdx])
msgs.info('Loaded spectrograph {0}'.format(spectrograph.spectrograph))
spectrograph_cfg_lines = spectrograph.config_specific_par(fname).to_config()
par = PypeItPar.from_cfg_lines(cfg_lines=spectrograph_cfg_lines, merge_with=cfg_lines)
# Get the master key
file_base = os.path.basename(fname)
ftdict = dict({file_base: 'science'})
fitstbl = PypeItMetaData(spectrograph, par, files=[data_files[sciIdx]], usrdata=Table(usrdata[sciIdx]), strict=True)
fitstbl.finalize_usr_build(ftdict, setups[0])
mkey = fitstbl.master_key(0, det=args.det)
# Load the frame data
rawimage, _, _, datasec, _ = spectrograph.get_rawimage(fname, args.det)
rawimage = procimg.trim_frame(rawimage, datasec < 1)
frame = spectrograph.orient_image(rawimage, args.det)
# Set paths
if par['calibrations']['caldir'] == 'default':
mdir = os.path.join(par['rdx']['redux_path'], 'Masters')
else:
mdir = par['calibrations']['caldir']
if not os.path.exists(mdir):
mdir_base = os.path.join(os.getcwd(), os.path.basename(mdir))
msgs.warn('Master file dir: {0} does not exist. Using {1}'.format(mdir, mdir_base))
mdir = mdir_base
# Load the tslits_dict
trc_file = os.path.join(mdir, MasterFrame.construct_file_name('Edges', mkey)) + '.gz'
tslits_dict = edgetrace.EdgeTraceSet.from_file(trc_file).convert_to_tslits_dict()
# Derive an appropriate output filename
prefix = os.path.splitext(file_base)
if prefix[1] == ".gz":
prefix = os.path.splitext(prefix[0])[0]
else:
prefix = prefix[0]
outname = "{0:s}_skyregions.fits".format(prefix)
# Finally, initialise the GUI
skyreg = SkySubGUI.initialize(args.det, frame, tslits_dict, outname=outname, runtime=False, printout=True)
# Get the results
skyreg.get_result()
def main(args):
import os
from pypeit.core.gui.skysub_regions import SkySubGUI
from pypeit.core import flexure
from pypeit.scripts import utils
from pypeit import masterframe
from pypeit.images import buildimage
# Generate a utilities class
info = utils.Utilities(None, pypeit_file=args.file, det=args.det)
# Interactively select a science frame
sciIdx = info.select_science_frame(standard=args.standard)
# Load the spectrograph and parset
info.load_spectrograph_parset(sciIdx)
# Get the master key and directory
mdir, mkey = info.get_master_dirkey()
# Load the image data
frame = info.load_frame(sciIdx)
# Load the slits information
slits = utils.get_slits(mkey, mdir)
spat_flexure = None
if args.flexure:
spat_flexure = flexure.spat_flexure_shift(frame, slits)
# Derive an appropriate output filename
file_base = info.get_basename(sciIdx)
prefix = os.path.splitext(file_base)
if prefix[1] == ".gz":
outname = os.path.splitext(prefix[0])[0]
else:
outname = prefix[0]
ext = buildimage.SkyRegions.master_file_format
regfile = masterframe.construct_file_name(buildimage.SkyRegions, master_key=mkey,
master_dir=mdir)
regfile = regfile.replace(".{0:s}".format(ext), "_{0:s}.{1:s}".format(outname, ext))
#outname = "{0:s}/MasterSkyRegions_{1:s}_{2:s}.fits.gz".format(mdir, mkey, outname)
# Finally, initialise the GUI
skyreg = SkySubGUI.initialize(args.det, frame, slits, info.spectrograph.pypeline,
info.spectrograph.name, outname=regfile,
overwrite=args.overwrite, runtime=False, printout=True,
initial=args.initial, flexure=spat_flexure)
# Get the results
skyreg.get_result()
def main(args):
# Generate a utilities class
info = utils.Utilities(args.file, args.det)
# Interactively select a science frame
sciIdx = info.select_science_frame()
# Load the spectrograph and parset
info.load_spectrograph_parset(sciIdx)
# Get the master key and directory
mdir, mkey = info.get_master_dirkey()
# Load the image data
frame = info.load_frame(sciIdx)
# Load the slits information
slits = utils.get_slits(mkey, mdir)
spat_flexure = None
if args.flexure:
spat_flexure = flexure.spat_flexure_shift(frame, slits)
# Derive an appropriate output filename
file_base = info.get_basename(sciIdx)
prefix = os.path.splitext(file_base)
if prefix[1] == ".gz":
outname = os.path.splitext(prefix[0])[0]
else:
outname = prefix[0]
outname = "{0:s}/MasterSkyRegions_{1:s}_{2:s}.fits.gz".format(
mdir, mkey, outname)
# Finally, initialise the GUI
skyreg = SkySubGUI.initialize(args.det,
frame,
slits,
info.spectrograph.pypeline,
outname=outname,
overwrite=args.overwrite,
runtime=False,
printout=True,
initial=args.initial,
flexure=spat_flexure)
# Get the results
skyreg.get_result()