def test_deimos():
# Raw DEIMOS directory
raw_dir = os.path.join(os.getenv('PYPEIT_DEV'), 'RAW_DATA', 'keck_deimos')
# Get the list of setup directories
setups = glob.glob(os.path.join(raw_dir, '*'))
# Set the output path and *remove if* if it already exists
output_path = os.path.join(os.getcwd(), 'output')
if os.path.isdir(output_path):
shutil.rmtree(output_path)
# Iterate through the setups
for setup in setups:
# Find the relevant pypeit file constructed by hand.
by_hand_pypeit = os.path.join(
os.getenv('PYPEIT_DEV'), 'pypeit_files',
'keck_deimos_{0}.pypeit'.format(os.path.split(setup)[1].lower()))
if not os.path.isfile(by_hand_pypeit):
# It doesn't exist, so assume there is no by-hand pypeit
# file to compare to
continue
# Run pypeit_setup
ps = PypeItSetup.from_file_root(setup,
'keck_deimos',
output_path=output_path)
ps.run(setup_only=True)
# Write the automatically generated pypeit data
pypeit_files = ps.fitstbl.write_pypeit(output_path,
cfg_lines=ps.user_cfg)
# Read the frame types from both the by-hand and automated
# pypeit files
_, _, by_hand_frametypes, _, _ = parse_pypeit_file(by_hand_pypeit,
file_check=False)
_, _, auto_frametypes, _, _ = parse_pypeit_file(pypeit_files[0],
file_check=False)
# For each file in the by-hand list, check that the frame types
# in the automatically generated pypeit file are identical
for f in by_hand_frametypes.keys():
type_list = np.sort(by_hand_frametypes[f].split(','))
if 'science' in type_list or 'standard' in type_list:
# Only ensuring that calibrations are correctly typed
continue
assert f in auto_frametypes.keys(), \
'Frame {0} not automatically parsed for setup {1}.'.format(f, setup)
assert np.array_equal(type_list, np.sort(auto_frametypes[f].split(','))), \
'Frame types differ for file {0} in setup {1}\n'.format(f, setup) \
+ ' By-hand types: {0}'.format(by_hand_frametypes[f]) \
+ ' Automated types: {0}'.format(auto_frametypes[f])
# Clean up after every setup
shutil.rmtree(output_path)
def test_lris_blue_pypeit_overwrite():
f = os.path.join(os.environ['PYPEIT_DEV'],
'pypeit_files/keck_lris_blue_long_400_3400_d560.pypeit')
assert os.path.isfile(f), 'Could not find pypeit file.'
cfg_lines, data_files, frametype, usrdata, setups = parse_pypeit_file(
f, file_check=False)
# Change the dev path
for i in range(len(data_files)):
path_list = data_files[i].split('/')
for j, p in enumerate(path_list):
if p == 'RAW_DATA':
break
data_files[i] = os.path.join(os.environ['PYPEIT_DEV'],
'/'.join(path_list[j:]))
# Read the fits table with and without the user data
spectrograph = load_spectrograph('keck_lris_blue')
par = spectrograph.default_pypeit_par()
fitstbl = PypeItMetaData(spectrograph, par, files=data_files)
fitstbl_usr = PypeItMetaData(spectrograph,
par,
files=data_files,
usrdata=usrdata)
assert fitstbl['target'][
0] == 'unknown', 'Grating name changed in file header'
assert fitstbl_usr['target'][
0] == 'test', 'Grating name changed in pypeit file'
assert fitstbl['target'][0] != fitstbl_usr['target'][0], \
'Fits header value and input pypeit file value expected to be different.'
def load_pypeit(self, pypeit_file=None):
# Load the pypeit file
if pypeit_file is None:
pypeit_file = self.pypeit_file
msgs.info("Loading the PypeIt file: {}".format(pypeit_file))
if self.pypeit_file is not None:
self.cfg_lines, self.data_files, self.frametype, self.usrdata, self.setups, self.sdict =\
parse_pypeit_file(pypeit_file, runtime=False)
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 __init__(self, pypeit_file, det=0):
self.pypeit_file = pypeit_file
self.det = det
self.iFile = None # if a single frame is being used, set the index, otherwise None
self.spectrograph = None
self.par = None
# Load the pypeit file
self.cfg_lines, self.data_files, self.frametype, self.usrdata, self.setups =\
parse_pypeit_file(pypeit_file, runtime=False)
def test_setup_keck_deimos_multiconfig():
root = os.path.join(os.environ['PYPEIT_DEV'], 'RAW_DATA', 'keck_deimos')
files = glob.glob(os.path.join(root, '830G_L_8100', '*fits*'))
files += glob.glob(os.path.join(root, '830G_L_8400', '*fits*'))
output_path = os.path.join(os.getcwd(), 'output')
if os.path.isdir(output_path):
shutil.rmtree(output_path)
os.makedirs(output_path)
ps = pypeitsetup.PypeItSetup(files, spectrograph_name='keck_deimos')
ps.run(setup_only=True, sort_dir=output_path)
# Write the automatically generated pypeit data
pypeit_files = ps.fitstbl.write_pypeit(output_path,
cfg_lines=ps.user_cfg,
write_bkg_pairs=True)
assert len(pypeit_files) == 2, 'Should have created two pypeit files'
# Test the pypeit files for the correct configuration and
# calibration group results
for f, s, c in zip(pypeit_files, ['A', 'B'], ['0', '1']):
# TODO: All of this front-end stuff, pulled from pypeit.py, should
# be put into a function.
# Read the pypeit file
cfg_lines, data_files, frametype, usrdata, setups = parse_pypeit_file(
f, runtime=True)
# Spectrograph
cfg = ConfigObj(cfg_lines)
spectrograph = load_spectrograph(cfg['rdx']['spectrograph'])
# Configuration-specific parameters
for idx, row in enumerate(usrdata):
if 'science' in row['frametype'] or 'standard' in row['frametype']:
break
spectrograph_cfg_lines = spectrograph.config_specific_par(
data_files[idx]).to_config()
# PypeIt parameters
par = PypeItPar.from_cfg_lines(cfg_lines=spectrograph_cfg_lines,
merge_with=cfg_lines)
# Metadata
fitstbl = PypeItMetaData(spectrograph,
par,
files=data_files,
usrdata=usrdata,
strict=True)
fitstbl.finalize_usr_build(frametype, setups[0])
assert np.all(fitstbl['setup'] == s), 'Setup is wrong'
assert np.all(fitstbl['calib'] == c), 'Calibration group is wrong'
# Clean-up
shutil.rmtree(output_path)
def test_setup_made_pypeit_file():
""" Test the .pypeit file(s) made by pypeit_setup
This test depends on the one above
"""
pypeit_file = data_path('shane_kast_blue_A/shane_kast_blue_A.pypeit')
cfg_lines, data_files, frametype, usrdata, setups = parse_pypeit_file(
pypeit_file)
# Test
assert len(data_files) == 2
assert frametype['b1.fits.gz'] == 'arc'
assert setups[0] == 'A'
def test_setup_made_pypeit_file():
""" Test the .pypeit file(s) made by pypeit_setup
This test depends on the one above
"""
pypeit_file = data_path('shane_kast_blue_A/shane_kast_blue_A.pypeit')
cfg_lines, data_files, frametype, usrdata, setups = parse_pypeit_file(pypeit_file)
# Test
assert len(data_files) == 2
assert sorted(frametype['b1.fits.gz'].split(',')) == ['arc', 'tilt']
assert setups[0] == 'A'
# Cleanup
shutil.rmtree(data_path('shane_kast_blue_A'))
def test_lris_blue_pypeit_overwrite():
# JFH The RAW_DATA is at PYPEIT_DEV, but the github DEV suite where
# the pypeit files are at a different path. To fix this, I've just
# made pypeit_files directory in Cooked and copied this file over.
# KBW: I'd prefer that you put symlinks in the github dev suite:
# e.g.:
# cd $PYPEIT_DEV
# ln -s /Volumes/GoogleDrive/Team\ Drives/PHYS-GP-Hennawi/PypeIt/PypeIt-development-suite/RAW_DATA RAW_DATA
# Read the dev suite pypeit file
f = os.path.join(
os.environ['PYPEIT_DEV'],
'Cooked/pypeit_files/keck_lris_blue_long_400_3400_d560.pypeit')
if not os.path.isfile(f):
f = os.path.join(
os.environ['PYPEIT_DEV'],
'pypeit_files/keck_lris_blue_long_400_3400_d560.pypeit')
assert os.path.isfile(f), 'Could not find pypeit file.'
cfg_lines, data_files, frametype, usrdata, setups = parse_pypeit_file(
f, file_check=False)
# Change the dev path
for i in range(len(data_files)):
path_list = data_files[i].split('/')
for j, p in enumerate(path_list):
if p == 'RAW_DATA':
break
data_files[i] = os.path.join(os.environ['PYPEIT_DEV'],
'/'.join(path_list[j:]))
# Read the fits table with and without the user data
spectrograph = load_spectrograph('keck_lris_blue')
par = spectrograph.default_pypeit_par()
fitstbl = PypeItMetaData(spectrograph, par, file_list=data_files)
fitstbl_usr = PypeItMetaData(spectrograph,
par,
file_list=data_files,
usrdata=usrdata)
assert fitstbl['target'][
0] == 'unknown', 'Grating name changed in file header'
assert fitstbl_usr['target'][
0] == 'test', 'Grating name changed in pypeit file'
assert fitstbl['target'][0] != fitstbl_usr['target'][0], \
'Fits header value and input pypeit file value expected to be different.'
def from_pypeit_file(cls, filename):
"""
Instantiate the :class:`PypeitSetup` object using a pypeit file.
Args:
filename (str):
Name of the pypeit file to read. Pypit files have a
specific set of valid formats. A description can be
found :ref:`pypeit_file`.
Returns:
:class:`PypeitSetup`: The instance of the class.
"""
cfg_lines, data_files, frametype, usrdata, setups = parse_pypeit_file(filename)
return cls(data_files, frametype=frametype, usrdata=usrdata, setups=setups,
cfg_lines=cfg_lines, pypeit_file=filename)
def test_read_combid():
# ------------------------------------------------------------------
# In case of failed tests
setup_dir = data_path('setup_files')
if os.path.isdir(setup_dir):
shutil.rmtree(setup_dir)
config_dir = data_path('shane_kast_blue_A')
if os.path.isdir(config_dir):
shutil.rmtree(config_dir)
# ------------------------------------------------------------------
# Generate the pypeit file with the comb_id
droot = data_path('b')
pargs = Setup.parse_args([
'-r', droot, '-s', 'shane_kast_blue', '-c=all', '-b',
'--extension=fits.gz', '--output_path={:s}'.format(data_path(''))
])
Setup.main(pargs)
shutil.rmtree(setup_dir)
pypeit_file = os.path.join(config_dir, 'shane_kast_blue_A.pypeit')
cfg_lines, data_files, frametype, usrdata, setups, _ = parse_pypeit_file(
pypeit_file)
# Get the spectrograph
spectrograph = None
for l in cfg_lines:
if 'spectrograph' in l:
spectrograph = load_spectrograph(l.split(' ')[-1])
break
assert spectrograph is not None, 'Did not appropriately read spectrograph'
# Set the metadata
pmd = PypeItMetaData(spectrograph,
spectrograph.default_pypeit_par(),
files=data_files,
usrdata=usrdata,
strict=False)
indx = pmd['filename'] == 'b27.fits.gz'
assert pmd['comb_id'][indx] == [1], 'Incorrect combination group ID'
assert pmd['comb_id'][np.where(~indx)
[0]][0] == -1, 'Incorrect combination group ID'
shutil.rmtree(config_dir)
def test_pypeit_file():
# Read the PypeIt file
cfg, data, frametype, usrdata, setups, _ \
= util.parse_pypeit_file(data_path('example_pypeit_file.pypeit'), file_check=False)
# Long-winded way of getting the spectrograph name
name = pypeitpar.PypeItPar.from_cfg_lines(
merge_with=cfg)['rdx']['spectrograph']
# Instantiate the spectrograph
spectrograph = load_spectrograph(name)
# Get the spectrograph specific configuration
spec_cfg = spectrograph.default_pypeit_par().to_config()
# Initialize the PypeIt parameters merge in the user config
_p = pypeitpar.PypeItPar.from_cfg_lines(cfg_lines=spec_cfg, merge_with=cfg)
# Test everything was merged correctly
# This is a PypeItPar default that's not changed
#assert p['calibrations']['pinholeframe']['number'] == 0
# These are spectrograph specific defaults
assert _p['fluxcalib'] is not None
# These are user-level changes
assert _p['calibrations']['traceframe']['process']['combine'] == 'median'
assert _p['scienceframe']['process']['n_lohi'] == [8, 8]
def __init__(self, pypeit_file, verbosity=2, overwrite=True, reuse_masters=False, logname=None,
show=False, redux_path=None):
# Load
cfg_lines, data_files, frametype, usrdata, setups = parse_pypeit_file(pypeit_file, runtime=True)
self.pypeit_file = pypeit_file
# Spectrograph
cfg = ConfigObj(cfg_lines)
spectrograph_name = cfg['rdx']['spectrograph']
self.spectrograph = load_spectrograph(spectrograph_name)
# Par
# Defaults
spectrograph_def_par = self.spectrograph.default_pypeit_par()
# Grab a science file for configuration specific parameters
sci_file = None
for idx, row in enumerate(usrdata):
if 'science' in row['frametype']:
sci_file = data_files[idx]
break
# Set
spectrograph_cfg_lines = self.spectrograph.config_specific_par(spectrograph_def_par, sci_file).to_config()
self.par = PypeItPar.from_cfg_lines(cfg_lines=spectrograph_cfg_lines, merge_with=cfg_lines)
# Fitstbl
self.fitstbl = PypeItMetaData(self.spectrograph, self.par, file_list=data_files,
usrdata=usrdata, strict=True)
# The following could be put in a prepare_to_run() method in PypeItMetaData
if 'setup' not in self.fitstbl.keys():
self.fitstbl['setup'] = setups[0]
self.fitstbl.get_frame_types(user=frametype) # This sets them using the user inputs
self.fitstbl.set_defaults() # Only does something if values not set in PypeIt file
self.fitstbl._set_calib_group_bits()
self.fitstbl._check_calib_groups()
# Write .calib file (For QA naming amongst other things)
calib_file = pypeit_file.replace('.pypeit', '.calib')
self.fitstbl.write_calib(calib_file)
# Other Internals
self.logname = logname
self.overwrite = overwrite
# Currently the runtime argument determines the behavior for reuse_masters. There is also a reuse_masters
# parameter in the parset but it is currently ignored.
self.reuse_masters=reuse_masters
self.show = show
# Make the output directories
self.par['rdx']['redux_path'] = os.getcwd() if redux_path is None else redux_path
msgs.info("Setting reduction path to {:s}".format(self.par['rdx']['redux_path']))
paths.make_dirs(self.spectrograph.spectrograph, self.par['calibrations']['caldir'],
self.par['rdx']['scidir'], self.par['rdx']['qadir'],
overwrite=self.overwrite, redux_path=self.par['rdx']['redux_path'])
# Instantiate Calibrations class
self.caliBrate \
= calibrations.MultiSlitCalibrations(self.fitstbl, self.par['calibrations'], self.spectrograph,
redux_path=self.par['rdx']['redux_path'],
reuse_masters=self.reuse_masters,
save_masters=True, write_qa=True,
show=self.show)
# Init
self.verbosity = verbosity
# TODO: I don't think this ever used
self.frame = None
self.det = None
self.tstart = None
self.basename = None
self.sciI = None
self.obstime = None
def __init__(self,
pypeit_file,
verbosity=2,
overwrite=True,
reuse_masters=False,
logname=None,
show=False,
redux_path=None):
# Load
cfg_lines, data_files, frametype, usrdata, setups \
= parse_pypeit_file(pypeit_file, runtime=True)
self.pypeit_file = pypeit_file
# Spectrograph
cfg = ConfigObj(cfg_lines)
spectrograph_name = cfg['rdx']['spectrograph']
self.spectrograph = load_spectrograph(spectrograph_name,
ifile=data_files[0])
msgs.info('Loaded spectrograph {0}'.format(
self.spectrograph.spectrograph))
# --------------------------------------------------------------
# Get the full set of PypeIt parameters
# - Grab a science or standard file for configuration specific parameters
scistd_file = None
for idx, row in enumerate(usrdata):
if ('science' in row['frametype']) or ('standard'
in row['frametype']):
scistd_file = data_files[idx]
break
# - Configuration specific parameters for the spectrograph
if scistd_file is not None:
msgs.info(
'Setting configuration-specific parameters using {0}'.format(
os.path.split(scistd_file)[1]))
spectrograph_cfg_lines = self.spectrograph.config_specific_par(
scistd_file).to_config()
# - Build the full set, merging with any user-provided
# parameters
self.par = PypeItPar.from_cfg_lines(cfg_lines=spectrograph_cfg_lines,
merge_with=cfg_lines)
msgs.info('Built full PypeIt parameter set.')
# Check the output paths are ready
if redux_path is not None:
self.par['rdx']['redux_path'] = redux_path
# TODO: Write the full parameter set here?
# --------------------------------------------------------------
# --------------------------------------------------------------
# Build the meta data
# - Re-initilize based on the file data
msgs.info('Compiling metadata')
self.fitstbl = PypeItMetaData(self.spectrograph,
self.par,
files=data_files,
usrdata=usrdata,
strict=True)
# - Interpret automated or user-provided data from the PypeIt
# file
self.fitstbl.finalize_usr_build(frametype, setups[0])
# --------------------------------------------------------------
# - Write .calib file (For QA naming amongst other things)
calib_file = pypeit_file.replace('.pypeit', '.calib')
self.fitstbl.write_calib(calib_file)
# Other Internals
self.logname = logname
self.overwrite = overwrite
# Currently the runtime argument determines the behavior for
# reuse_masters.
self.reuse_masters = reuse_masters
self.show = show
# Set paths
if self.par['calibrations']['caldir'] == 'default':
self.calibrations_path = os.path.join(
self.par['rdx']['redux_path'], 'Masters')
else:
self.calibrations_path = self.par['calibrations']['caldir']
# Report paths
msgs.info('Setting reduction path to {0}'.format(
self.par['rdx']['redux_path']))
msgs.info('Master calibration data output to: {0}'.format(
self.calibrations_path))
msgs.info('Science data output to: {0}'.format(self.science_path))
msgs.info('Quality assessment plots output to: {0}'.format(
self.qa_path))
# TODO: Is anything written to the qa dir or only to qa/PNGs?
# Should we have separate calibration and science QA
# directories?
# Instantiate Calibrations class
self.caliBrate \
= calibrations.MultiSlitCalibrations(self.fitstbl, self.par['calibrations'],
self.spectrograph,
caldir=self.calibrations_path,
qadir=self.qa_path,
reuse_masters=self.reuse_masters,
show=self.show)
# Init
self.verbosity = verbosity
# TODO: I don't think this ever used
self.frame = None
self.det = None
self.tstart = None
self.basename = None
self.sciI = None
self.obstime = None
def __init__(self,
pypeit_file,
verbosity=2,
overwrite=True,
reuse_masters=False,
logname=None,
show=False,
redux_path=None,
calib_only=False):
# Load
cfg_lines, data_files, frametype, usrdata, setups \
= parse_pypeit_file(pypeit_file, runtime=True)
self.pypeit_file = pypeit_file
self.calib_only = calib_only
# Spectrograph
cfg = ConfigObj(cfg_lines)
spectrograph_name = cfg['rdx']['spectrograph']
self.spectrograph = load_spectrograph(spectrograph_name)
msgs.info('Loaded spectrograph {0}'.format(
self.spectrograph.spectrograph))
# --------------------------------------------------------------
# Get the full set of PypeIt parameters
# - Grab a science or standard file for configuration specific parameters
config_specific_file = None
for idx, row in enumerate(usrdata):
if ('science' in row['frametype']) or ('standard'
in row['frametype']):
config_specific_file = data_files[idx]
# search for arcs, trace if no scistd was there
if config_specific_file is None:
for idx, row in enumerate(usrdata):
if ('arc' in row['frametype']) or ('trace'
in row['frametype']):
config_specific_file = data_files[idx]
if config_specific_file is not None:
msgs.info(
'Setting configuration-specific parameters using {0}'.format(
os.path.split(config_specific_file)[1]))
spectrograph_cfg_lines = self.spectrograph.config_specific_par(
config_specific_file).to_config()
# - Build the full set, merging with any user-provided
# parameters
self.par = PypeItPar.from_cfg_lines(cfg_lines=spectrograph_cfg_lines,
merge_with=cfg_lines)
msgs.info('Built full PypeIt parameter set.')
# Check the output paths are ready
if redux_path is not None:
self.par['rdx']['redux_path'] = redux_path
# TODO: Write the full parameter set here?
# --------------------------------------------------------------
# --------------------------------------------------------------
# Build the meta data
# - Re-initilize based on the file data
msgs.info('Compiling metadata')
self.fitstbl = PypeItMetaData(self.spectrograph,
self.par,
files=data_files,
usrdata=usrdata,
strict=True)
# - Interpret automated or user-provided data from the PypeIt
# file
self.fitstbl.finalize_usr_build(frametype, setups[0])
# --------------------------------------------------------------
# - Write .calib file (For QA naming amongst other things)
calib_file = pypeit_file.replace('.pypeit', '.calib')
self.fitstbl.write_calib(calib_file)
# Other Internals
self.logname = logname
self.overwrite = overwrite
# Currently the runtime argument determines the behavior for
# reuse_masters.
self.reuse_masters = reuse_masters
self.show = show
# Set paths
self.calibrations_path = os.path.join(
self.par['rdx']['redux_path'],
self.par['calibrations']['master_dir'])
# Check for calibrations
if not self.calib_only:
calibrations.check_for_calibs(
self.par,
self.fitstbl,
raise_error=self.par['calibrations']['raise_chk_error'])
# Report paths
msgs.info('Setting reduction path to {0}'.format(
self.par['rdx']['redux_path']))
msgs.info('Master calibration data output to: {0}'.format(
self.calibrations_path))
msgs.info('Science data output to: {0}'.format(self.science_path))
msgs.info('Quality assessment plots output to: {0}'.format(
self.qa_path))
# TODO: Is anything written to the qa dir or only to qa/PNGs?
# Should we have separate calibration and science QA
# directories?
# An html file wrapping them all too
# # Instantiate Calibrations class
# if self.spectrograph.pypeline in ['MultiSlit', 'Echelle']:
# self.caliBrate \
# = calibrations.MultiSlitCalibrations(self.fitstbl, self.par['calibrations'],
# self.spectrograph, self.calibrations_path,
# qadir=self.qa_path,
# reuse_masters=self.reuse_masters,
# show=self.show,
# slitspat_num=self.par['rdx']['slitspatnum'])
# elif self.spectrograph.pypeline in ['IFU']:
# self.caliBrate \
# = calibrations.IFUCalibrations(self.fitstbl, self.par['calibrations'],
# self.spectrograph,
# self.calibrations_path,
# qadir=self.qa_path,
# reuse_masters=self.reuse_masters,
# show=self.show)
# else:
# msgs.error("No calibration available to support pypeline: {0:s}".format(self.spectrograph.pypeline))
# Init
self.verbosity = verbosity
# TODO: I don't think this ever used
self.det = None
self.tstart = None
self.basename = None
self.sciI = None
self.obstime = None
