input,s,a,"a021",,,"List of input images"
output,s,h,"",,,"List of output spectra"
apertures,s,h,"",,,"Apertures"
format,s,h,"multispec",onedspec|multispec|echelle|strip,,"Extracted spectra format"
references,s,h,"",,,"List of aperture reference images"
profiles,s,h,"",,,"List of aperture profile images
"
interactive,b,h,yes,,,"Run task interactively?"
find,b,h,yes,,,"Find apertures?"
recenter,b,h,yes,,,"Recenter apertures?"
resize,b,h,yes,,,"Resize apertures?"
edit,b,h,yes,,,"Edit apertures?"
trace,b,h,yes,,,"Trace apertures?"
fittrace,b,h,yes,,,"Fit the traced points interactively?"
extract,b,h,yes,,,"Extract spectra?"
extras,b,h,yes,,,"Extract sky, sigma, etc.?"
review,b,h,yes,,,"Review extractions?
"
line,i,h,INDEF,1,,"Dispersion line"
nsum,i,h,10,,,"Number of dispersion lines to sum or median

# DEFAULT APERTURE PARAMETERS
"
lower,r,h,-5.,,,"Lower aperture limit relative to center"
upper,r,h,5.,,,"Upper aperture limit relative to center"
apidtable,s,h,"",,,"Aperture ID table (optional)

# DEFAULT BACKGROUND PARAMETERS
"
b_function,s,h,"chebyshev",chebyshev|legendre|spline1|spline3,,"Background function"
b_order,i,h,1,1,,"Background function order"
b_sample,s,h,"-10:-6,6:10",,,"Background sample regions"
b_naverage,i,h,-3,,,"Background average or median"
b_niterate,i,h,0,0,,"Background rejection iterations"
b_low_reject,r,h,3.,0.,,"Background lower rejection sigma"
b_high_reject,r,h,3.,0.,,"Background upper rejection sigma"
b_grow,r,h,0.,0.,,"Background rejection growing radius

# APERTURE CENTERING PARAMETERS
"
width,r,h,5.,0.,,"Profile centering width"
radius,r,h,10.,,,"Profile centering radius"
threshold,r,h,0.,0.,,"Detection threshold for profile centering

# AUTOMATIC FINDING AND ORDERING PARAMETERS
"
nfind,i,q,,,,"Number of apertures to be found automatically"
minsep,r,h,5.,1.,,"Minimum separation between spectra"
maxsep,r,h,100000.,1.,,"Maximum separation between spectra"
order,s,h,"increasing",increasing|decreasing,,"Order of apertures

# RECENTERING PARAMETERS
"
aprecenter,s,h,"",,,"Apertures for recentering calculation"
npeaks,r,h,INDEF,0.,,"Select brightest peaks"
shift,b,h,yes,,,"Use average shift instead of recentering?

# RESIZING PARAMETERS
"
llimit,r,h,INDEF,,,"Lower aperture limit relative to center"
ulimit,r,h,INDEF,,,"Upper aperture limit relative to center"
ylevel,r,h,0.1,,,"Fraction of peak or intensity for automatic width"
peak,b,h,yes,,,"Is ylevel a fraction of the peak?"
bkg,b,h,yes,,,"Subtract background in automatic width?"
r_grow,r,h,0.,,,"Grow limits by this factor"
avglimits,b,h,no,,,"Average limits over all apertures?

# TRACING PARAMETERS
"
t_nsum,i,h,10,1,,"Number of dispersion lines to sum"
t_step,i,h,10,1,,"Tracing step"
t_nlost,i,h,3,1,,"Number of consecutive times profile is lost before quitting"
t_function,s,h,"legendre",chebyshev|legendre|spline1|spline3,,"Trace fitting function"
t_order,i,h,2,1,,"Trace fitting function order"
t_sample,s,h,"*",,,"Trace sample regions"
t_naverage,i,h,1,,,"Trace average or median"
t_niterate,i,h,0,0,,"Trace rejection iterations"
t_low_reject,r,h,3.,0.,,"Trace lower rejection sigma"
t_high_reject,r,h,3.,0.,,"Trace upper rejection sigma"
t_grow,r,h,0.,0.,,"Trace rejection growing radius

# EXTRACTION PARAMETERS
"
background,s,h,"none",none|average|median|minimum|fit,,"Background to subtract"
skybox,i,h,1,1,,"Box car smoothing length for sky"
weights,s,h,"none",none|variance,,"Extraction weights (none|variance)"
pfit,s,h,"fit1d",fit1d|fit2d,,"Profile fitting type (fit1d|fit2d)"
clean,b,h,no,,,"Detect and replace bad pixels?"
saturation,r,h,INDEF,1.,,"Saturation level"
readnoise,s,h,"0.",,,"Read out noise sigma (photons)"
gain,s,h,"1.",,,"Photon gain (photons/data number)"
lsigma,r,h,4.,0.,,"Lower rejection threshold"
usigma,r,h,4.,0.,,"Upper rejection threshold"
nsubaps,i,h,1,1,,"Number of subapertures per aperture"
mode,s,h,"ql",,,