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# File rvsao/Emsao/t_pemsao.x
# March 27, 2015
# By Jessica Mink, Harvard-Smithsonian Center for Astrophysics
# Copyright(c) 1991-2015 Smithsonian Astrophysical Observatory
# You may do anything you like with this file except remove this copyright.
# The Smithsonian Astrophysical Observatory makes no representations about
# the suitability of this software for any purpose. It is provided "as is"
# without express or implied warranty.
# EMSAO is an IRAF task for obtaining redshifts using the locations of
# known emission lines. Arguments are in the IRAF parameter file emsao.par.
# Information is shared in common blocks defined in "rvsao.com" and "emv.com".
include <imhdr.h>
include <imio.h>
include <fset.h>
include <smw.h>
include "../lib/rvsao.h"
include "../lib/contin.h"
include "../lib/emv.h"
procedure t_pemsao ()
char specfile[SZ_PATHNAME] # Input spectrum file name
char skynums[SZ_LINE] # List of multispec sky spectra to read
char specpath[SZ_PATHNAME] # Object spectrum path name
char specdir[SZ_PATHNAME] # Directory for object spectra
char vel_corr[SZ_LINE] # type of velocity correction for spectrum
# none | file | heliocentric | barycentric
char vel_init[SZ_LINE] # type of velocity for initial guess
# correlation|emission|combination|search|guess
char vel_plot[SZ_LINE] # type of velocity for redshifting plot
# correlation|emission|combination|search
char logfile[SZ_PATHNAME] # Log file name
pointer speclist # List of spectrum files
int logfiles # IRAF list pointer for log files
int rmode # report format (1=normal,2=one-line)
double minwav0 # Starting wavelength from parameter file
double maxwav0 # Ending wavelength from parameter file
double minwav # Actual wavelength of first pixel used
double maxwav # Actual wavelength of last pixel used
bool arcflag # archive record writing flag
int mspec # Aperture of spectrum to read from multispec file
int mband # Band of spectrum to read from multispec file
int sspec # Aperture of sky spectrum to read from multispec file
int sband # Band of sky spectrum to read from multispec file
pointer spectrum # Object spectrum
pointer specim # Object image header structure
pointer specsky # Sky spectrum
pointer skyim # Sky image header structure
pointer skysh # Sky spectrum header structure
pointer pxspec # Pixel vector for object spectrum
pointer wlspec # Wavelength vector for object spectrum
pointer pxsky # Pixel vector for sky spectrum
int nmspec0 # Number of object multispec spectra
int nspec # Number of object multispec spectra
int nsspec # Number of sky multispec spectra
int mspec_range[3,MAX_RANGES]
int sspec_range[3,MAX_RANGES]
int pix1,pix2 # Pixel range for revised wavelength range
int ip,jp,lfile # Limits for multispec aperture decoding
char lbracket[3] # "[({"
char rbracket[3] # "])}"
int npix, ipix
double dindef
bool linefit
bool wenable
char str[SZ_LINE]
int i,j,iline,ldir
int fd
int nsum
int nsp, npix0, nflines
double sptot, spmax, spmin, speci
pointer ispec
double vl, dwdp
pointer imtopenp()
int imaccess(), imtgetim()
bool clgetb()
int clgeti()
int clpopnu(), clgfil(), open()
int strdic(),strncmp()
double clgetd()
int decode_ranges(),get_next_number(),stridx(),strlen(),stridxs()
double wcs_w2p(), wcs_p2w()
define endspec_ 90
include "../lib/rvsao.com"
include "../lib/emv.com"
include "../lib/contin.com"
include "../lib/results.com"
include "../lib/emsums.com"
begin
c0 = 299792.5d0
npix0 = 0
dindef = INDEFD
schop = FALSE
wlspec = NULL
specsh = NULL
skysh = NULL
specref = 0
waverest = 0.d0
call sprintf (lbracket,3,"[({")
call sprintf (rbracket,3,"])}")
# Initialize emission line information
do iline = 1, MAXREF {
do j = 1, 2 {
do i = 1, 10 {
emparams[i,j,iline] = 0.d0
}
}
wlrest[iline] = 0.d0
pxobs[iline] = 0.d0
wlobs[iline] = 0.d0
wtobs[iline] = 0.d0
}
# Get task parameters.
# Get list of images to process
speclist = imtopenp ("spectra")
# Multspec spectrum numbers
call clgstr ("specnum",specnums,SZ_LINE)
if (decode_ranges (specnums, mspec_range, MAX_RANGES, nmspec0) == ERR) {
call sprintf (str, SZ_LINE, "PEMSAO: Illegal multispec object list <%s>")
call pargstr (specnums)
call error (1, str)
}
# Multispec band number
mband = clgeti ("specband")
# FITS Extension number (passed through rvsao.com)
mext = clgeti ("specext")
# Multispec sky spectrum numbers
call clgstr ("skynum",skynums,SZ_LINE)
if (skynums[1] == EOS)
call strcpy ("0",skynums,SZ_LINE)
skyspec = FALSE
if (strncmp (skynums,"0",1) != 0) {
if (decode_ranges (skynums, sspec_range, MAX_RANGES, nsspec) == ERR) {
call sprintf (str, SZ_LINE, "PEMSAO: Illegal multispec sky list <%s>")
call pargstr (specnums)
call error (1, str)
}
else
skyspec = TRUE
}
# Multispec band number for sky
sband = clgeti ("skyband")
# Spectrum directory
call clgstr ("specdir",specdir,SZ_PATHNAME)
ldir = strlen (specdir)
if (specdir[1] != EOS && specdir[ldir] != '/') {
specdir[ldir+1] = '/'
specdir[ldir+2] = EOS
}
# Wavelength limits if not from spectrum
minwav0 = clgetd ("st_lambda")
maxwav0 = clgetd ("end_lambda")
# Data renormalization
renorm = clgetb ("renormalize")
pltspec = clgetb("obj_plot")
pltcon = clgetb ("contsub_plot")
debug = clgetb("debug")
# Type of heliocentric velocity correction to make
call clgstr ("vel_corr",vel_corr,SZ_LINE)
svcor = strdic (vel_corr,vel_corr,SZ_LINE,HC_VTYPES)
# Type of velocity for plotting emission and absorption lines
call clgstr ("vel_plot",vel_plot,SZ_LINE)
vplot = strdic (vel_plot,vel_plot,SZ_LINE,PL_VTYPES)
# Type of velocity for initial redshift for search
call clgstr ("vel_init",vel_init,SZ_LINE)
vinit = strdic (vel_init,vel_init,SZ_LINE,IEM_VTYPES)
call clgstr ("cortemp",cortemp,SZ_FNAME)
# Report mode for log file
rmode = 1
rmode = clgeti ("report_mode")
# SAO TDC archive record writing flag
arcflag = FALSE
arcflag = clgetb ("archive")
# IRAF image header result writing flag
savevel = FALSE
savevel = clgetb("save_vel")
wenable = savevel
linefit = TRUE
linefit = clgetb ("linefit")
if (!linefit) {
if (savevel) {
savevel = FALSE
wenable = TRUE
}
else
wenable = FALSE
}
savespec = FALSE
edited = FALSE
# Emission line on data plot flag
dispem = false
dispem = clgetb ("dispem")
# Absorption lines on data plot flag
dispabs = false
dispabs = clgetb ("dispabs")
# Open log files
logfiles = clpopnu("logfiles")
call fseti (STDOUT, F_FLUSHNL, YES)
nlogfd = 0
while (clgfil (logfiles, logfile, SZ_PATHNAME) != EOF) {
fd = open (logfile, APPEND, TEXT_FILE)
if (fd == ERR) next
nlogfd = nlogfd + 1
logfd[nlogfd] = fd
}
call clpcls (logfiles)
# Write a header for multiline report.
call strcpy ("rvsao.emsao",taskname,SZ_LINE)
if (rmode == 1) {
do i = 1, nlogfd {
call loghead (taskname,str)
fd = logfd[i]
call fprintf (fd, "%s\n")
call pargstr (str)
}
}
# Initialize wavelengths from files
call eminit (TRUE)
# Print tab table heading, if that form of output is used
if (rmode < 0)
call emrshead (rmode)
# Get next object spectrum file name from the list
while (imtgetim (speclist, specfile, SZ_PATHNAME) != EOF) {
nsum = 0
# Decode specified apertures in multispec spectrum file
ip = stridxs (lbracket,specfile)
if (ip > 0) {
lfile = strlen (specfile)
specfile[ip] = EOS
jp = 0
ip = ip + 1
while (stridx (specfile[ip],rbracket) == 0 && ip <= lfile) {
jp = jp + 1
specnums[jp] = specfile[ip]
specfile[ip] = EOS
ip = ip + 1
}
if (jp > 0)
specnums[jp+1] = EOS
else
call strcpy ("0",specnums,SZ_LINE)
if (decode_ranges (specnums,mspec_range,MAX_RANGES,nmspec) == ERR) {
call sprintf (str, SZ_LINE, "PEMSAO: Illegal multispec list <%s>")
call pargstr (specnums)
call error (1, str)
}
}
else
nmspec = nmspec0
nspec = nmspec
if (debug) {
call printf ("PEMSAO: Next file is %s [%s] = %d aps\n")
call pargstr (specfile)
call pargstr (specnums)
call pargi (nspec)
call flush (STDOUT)
}
call strcpy (specdir,specpath,SZ_PATHNAME)
call strcat (specfile,specpath,SZ_PATHNAME)
# Allocate vector for median shift
call malloc (evel, nmspec, TY_DOUBLE)
call malloc (ewl, nmspec, TY_DOUBLE)
call malloc (epix, nmspec, TY_DOUBLE)
# Check for readability of object spectrum
if (imaccess (specpath, READ_ONLY) == NO) {
call eprintf ("PEMSAO: cannot read spectrum path %s \n")
call pargstr (specpath)
next
}
# Get next multispec number from list
mspec = -1
sspec = -1
sumvel = 0.d0
sumerr = 0.d0
sumdwl = 0.d0
sumpix = 0.d0
nap = 0
nflines = 0
while (nspec > 0 && get_next_number (mspec_range, mspec) != EOF) {
if (debug) {
call printf ("PEMSAO: Next aperture is %s [%d] = %d aps\n")
call pargstr (specfile)
call pargi (mspec)
call pargi (nspec)
}
# Load spectrum
call getspec (specpath, mspec, mband, spectrum, specim, wenable)
if (specim == ERR)
go to endspec_
call xcrhead (mspec, specim)
if (!linefit)
call emrhead (mspec, specim)
# Turn off spectrum continuum subtraction, if not needed
tcont = TRUE
call imgbpar (specim,"SUBCONT",tcont)
if (tcont)
conproc = SUBCONT
else
conproc = NOCONT
if (debug) {
if (tcont)
call printf ("PEMSAO: Spectrum continuum will be subtracted\n")
else
call printf ("PEMSAO: Spectrum continuum already subtracted\n")
call flush (STDOUT)
}
# If RENORM is not set, set it if maximum counts are less than 1
if (!renorm) {
spmax = Memr[spectrum]
spmin = Memr[spectrum]
do i = 2, specpix {
speci = Memr[spectrum+i-1]
# if (debug) {
# call printf ("PEMSAO: %4d/%4d: %f\n")
# call pargi (i)
# call pargi (specpix)
# call pargd (speci)
# call flush (STDOUT)
# }
if (speci > spmax)
spmax = speci
if (speci < spmin)
spmin = speci
}
if (spmax < 1.0 && spmin > -1.0)
renorm = TRUE
else
renorm = FALSE
}
if (debug) {
call printf ("PEMSAO: maximum count in spectrum is %f\n")
call pargd (spmax)
call flush (STDOUT)
}
# Renormalize spectrum if requested
if (renorm) {
sptot = 0.d0
nsp = 0
do i = 1, specpix {
ispec = spectrum+i-1
if (Memr[ispec] != 0.) {
sptot = sptot + double (Memr[ispec])
nsp = nsp + 1
}
}
if (nsp > 0) {
spmean = 0.001d0 * sptot / double (nsp)
do i = 1, specpix {
ispec = spectrum+i-1
if (Memr[ispec] != 0.) {
Memr[ispec] = Memr[ispec] / spmean
}
}
}
else {
call eprintf ("*** Spectrum is all zeroes\n")
call close_image (specim, specsh)
next
}
}
# Set up wavelength vector for intermediate graphs
npix = NP2(specsh) - NP1(specsh)
if (NP2(specsh) < NP1(specsh)) {
npix = NP1(specsh) - NP2(specsh) + 1
}
else {
npix = NP2(specsh) - NP1(specsh) + 1
}
if (npix > npix0) {
if (npix0 > 0) {
call mfree (wlspec, TY_REAL)
}
call malloc (wlspec, npix, TY_REAL)
npix0 = npix
}
do ipix = NP1(specsh), NP2(specsh) {
Memr[wlspec+ipix-1] = wcs_p2w (double (ipix))
}
# wlspec = SX(specsh) + NP1(specsh) - 1
pxspec = spectrum + NP1(specsh) - 1
if (debug) {
call printf ("PEMSAO: %d-pixel spectrum set up\n")
call pargi (specpix)
call flush (STDOUT)
}
# Load sky spectrum
if (skyspec) {
if (nsspec > 0) {
if (get_next_number (sspec_range, sspec) != EOF) {
if (sspec > 0)
call getsky (specpath,sspec,sband,specsky,skyim,skysh)
else {
specsky = NULL
skyspec = FALSE
}
}
}
else
call getsky (specpath, sspec, sband, specsky, skyim, skysh)
if (debug) {
call printf ("PEMSAO: Sky spectrum %d read %s\n")
call pargi (sspec)
call pargstr (skyname)
}
pxsky = specsky + NP1(skysh) - 1
}
else
pxsky = NULL
# Starting wavelength from image header or parameter file
minwav = W0(specsh)
maxwav = W1(specsh)
if (maxwav < minwav) {
maxwav = W0(specsh)
minwav = W1(specsh)
}
if (minwav0 > 0.0 && minwav0 != dindef && minwav0 > minwav)
minwav = minwav0
pix1 = idnint (wcs_w2p (minwav))
minwav = wcs_p2w (double(pix1))
# Ending wavelength from image header or parameter file
if (maxwav0 > 0.0 && maxwav0 != dindef && maxwav0 < maxwav)
maxwav = maxwav0
pix2 = idnint (wcs_w2p (maxwav))
maxwav = wcs_p2w (double(pix2))
if (pix1 > pix2) {
pix2 = idnint (wcs_w2p (minwav))
pix1 = idnint (wcs_w2p (maxwav))
}
if (debug) {
npix = pix2 - pix1 + 1
call printf("PEMSAO: from %10.3fa(%d) to %10.3fa(%d), npts = %d \n")
call pargd (minwav)
call pargi (pix1)
call pargd (maxwav)
call pargi (pix2)
call pargi (npix)
call flush (STDOUT)
}
# Find emission line velocity for this spectrum
IM_UPDATE(specim) = NO
newresults = FALSE
call emfit (Memr[pxspec],Memr[wlspec],Memr[pxsky],
specfile,mspec,specim,pix1,pix2,rmode)
if (spnlf > 0) {
spx = wcs_w2p (wlobs[1]) - wcs_w2p (wlref[1])
swl = wlobs[1] - wlref[1]
vl = wcs_w2p (wlobs[1])
dwdp = wcs_p2w (vl + 1.d0) - wcs_p2w (vl)
}
else {
spevel = 0.d0
speerr = 0.d0
spx = 0.d0
swl = 0.d0
vl = wcs_w2p (wlref[1])
dwdp = wcs_p2w (vl + 1.d0) - wcs_p2w (vl)
}
if (nmspec > 0) {
if (spnlf > 0) {
nsum = nsum + 1
if (debug) {
call printf ("PEMSAO: %3d / %3d: %.3f (%.3f) %.3fA %.3fp %d lines\n")
call pargi (nap+1)
call pargi (nmspec)
call pargd (spevel)
call pargd (speerr)
call pargd (swl)
call pargd (spx)
call pargi (spnlf)
}
Memd[evel+nsum-1] = spevel
sumvel = sumvel + spevel
sumerr = sumerr + (speerr * speerr)
Memd[epix+nsum-1] = spx
sumpix = sumpix + spx
Memd[ewl+nsum-1] = swl
sumdwl = sumdwl + swl
nflines = nflines + spnlf
}
else if (debug) {
call printf ("PEMSAO: %3d / %3d: %.3f (%.3f) %d lines\n")
call pargi (nap+1)
call pargi (nmspec)
call pargd (spevel)
call pargd (speerr)
call pargi (spnlf)
}
nap = nap + 1
}
# Save results to TDC archive file, if requested
if (arcflag)
call emarch (specim, specfile)
# Save Cz and error to image header, if requested
if ((savespec || savevel || qplot) && nmspec < 10) {
if (imaccess (specpath, READ_WRITE) == NO) {
call eprintf ("PEMSAO: cannot write to %s; not saving results\n")
call pargstr (specpath)
}
else if (savevel) {
call vwhead (mspec,specim)
call emwhead (mspec,specim)
}
else if (qplot && newresults) {
call qwhead (mspec,specim,"emsao")
call emwhead (mspec,specim)
}
else if (qplot) {
call qwhead (mspec,specim,"emsao")
}
if (savespec) {
call putspec (specim, mspec, spectrum, TY_REAL, debug)
savespec = FALSE
}
}
# if (debug) {
# call printf ("PEMSAO: %3d / %3d / %3d completed\n")
# call pargi (nsum)
# call pargi (nap)
# call pargi (nmspec)
# call flush (STDOUT)
# }
# Close the object spectrum image and headers
endspec_
if (nmspec < 1 || mspec < nmspec)
call close_image (specim, specsh)
# Close the sky spectrum image
if (skyspec)
call close_image (skyim, skysh)
# if (debug) {
# call printf ("PEMSAO: (%3d / %3d) %3d / %3d images closed\n")
# call pargi (nsum)
# call pargi (nap)
# call pargi (mspec)
# call pargi (nmspec)
# call flush (STDOUT)
# }
# Move on to next aperture or next image
nspec = nspec - 1
# End of multispec loop within single image
}
# End of image loop
}
# Save global results in the parameter file
if (nmspec > 0) {
call printsum (specim, nsum)
}
# Save some results for first line in the parameter file
if (!savevel)
call printline (nflines, dwdp)
# Close the log files
do i = 1, nlogfd {
call close (logfd[i])
}
call imtclose (speclist)
if (npix0 > 0)
call mfree (wlspec, TY_REAL)
end
# Save velocity results in image header if savevel is true
# Save velocity results in parameter file if savevel is false
procedure printsum (specim, nsum)
pointer specim # Object image header structure
int nsum # Number of apertures for which lines were found
int ip,jp,lfile # Limits for multispec aperture decoding
char str[SZ_LINE], sstr[SZ_LINE]
int i,j,iline,ldir
int fd
double avgvel, avgerr, medvel, avgpix, medpix, avgdwl, meddwl, q1, q2
double vl
include "../lib/rvsao.com"
include "../lib/emv.com"
include "../lib/results.com"
include "../lib/emsums.com"
begin
if (savevel) {
IM_UPDATE(specim) = YES
}
# Save global results in the parameter or image file
if (debug) {
if (savevel) {
call printf("PRINTSUMS: About to save results in header\n")
call strcpy ("would be", sstr, SZ_LINE)
}
else {
call printf("PRINTSUMS: About to save results as parameters\n")
call strcpy ("saved as", sstr, SZ_LINE)
}
call flush (STDOUT)
}
# Mean velocity and error
if (nsum > 0)
avgvel = sumvel / double (nsum)
else
avgvel = 0.d0
if (debug) {
call printf("PEMSAO: Mean velocity = %.3f %s meanvel\n")
call pargd (avgvel)
call pargstr (sstr)
call flush (STDOUT)
}
if (nsum > 0)
avgerr = dsqrt (sumerr) / double (nsum)
else
avgerr = 0.d0
if (debug) {
call printf("PEMSAO: Mean velocity error = %.3f %s meanerr\n")
call pargd (avgerr)
call pargstr (sstr)
call flush (STDOUT)
}
# Median velocity and error
call median (Memd[evel], nsum, medvel, q1, q2)
if (debug) {
call printf("PEMSAO: Median velocity = %.3f %s medvel\n")
call pargd (medvel)
call pargstr (sstr)
call printf("PEMSAO: First quartile = %.3f %s medq1\n")
call pargd (q1)
call pargstr (sstr)
call printf("PEMSAO: Second quartile = %.3f %s medq2\n")
call pargd (q2)
call pargstr (sstr)
call flush (STDOUT)
}
# If not saving in header, save in parameter file
if (!savevel) {
call clputd ("meanvel", avgvel)
call clputd ("meanerr", avgerr)
call clputd ("medvel",medvel)
call clputd ("medq1",q1)
call clputd ("medq2",q2)
}
# Mean wavelength and pixel shift
if (nsum > 0) {
avgdwl = sumdwl / double (nsum)
avgpix = sumpix / double (nsum)
}
else {
avgdwl = 0.d0
avgpix = 0.d0
}
if (debug) {
call printf("PEMSAO: Mean pixel shift = %.3f %s meanpix\n")
call pargd (avgpix)
call pargstr (sstr)
call printf("PEMSAO: Mean wavelength shift = %.3f %s meanwl\n")
call pargd (avgdwl)
call pargstr (sstr)
call flush (STDOUT)
}
# Median wavelength and pixel shift
call median (Memd[ewl], nsum, meddwl, q1, q2)
call median (Memd[epix], nsum, medpix, q1, q2)
if (debug) {
call printf("PEMSAO: Median pixel shift = %.3f %s medpix\n")
call pargd (medpix)
call pargstr (sstr)
call printf("PEMSAO: Median wavelength shift = %.3f %s medpix\n")
call pargd (meddwl)
call pargstr (sstr)
call flush (STDOUT)
}
if (savevel) {
call imaddd (specim, "MEANPIX", avgpix, "Mean pixel shift")
call imaddd (specim, "MEDPIX", medpix, "Median pixel shift")
call imaddd (specim, "MEANDWL", avgdwl, "Mean wavelength shift")
call imaddd (specim, "MEDDWL", meddwl, "Median wavelength shift")
}
else {
call clputd ("meanpix", avgpix)
call clputd ("medpix",medpix)
call clputd ("meandwl", avgdwl)
call clputd ("meddwl",meddwl)
}
call close_image (specim, specsh)
return
end
procedure printline (nflines, dwdp)
int nflines
double dwdp # Wavelength per pixel
double linvel, linerr, linwidth
include "../lib/rvsao.com"
include "../lib/emv.com"
include "../lib/results.com"
begin
# Save some results for first line in the parameter file
if (debug) {
call printf("PEMSAO: Number of lines fit = %d saved\n")
call pargi (nflines)
call printf("PEMSAO: First line fit = %s saved as emline\n")
call pargstr (nmobs[1,1])
call printf("PEMSAO: Rest wavelength = %.3f saved as wlrest\n")
call pargd (wlrest[1])
call flush (STDOUT)
}
if (!savevel) {
call clputi ("nlfit", nflines)
call clpstr ("emline", nmobs[1,1])
call clputd ("wlrest", wlrest[1])
}
# Line velocity
linvel = (c0 * emparams[9,1,1]) + spechcv
if (debug) {
call printf("PEMSAO: Velocity = %.4f saved as velocity\n")
call pargd (linvel)
call flush (STDOUT)
}
if (!savevel) {
call clputd ("velocity", linvel)
}
# Line velocity error
linerr = c0 * emparams[9,2,1]
if (debug) {
call printf("PEMSAO: Velocity error = %.4f saved as velerr\n")
call pargd (linerr)
call flush (STDOUT)
}
if (!savevel) {
call clputd ("velerr", linerr)
}
# Line height
if (debug) {
call printf("PEMSAO: Line height = %.2f saved as lineheight\n")
call pargd (emparams[5,1,1])
call flush (STDOUT)
}
if (!savevel) {
call clputd ("lineheight", emparams[5,1,1])
}
# Line width
linwidth = emparams[6,1,1] * abs (dwdp)
if (debug) {
call printf("PEMSAO: Line width = %.4f saved as linewidth\n")
call pargd (linwidth)
call printf("PEMSAO: Line equivalent width = %.4f saved as lineeqw\n")
call pargd (emparams[7,1,1])
call flush (STDOUT)
}
if (!savevel) {
call clputd ("linewidth", linwidth)
call clputd ("lineeqw", emparams[7,1,1])
}
return
end
# Aug 23 2007 New task based on EMSAO to save parameters of one line
# Mar 19 2008 Save mean velocity and error as parameters, too
# Mar 19 2008 Save total number of lines fit across apertures
# Mar 25 2008 Do not compute averages if no lines fit
# Aug 5 2008 Add median and quartiles as output parameters
# Aug 6 2008 Decrease number of variables so it will compile
# Aug 6 2008 Add mean and median pixel and wavelength shifts
# Sep 15 2008 Add debugging printout for mean and median shifts
# Sep 15 2008 Save linewidth as positive when wavelength scale is reversed
# Jun 4 2009 Compute wavelength per pixel by pixel offset for observed center
# Mar 1 2010 Write mean and median pixel shifts to image header if save_vel
# Mar 2 2010 Do not write to parameter file if save_vel=yes
# Mar 8 2010 Skip apertures where no lines were found
# Jul 08 2010 Read specext FITS extension number into mext in rvsao.com
# Aug 13 2010 In debug mode, print shift in pixels and wavelength too
# Aug 13 2010 Add mean and median wavelength shifts to FITS file header
# Aug 25 2010 Write mean and median wavelength shift parameters
# May 25 2012 Drop unused declarations to get back below limit
# May 2 2014 Write out edited spectrum
# Mar 25 2015 Initialize savespec to FALSE
# Mar 27 2015 Link to header and common files in lib/
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