def georun_sky(clustname, lims):
#run geomap and geoxytran. I have to run this within this module
#as geomap crashes when run from an external module.
#in this version
catpath = '.'
geomap_infile = catpath + '/geomap_coords_sky.' + clustname + '.in'
dbfile = catpath + '/' + clustname + '_geomap_sky.db'
iraf.geomap.xmin = lims['ramin']
iraf.geomap.xmax = lims['ramax']
iraf.geomap.ymin = lims['decmin']
iraf.geomap.ymax = lims['decmax']
iraf.geomap.maxiter = 3
iraf.geomap.reject = 3.0
iraf.geomap.fitgeometry = 'rxyscale'
iraf.geomap(geomap_infile, dbfile)
geotran_outfile = catpath + '/geomap_coords_sky.' + clustname + '.out'
#remove geotran output file if it already exists
if os.path.isfile(geotran_outfile) is True:
cmdstr = 'rm ' + geotran_outfile
os.system(cmdstr)
#transform the input coordinates in the geomap input file.
iraf.geoxytran(geomap_infile,
geotran_outfile,
dbfile,
geomap_infile,
direction="backward",
xcolumn=3,
ycolumn=4)
#read in the geomap input catalog that was transformed using geoxytran.
trans_ggdat = ascii.read(geotran_outfile)
ratrans = trans_ggdat['rain']
dectrans = trans_ggdat['decin']
raref = trans_ggdat['raref']
decref = trans_ggdat['decref']
#make a plot of the new residuals
posttrans_plotfile = catpath + '/posttrans.' + clustname + '_coordiff_sky.pdf'
cmts.match_diff_sky_plot(raref,
decref,
ratrans,
dectrans,
plotfile=posttrans_plotfile)
return dbfile, geomap_infile
def cat_match_sky_SpARCS0035(septol, **kwargs):
'''Written by Gregory Rudnick 10 January 2018
PURPOSE:
Read in two catalogs and match them within some tolerance. Write
the set of matched coordinates out in a format suitable for geomap input
Plot the differences in each coordinate.
INPUT PARAMETERS:
septol: the maximum separation allowed for a match in arcseconds
OPTIONAL KEYWORD PARAMETERS
fullcat_trans: if set ==1 then transform full catalog
speczcat_trans: if set ==1 then transform the spectroscopic catalog
'''
#read in the z-band GOGREEN catalog and the reference catalog.
clustname = 'SpARCS0035'
(gg_dat, ref_dat, gg_catname, ref_catname, zcat_dat, zcat,
speczcatname) = cat_read_SpARCS0035()
#print(gg_dat)
#rename inputs to make code more readable
raref = np.array(ref_dat['ALPHA_SKY'])
decref = np.array(ref_dat['DELTA_SKY'])
rain = gg_dat['RA']
decin = gg_dat['DEC']
#match catalogs against each other
#return matched values
#catpath = '/Users/grudnick/Work/GOGREEN/Catalogs/Astrometric/SpARCS0035'
catpath = '.'
geomap_infile = catpath + '/geomap_coords_sky.' + clustname + '.in'
(rarefm, decrefm, rainm, decinm,
lims) = cmts.cat_sky_match(raref,
decref,
rain,
decin,
septol,
matchfile=geomap_infile)
print("limits of coordinates are", lims)
#run geomap to compute the transformation and geoxytran to
#transform the input coordinates using that solution. This also
#plots the transformed coordinates.
(dbfile, geomap_infile) = georun_sky(clustname, lims)
#make a plot of the residuals. Although these are for the
#pre-transform residuals, this needs to occur in the code before
#the first instance of geomap, otherwise for some reason the code
#crashes because pytplot is imported before geomap is executed.
pretrans_plotfile = catpath + '/pretrans.' + clustname + '_coordiff_sky.pdf'
cmts.match_diff_sky_plot(rarefm,
decrefm,
rainm,
decinm,
plotfile=pretrans_plotfile)
if 'fullcat_trans' in kwargs.keys():
if kwargs['fullcat_trans'] == 1:
cat_trans_sky(gg_catname, dbfile, geomap_infile, ref_catname, clustname, septol, \
ramin = lims['ramin'], ramax = lims['ramax'], decmin = lims['decmin'], \
decmax = lims['decmax'])
if 'speczcat_trans' in kwargs.keys():
if kwargs['speczcat_trans'] == 1:
speczcat_trans_sky(speczcatname, dbfile, geomap_infile, ref_catname, clustname, septol, \
ramin = lims['ramin'], ramax = lims['ramax'], decmin = lims['decmin'], \
decmax = lims['decmax'])
def speczcat_trans_sky(incat, dbfile, geomap_infile, refcat, clustname, septol,
**kwargs):
'''This routine reads in a FITS catalog, writes a temporary output
ASCII catalog, then transforms this catalog using geoxytran. It
then writes a new catalog with old coordinates replaced by the new ones.
INPUT
incat: the input fits catalog
dbfile: the geomap database file
geomap_infile: used as the database record
refcat: the original astrometric reference catalog
clustname: the name of the cluster
septol: the maximum separation allowed for a match in arcseconds
OPTIONAL KEYWORDS
ramin, ramax, decmin, decmax. These are the limits over which the
transform was originally computed. If these are given then it
uses those limits to color the points in the ra and decdiff plots.
If one is given, all must be given.
'''
#read in the spectroscopic redshift catalog
cat_hdul = fits.open(incat)
cat_dat = cat_hdul["MDF"].data
#read in original astrometric catalog
ref_dat = ascii.read(refcat)
raref = np.array(ref_dat['ALPHA_SKY'])
decref = np.array(ref_dat['DELTA_SKY'])
#tmp coordinate files for geoxytran
tmpin = 'tmp_geoxytran_sky_in'
tmpout = 'tmp_geoxytran_sky_out'
#remove the existing transformed file
newcat = incat.replace('.fits', '.trans.fits')
if os.path.isfile(tmpout) is True:
cmdstr = 'rm ' + tmpout
os.system(cmdstr)
cmdstr = 'rm ' + newcat
os.system(cmdstr)
#output temporary ASCII file with coordinates
fo = open(tmpin, "w")
fo.write("# ra dec\n")
for i, val in enumerate(cat_dat['RA']):
#convert speczcat RA to degrees when writing out
fo.write('{} {}\n'.format(cat_dat['RA'][i] * 15.0, cat_dat['DEC'][i]))
fo.close()
iraf.geoxytran(tmpin, tmpout, dbfile, geomap_infile, direction="backward",\
xcolumn=1, ycolumn = 2)
#read in ascii output file
trans_dat = ascii.read(tmpout)
ratrans = np.array(trans_dat['ra'])
dectrans = np.array(trans_dat['dec'])
#replace the old RAs and DECs with new RAs and DECs in place
tcat_hdul = cat_hdul
#convert RA back to hours for output
tcat_hdul["MDF"].data['RA'] = ratrans / 15.0
tcat_hdul["MDF"].data['DEC'] = dectrans
#write the new fits file
tcat_hdul.writeto(newcat)
#match new catalog against original catalog
mfile = "speczcat_sky_match.txt"
(rarefm,decrefm,ratransm,dectransm, translims) = cmts.cat_sky_match(raref, decref, \
ratrans, dectrans, septol, \
matchfile = mfile)
#make a plot of the residuals
allcattrans_plotfile = 'speczcat_trans.' + clustname + '_coordiff_sky.pdf'
#passes ra and dec limits if they are defined to find source
#outside of ra and dec lims. Assumes that if one keyword is given
#that all are given
if 'ramin' in kwargs.keys():
cmts.match_diff_sky_plot(rarefm,decrefm,ratransm,dectransm, plotfile = allcattrans_plotfile, \
ramin = kwargs['ramin'], ramax = kwargs['ramax'], \
decmin = kwargs['decmin'], decmax = kwargs['decmax'])
else:
cmts.match_diff_sky_plot(rarefm,
decrefm,
ratransm,
dectransm,
plotfile=allcattrans_plotfile)
