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saltfixsec.py
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saltfixsec.py
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################################# LICENSE ##################################
# Copyright (c) 2009, South African Astronomical Observatory (SAAO) #
# All rights reserved. #
# #
# Redistribution and use in source and binary forms, with or without #
# modification, are permitted provided that the following conditions #
# are met: #
# #
# * Redistributions of source code must retain the above copyright #
# notice, this list of conditions and the following disclaimer. #
# * Redistributions in binary form must reproduce the above copyright #
# notice, this list of conditions and the following disclaimer #
# in the documentation and/or other materials provided with the #
# distribution. #
# * Neither the name of the South African Astronomical Observatory #
# (SAAO) nor the names of its contributors may be used to endorse #
# or promote products derived from this software without specific #
# prior written permission. #
# #
# THIS SOFTWARE IS PROVIDED BY THE SAAO ''AS IS'' AND ANY EXPRESS OR #
# IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED #
# WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE #
# DISCLAIMED. IN NO EVENT SHALL THE SAAO BE LIABLE FOR ANY #
# DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL #
# DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS #
# OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) #
# HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, #
# STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN #
# ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE #
# POSSIBILITY OF SUCH DAMAGE. #
############################################################################
#!/usr/bin/env python
# Author Version Date
# --------------------------------------------------
# Martin Still (SAAO) 0.2 11 Jul 2006
# S M Crawford (SAA0) 0.3 22 Feb 2008
# saltfixsec is a temporary task, written to perfrom a quick fix to
# SALT keywords headers TRIMSEC, BIASSEC and DATASEC which are
# written at the telescope when the row and column CCD binning is
# unequal. The correction will only be successful for data that has
# not been windowed. windowed data will require manual editing
# using e.g. HEASARC's fv tool.
#
# 22-Feb-2008: Updated to remove access to iraf.tables
# 08-Sep-2009: Removed call for keyword EXTVER, which isn't in all data
# Overall made a bit more robust against failure
import glob, pyfits
from pyraf import iraf
from math import fmod
# core routine
def updatekeyword(hdr, keyword,value,comment):
"""Update or add the keyword"""
try:
hdr[keyword]=value
except KeyError:
hdu.header.update('DATASEC',datastring, '')
except Exception, e:
print "ERROR: "+e
return hdr
def saltfixsec(infiles):
# Find input files
DataFiles = glob.glob(infiles)
# loop through input files
for file in DataFiles:
#open up the file
try:
struct = pyfits.open(file, mode='update')
except:
message='Failed to open '+file
print message
return
# loop through each of the headers
next=0
for hdu in struct:
if hdu.header['NAXIS']==2:
status=0
next += 1
# read binning keyword CCDSUM
try:
binning=hdu.header['CCDSUM']
binx = int(binning[:1])
biny = int(binning[1:])
except:
binx=0
biny=binx
message='No binning information in '+file
print message
# if binned pixels are not square, correct keywords
if (binx != biny):
try:
val = hdu.header['DETSEC']
xstr = val.split('[')[-1].split(',')[0]
except:
message='ERROR: DETSEC not defined in '+file
print message
status=1
if status == 0:
# DATA section keyword
datastring='['+str(int(50)/binx+1)+':'+str(int(1074/binx))+',2:'+str(int(4102)/biny-1)+']'
hdu.header=updatekeyword(hdu.header, 'DATASEC', datastring, '')
# TRIM section keyword
trimstring='['+str(int(50)/binx+2)+':'+str(int(1074)/binx-1)+',3:'+str(int(4102)/biny-2)+']'
hdu.header=updatekeyword(hdu.header, 'TRIMSEC', trimstring, '')
# BIAS section keyword
if fmod(next,2):
biasstring='[2:'+str(int(50)/binx-1)+',2:'+str(int(4102)/biny-1)+']'
else:
biasstring='['+ str(int(1075)/binx+1)+':'+str(int(1124)/binx-1)+',2:'+str(int(4102)/biny-1)+']'
hdu.header=updatekeyword(hdu.header,'BIASSEC',biasstring,'')
# Write out the file
try:
struct.flush()
struct.close()
except:
message='Unable to upate '+file
# main code
parfile = iraf.osfn("pipetools$saltfixsec.par")
t = iraf.IrafTaskFactory(taskname="saltfixsec",value=parfile, function=saltfixsec, pkgname='pipetools')