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extract_2006gy.py
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extract_2006gy.py
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from astropy.io import fits
from stistools.x1d import x1d
import numpy as np
import os
import sys
import shutil
import glob
from helper_functions import get_repository_path
def make_output_directory(extraction_box_height, extraction_box_start, sn_name, overwrite = False):
'''
Create an output directory for the extracted files to go into with the name
<sn_name>_loc_<extraction_box_start>_hgt_<extraction_box_height>
User will be asked before files are deleted if directory already exists
'''
output_dir = '{}_loc_{}_hgt_{}'.format(sn_name, extraction_box_start, extraction_box_height)
repo_path = get_repository_path()
new_dir_path = os.path.join(repo_path, output_dir)
if os.path.exists(new_dir_path):
if overwrite == False:
delete_dir = raw_input('{} exists, delete contents? y, n '.format(new_dir_path))
if delete_dir == 'n':
sys.exit('Output path already exists and you don\'t want to overwrite it')
flist = glob.glob(os.path.join(new_dir_path, 'ocdd*'))
for ifile in flist:
os.remove(ifile)
else:
os.makedirs(new_dir_path)
return new_dir_path
#----------------------------
def extract_for_a_single_dither_position(dither_exposure_names, dither_number, dither_step,
repo_path, output_dir,
extraction_box_start, extraction_box_height,
maxsearch = 0):
'''
Given a list of exposure names (corresponding to a dither number), extract a 1D spectrum
using Calstis.x1d.
Input:
dither_exposure_names: list
list of exposure numbers (as strings) to be extracted
dither_number: int
number to be multiplied by dither_step to create the offset from the extraction
box start
dither_step : float
the number of pixels in each dither step
repo_path : str
path to local repository
output_dir : str
directory where extracted files will be saved. flt and wave files are also copied
extraction_box_start : float
extraction location for the first dither position (y pixel)
extraction_box_height : int
height of the extraction box
maxsearch : int
the number of y offsets from the extraction_box_start which are searched to
find the spectrum.
Output:
x1d files
'''
os.environ['oref'] = os.path.join(repo_path, 'oref')+'/'
for exposure_number in dither_exposure_names:
input_filename = 'ocdd040{}_crj.fits'.format(exposure_number)
shutil.copy(os.path.join(repo_path, '2006gy', input_filename),
os.path.join(output_dir, input_filename))
shutil.copy(os.path.join(repo_path, '2006gy', input_filename.replace('crj', 'wav')),
os.path.join(output_dir, input_filename.replace('crj', 'wav')))
print input_filename
print output_dir
x1d(input = os.path.join(output_dir, input_filename),
a2center = extraction_box_start + (dither_number -1) * dither_step,
extrsize = extraction_box_height,
maxsrch = maxsearch,
verbose = True,
trailer = os.path.join(output_dir, input_filename.replace('crj.fits', 'trl.txt')))
#----------------------------
def extract_fuv_2006gy():
'''
Defines extraction location for 2006gy. Data taken with the FUV MAMA using 4 along
the slit dithers.
The MAMA along-the-slit dither pattern is specified with point spacing = 1 arcseconds
For the FUV plate scale = 0.0246 arcsec/pix --> 1 arcsecond = 40.6504065 pixels.
The dither position centers the target at ycenter = 340
'''
extraction_box_height = 20 #64 pixels
extraction_box_start = 509.#-32. #340
dither_step = 0.
repo_path = get_repository_path()
output_dir = make_output_directory(extraction_box_height, extraction_box_start, '2006gy')
extract_for_a_single_dither_position(['30'], 1, dither_step,
repo_path, output_dir,
extraction_box_start, extraction_box_height)
#----------------------------
def extract_nuv_2006gy():
'''
Defines extraction location for 2006gy. Data taken with the NUV MAMA using 4 along
the slit dithers.
The MAMA along-the-slit dither pattern is specified with point spacing = 1 arcseconds
For the NUV plate scale = 0.0248 arcsec/pix --> 1 arcsecond = 40.32 pixels.
The dither position centers the target at ycenter = 461 (340 + 120.8)
'''
extraction_box_height = 20 #200 pixels
extraction_box_start = 511.#-100.
dither_step = 0.
repo_path = get_repository_path()
output_dir = make_output_directory(extraction_box_height, extraction_box_start, '2006gy')
extract_for_a_single_dither_position(['10'], 1, dither_step,
repo_path, output_dir,
extraction_box_start, extraction_box_height,
maxsearch = 0)
#----------------------------
#----------------------------
if __name__ == "__main__":
extract_fuv_2006gy()
extract_nuv_2006gy()