I'm trying to open a .fits file and read data from it using the pyFITS module for Python 2.7. Below is the code snippet which I'm running to try to attain the data from the file:
location = raw_input("Locaiton of FITS file: ") """user input location for the file"""
hdulist = pyfits.open(location) """opens the .fits file (works properly)"""
print(repr(hdulist[0].header)) """printed values shown below, works properly"""
pyfits.getdata(location, hdulist[0].header['TOTVALS']) """does NOT work"""
I know that the file's being opened properly; when I run print(repr(hdulist[0].header)), the console shows
Warning (from warnings module):
File "C:\Python27\lib\site-packages\pyfits\verify.py", line 69
warnings.warn(u'Output verification result:')
UserWarning: Output verification result:
Warning (from warnings module):
File "C:\Python27\lib\site-packages\pyfits\verify.py", line 73
warnings.warn(line, VerifyWarning)
VerifyWarning: Card 'CRDER1' is not FITS standard (invalid value string: nan). Fixed 'CRDER1' card to meet the FITS standard.
Warning (from warnings module):
File "C:\Python27\lib\site-packages\pyfits\verify.py", line 74
warnings.warn(u'Note: PyFITS uses zero-based indexing.\n')
UserWarning: Note: PyFITS uses zero-based indexing.
Warning (from warnings module):
File "C:\Python27\lib\site-packages\pyfits\verify.py", line 69
warnings.warn(u'Output verification result:')
UserWarning: Output verification result:
Warning (from warnings module):
File "C:\Python27\lib\site-packages\pyfits\verify.py", line 73
warnings.warn(line, VerifyWarning)
VerifyWarning: Card 'CRDER2' is not FITS standard (invalid value string: nan). Fixed 'CRDER2' card to meet the FITS standard.
Warning (from warnings module):
File "C:\Python27\lib\site-packages\pyfits\verify.py", line 74
warnings.warn(u'Note: PyFITS uses zero-based indexing.\n')
UserWarning: Note: PyFITS uses zero-based indexing.
Warning (from warnings module):
File "C:\Python27\lib\site-packages\pyfits\verify.py", line 69
warnings.warn(u'Output verification result:')
UserWarning: Output verification result:
Warning (from warnings module):
File "C:\Python27\lib\site-packages\pyfits\verify.py", line 73
warnings.warn(line, VerifyWarning)
VerifyWarning: Card 'CSYSER1' is not FITS standard (invalid value string: nan). Fixed 'CSYSER1' card to meet the FITS standard.
Warning (from warnings module):
File "C:\Python27\lib\site-packages\pyfits\verify.py", line 74
warnings.warn(u'Note: PyFITS uses zero-based indexing.\n')
UserWarning: Note: PyFITS uses zero-based indexing.
Warning (from warnings module):
File "C:\Python27\lib\site-packages\pyfits\verify.py", line 69
warnings.warn(u'Output verification result:')
UserWarning: Output verification result:
Warning (from warnings module):
File "C:\Python27\lib\site-packages\pyfits\verify.py", line 73
warnings.warn(line, VerifyWarning)
VerifyWarning: Card 'CSYSER2' is not FITS standard (invalid value string: nan). Fixed 'CSYSER2' card to meet the FITS standard.
Warning (from warnings module):
File "C:\Python27\lib\site-packages\pyfits\verify.py", line 74
warnings.warn(u'Note: PyFITS uses zero-based indexing.\n')
UserWarning: Note: PyFITS uses zero-based indexing.
and then prints
SIMPLE = T / file does conform to FITS standard
BITPIX = 32 / number of bits per data pixel
NAXIS = 2 / number of data axes
NAXIS1 = 4096 / length of data axis 1
NAXIS2 = 4096 / length of data axis 2
EXTEND = T / FITS dataset may contain extensions
COMMENT FITS (Flexible Image Transport System) format is defined in 'Astronomy
COMMENT and Astrophysics', volume 376, page 359; bibcode: 2001A&A...376..359H
DATE = '2014-01-27T07:17:01'
DATE-OBS= '2014-01-27T06:34:10.00'
TELESCOP= 'SDO/HMI'
INSTRUME= 'HMI_SIDE1'
WAVELNTH= 6173.0
CAMERA = 1
BUNIT = 'Gauss'
ORIGIN = 'SDO/JSOC-SDP'
CONTENT = 'MAGNETOGRAM'
QUALITY = 1024
QUALLEV1= 1073741824
HISTORY Polynomial Coefficients used for Doppler velocity correction: 8.071746e+
HISTORY 01 5.340511e-03 -2.036568e-06 -7.976842e-10
COMMENT De-rotation: ON; Un-distortion: ON; Re-centering: ON; Re-sizing: OFF; co
COMMENT rrection for cosmic-ray hits; dpath=/home/jsoc/cvs/Development/JSOC/proj
COMMENT /lev1.5_hmi/apps/; linearity=1 with coefficients updated on 2014/01/15;
COMMENT smooth=1; propagate eclipse bit from level 1; use of larger crop radius
COMMENT look-up tables
BLD_VERS= '-802'
HCAMID = 2
SOURCE = 'hmi.lev1_nrt[:#57580483,#57580411,#57580338,#57580272,#57580184,#575'
TOTVALS = 12841850
DATAVALS= 12841850
...remaining values omitted...
The problem arises when I try pyfits.getdata(location, hdulist[0].header['TOTVALS']). The error message returned is
Traceback (most recent call last):
File "C:\Users\User\Desktop\openFITS.py", line 34, in <module>
pyfits.getdata(location,hdulist[0].header['TOTVALS'])
File "C:\Python27\lib\site-packages\pyfits\convenience.py", line 181, in getdata
hdu = hdulist[extidx]
File "C:\Python27\lib\site-packages\pyfits\hdu\hdulist.py", line 166, in __getitem__
return super(HDUList, self).__getitem__(idx)
IndexError: list index out of range
print(len(hdulist)) returns 1; so I know that the index 0 shouldn't be out of range. Thus, the question is why I can't get the raw data in the header 'TOTVALS' from the hdulist, even though it seems that everything else is working fine.
Thanks in advance for your help!
