[AstroPy] PyFITS Too many open files

Nico Nell nico.nell@gmail....
Sat Jun 15 13:01:38 CDT 2013


Sorry -- I should have read the blip of code better.

So, what version of python and pyfits are you using? How many files are you
opening?

What happens if you add 'memmap=False' in each of your pyfits open() lines.
The pyfits mmap stuff is relatively new so maybe there is an issue.

~Nick


On Sat, Jun 15, 2013 at 11:29 AM, Nicholas Earl <nchlsearl@gmail.com> wrote:

> Sorry, but it seems I sent this back to only Nice Nell, and not the entire
> list!
>
> -----
>
> Thanks for the reply. I was under the impression that the with command
> automatically closed the file? Regardless, I went ahead and wrote the
> script up like this
>
> import pyfits
>
> for filename in os.listdir(directory):
>  kep_id = filename[4:13]
> fits = pyfits.open(directory + "/" + filename, ignore_missing_end=True)
>  time = fits[1].data["TIME"]
> energy = fits[1].data["ENERGY"]
>  fits.close()
>
> Unfortunately, I get the same error.
>
> Nicholas Earl
> Graduate Research Assistant
> San Diego State University
>
>
> On Fri, Jun 14, 2013 at 10:08 PM, Nico Nell <nico.nell@gmail.com> wrote:
>
>> You need to close the files once you have retrieved the data...
>>
>> See here:
>> http://pythonhosted.org/pyfits/api_docs/api_hdulists.html#pyfits.HDUList.close
>>
>> ~Nick
>>
>>
>> On Fri, Jun 14, 2013 at 10:51 PM, Nicholas Earl <nchlsearl@gmail.com>wrote:
>>
>>> Hello everyone,
>>>
>>> I'm having an issue with opening and retrieving information for a large
>>> amount of fits files. Mainly, I keep running into a mmap.error: [Errno
>>> 24] Too many open files error. The code I'm using is:
>>>
>>> import pyfits
>>>
>>> for filename in os.listdir(directory):
>>>  kep_id = filename[4:13]
>>>
>>> with pyfits.open(directory + "/" + filename, ignore_missing_end=True) as
>>> fits:
>>>  time = fits[1].data["TIME"]
>>> energy = fits[1].data["ENERGY"]
>>>
>>> Any ideas would be greatly appreciated!
>>>
>>> Nicholas Earl
>>> Graduate Research Assistant
>>> San Diego State University
>>>
>>> _______________________________________________
>>> AstroPy mailing list
>>> AstroPy@scipy.org
>>> http://mail.scipy.org/mailman/listinfo/astropy
>>>
>>>
>>
>
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