I was able to view the data just fine in e.g. ds9, there's nothing wrong with it. ds9 even handles 3D cubes these days.On 02/20/2013 06:24 AM, Kacper Kowalik wrote:
On 02/20/2013 11:09 AM, Francisco Ocaña González wrote:Dear Eli,Hi Paco!I found a post about 3D data in YT , http://astrobiased.com/3d-data-vis-in-yt.html , very interesting. I am working with spectral cubes from PMAS Spectrograph (at 3.5m CAHA telescope). Thus, I tried to use it. I am newbie with python, but I was able to install everything :-)Great to hear that!However I get an error message when loading the data into yt's data structure (script http://paste.yt-project.org/show/3182/ ): ERROR: ValueError: total size of new array must be unchanged [yt.frontends.stream.data_structures] astropy: [ERROR ] 2013-02-20 10:46:53,395 ValueError: total size of new array must be unchanged Traceback (most recent call last): File "3d_viewer.py", line 9, in <module> pf = load_uniform_grid(data, cube.shape, 9e16) File "/home/fog/YT/yt-x86_64/src/yt-hg/yt/frontends/stream/data_structures.py", line 490, in load_uniform_grid grid_dimensions = domain_dimensions.reshape(nprocs,3).astype("int32") ValueError: total size of new array must be unchangedThat happens due to the fact that load_uniform_grid expects that data has 3 dimensions, whereas the data from your fits has only 2. You can "fix" that by artificially adding one dimension by e.g. using numpy function "expand_dims". I've modified your script slightly: http://bpaste.net/show/78501/ I hope it'll work for you. Cheers, Kacper
but to me it looks like this data is unsuitable for yt. Perhaps the 984 positions along the Y axis of this fits image can be re-arranged in an RA-DEC grid, and create a real 3D cube, something like a 30 x 30 x 2000, perhaps along the lines Kacper has tried out, but the fits file does not contain this information how to do that, in fact the FITS header is criminally close to being useless. There's no WCS to speak of.
More seriously, before interesting things can be seen, the data need to be calibrated. lines extracted, fitted, and you could perhaps see some interesting structures in doppler-velocity space. I would look at IRAF to handle this, they have lots of tools to handle such spectra.
peter
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