Okay, let's back out that changeset. I think it is okay to mandate an instantiated hierarchy if you want to have detailed, output-specific field information.
Matt and Stephen,
I can confirm that the seg fault disappears on Mac OS X when updating to h5py-2.0.1, though a simple projection is still giving an out of bounds error on a simple unigrid data set. Not sure why that occurs. But I think Matt is definitely right about h5py:
p = pc.add_projection('Density',0)
File "/Users/hallman/work/yt-i386/lib/python2.7/site-packages/yt-2.4dev-py2.7-macosx-10.4-x86_64.egg/yt/visualization/plot_collection.py", line 758, in add_projection
**field_parameters)
File "/Users/hallman/work/yt-i386/lib/python2.7/site-packages/yt-2.4dev-py2.7-macosx-10.4-x86_64.egg/yt/data_objects/data_containers.py", line 1930, in __init__
self._refresh_data()
File "/Users/hallman/work/yt-i386/lib/python2.7/site-packages/yt-2.4dev-py2.7-macosx-10.4-x86_64.egg/yt/data_objects/data_containers.py", line 309, in _refresh_data
self.get_data()
File "/Users/hallman/work/yt-i386/lib/python2.7/site-packages/yt-2.4dev-py2.7-macosx-10.4-x86_64.egg/yt/data_objects/data_containers.py", line 2127, in get_data
pdxs = na.concatenate(pdxs, axis=1)
IndexError: axis 1 out of bounds [0, 1)
On Mar 15, 2012, at 4:55 AM, Matthew Turk wrote:
> Hi Stephen,
>
> A bunch of people have been reporting segfaults. I am starting to
> think it may be an issue of an older h5py combined with this change,
> which may build up multiple copies of the hierarchy and keep multiple
> copies of a file (in this case the data file) open.
>
> I think we should consider backing this change out, and providing it
> in a more subtle way -- for instance, making field info just always
> create the hierarchy. Here it actually almost always creates it
> twice. Remove the deletion, just leave the hierarchy in existence.
>
> -Matt
>
> On Wed, Mar 14, 2012 at 10:46 PM, Stephen Skory <s@skory.us> wrote:
>> Bah humbug.
>>
>> I did a fresh install on my mac, and the problem went away. I wonder
>> what cruft I had left over was getting in the way? I deleted the .yt
>> file etc...
>>
>> Anyway, sorry for the noise, move along.
>>
>> --
>> Stephen Skory
>> s@skory.us
>> http://stephenskory.com/
>> 510.621.3687 (google voice)
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