[yt-users] pickle

[Elizabeth Tasker]

I also tried switching out pickle for the yt method of storing
objects. Unfortunately, it doesn't seem to save the object I want. I
tried:

contours = dd.extract_connected_sets("NegEscapeVelocity", 1, 30.0,
maxv, log_space=False)
contours.save_object("cloudcores", "storedcores.cpkl")

In [1]: contours.save_object("cloudcores", "storedcores.cpkl")
---------------------------------------------------------------------------
AttributeError                            Traceback (most recent call last)

/home/tasker/yt/src/yt-hg/scripts/iyt in <module>()
----> 1
      2
      3
      4
      5

AttributeError: 'tuple' object has no attribute 'save_object'

The alternative method --of saving it via the hierarchy-- is slightly
less good since I'm running multiple yt scripts on the same data set.
(As least, when I tried to load the values back in, it produced an
empty set which I presume was because I'd inadvertently overwritten
the .yt file?).

If I could get one of these working again, then I'd be super happy. I
don't need the all :)

Elizabeth


On 1 December 2011 12:35, Elizabeth Tasker
<tasker at astro1.sci.hokudai.ac.jp> wrote:
> Hi Matt,
>
> Sorry, that still doesn't work.... unless I've misunderstood your
> suggestion? The code is here:
>
> http://paste.yt-project.org/show/1974/
>
> Pickle + unpickle on a pile of properties I calculate from the
> connected sets is fine, but pickling the connected sets themselves is
> a problem. Could it be the later pickle doesn't require the parameter
> file? Or is it possible there is an unrelated write error happening?
>
> Elizabeth
>
> On 30 November 2011 23:43, Matthew Turk <matthewturk at gmail.com> wrote:
>> Hi Elizabeth,
>>
>> We recently changed the mechanism of storing parameter files to be
>> off-by-default, which means that rather than dumping them to a .csv
>> file, they only stay in memory.  This functionality can be turned back
>> on (this change is documented in the development documentation.)  Can
>> you try:
>>
>> 1) Loading your parameter file, *then* loading your pickle.  I am
>> optimistic this will fix it.
>> 2) If it doesn't, at the very top of your python script, put this:
>>
>> from yt.config import ytcfg; ytcfg["yt","storeparameterfiles"] = "True"
>>
>> -Matt
>>
>> On Wed, Nov 30, 2011 at 4:46 AM, Elizabeth Tasker
>> <tasker at astro1.sci.hokudai.ac.jp> wrote:
>>> Hi,
>>>
>>> A bigger problem....
>>>
>>> The lastest version of yt
>>>
>>> The current version of the code is:
>>>
>>> ---
>>> a519b8754ba8 (yt) tip
>>> ---
>>>
>>>
>>> has problems with pickle. If I pickle a data set and then try and
>>> unpickle it, I see:
>>>
>>> unpickle core data
>>> ---------------------------------------------------------------------------
>>> KeyError                                  Traceback (most recent call last)
>>>
>>> /home/tasker/yt/src/yt-hg/scripts/iyt in <module>()
>>>    338
>>>    339     #file = open('cores.pickle','rb')
>>> --> 340     allcloudcores = cPickle.load(file('cores.pickle', 'rb'))
>>>    341     file.close()
>>>    342
>>>
>>> /home/tasker/yt/src/yt-hg/yt/data_objects/data_containers.pyc in
>>> _reconstruct_object(*args, **kwargs)
>>>   3676         else: new_args.append(arg)
>>>   3677     pfs = ParameterFileStore()
>>> -> 3678     pf = pfs.get_pf_hash(pfid)
>>>   3679     cls = getattr(pf.h, dtype)
>>>   3680     obj = cls(*new_args)
>>>
>>> /home/tasker/yt/src/yt-hg/yt/utilities/parameter_file_storage.pyc in
>>> get_pf_hash(self, hash)
>>>    106     def get_pf_hash(self, hash):
>>>    107         """ This returns a parameter file based on a hash. """
>>> --> 108         return self._convert_pf(self._records[hash])
>>>    109
>>>    110     def get_pf_ctid(self, ctid):
>>>
>>> KeyError: (('283b7c4d88671dbff7acf083098da6ae',), <function
>>> _reconstruct_object at 0x272c938>,
>>> ('283b7c4d88671dbff7acf083098da6ae', 'region', array([ 16.,  16.,
>>> 16.]), array([ 0.,  0.,  0.]), array([ 32.,  32.,  32.]),
>>> {'disk_center': array([16, 16, 16]), 'center': array([ 16.,  16.,
>>> 16.]), 'bulk_velocity': array([ 0.,  0.,  0.]), 'disk_vector':
>>> array([0, 0, 1]), 'disk_radius': array([  0.1   ,   0.1358,   0.1716,
>>>  0.2074,   0.2432,   0.279 ,
>>>
>>>
>>>
>>>
>>> The fact it mentions the field parameters in the last line, might mean
>>> it's an error introduced because of the corrections to them (that I
>>> have been demanding!)?
>>>
>>> The script I have works fine (pickles and all) on yt version:
>>>
>>> ---
>>> 16e8d749a806 (yt) tip
>>> ---
>>>
>>>
>>> Elizabeth
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