Re: [Pytables-users] Simple fast array I/O with Pytables

On Dec 30, 2011, at 8:40 AM, Francesc Alted wrote: > 2011/12/30 Gael Varoquaux : >> Hi list, >> >> I am trying to do a simple comparison of various I/O libraries to save a >> bunch of numpy arrays. I don't have time to actually invest in PyTables >> now, but it has always been on my radar. I want

Re: [Pytables-users] Variable length arrays for each row in a table

As of 2009, I don't think this functionality was supported. You can look here for one solution "I always recommend": http://www.mail-archive.com/pytables-users@lists.sourceforge.net/msg01207.html If you store separate vlarrays for each trial, you can keep metadata on those vlarrays (guaranteed

[Pytables-users] Best way to refer to another array from within a table

NOTE - this has nothing to do with the ongoing soft / external reference thread. I'd like to have some large, heterogeneously sized arrays in my hdf5 file, and refer to them from within a table (can't put them in the table easily, as I want to accomodate very different sized, even maybe di

Re: [Pytables-users] Dimension Scales in PyTables

(Fernando, please forward this to anyone that you think might care / help!) I suspect you're not aware of Fernando's DataArray object, which is an implementation of named axes on a numpy array, but you can find his slides about it here: https://cirl.berkeley.edu/fperez/talks/0908_scipy_data

[Pytables-users] Non-descriptive error messages...

I'm pretty sure something like this has come up before on the list, but I figured I'd go for one more ping on it... I'm having some crashing with PyTables, and the result looks like the text below my signature... Is there simply no way to have a traceback to the relevant python code? Dav

Re: [Pytables-users] Basic question

On May 21, 2009, at 5:54 PM, David Warde-Farley wrote: > On 21-May-09, at 8:21 PM, Dav Clark wrote: > >> for i in range(1): >> f.createArray('/', 'array%d' % i, >> np.random.random(np.random.random_integers(10))) > > I may be wr

Re: [Pytables-users] Basic question

ample highlighted someplace. (Perhaps it is and I just missed it. I looked around quite a bit, though.) Do you know if it is possible to attach attributes to the array? I have just a few other scalars that I'd love to bundle up it. -robert On May 21, 2009, at 6:21 PM, Dav Clark wrote:

Re: [Pytables-users] Basic question

I feel like this is the same (only?) message I always send to people on the list... Have you considered simply storing each item as a separate atomic array? Then you don't need to mess with any of this VLArray stuff, or tables at all. I know it's called PyTables, but you can actually get

Re: [Pytables-users] Converting Well-Defined Python Dictionary to pytables rows

the single table take about 10 seconds. So, that's tolerable for now. I guess I could also go to a "file hierarchy" structured "database" ... I forget the standard linux directory file limit. But, I'm pretty happy with pytables. Thanks again, Mark On Sun, Ap

Re: [Pytables-users] [newbie] Array of records ?

help you index them better. Searching on a column then becomes a simple matter of searching on each of the tables in 'tuples', which will be considerably faster than the VL / ObjectAtom approach. There are a number of ways to get a group's children - I like pytablesfile.root...t

[Pytables-users] More from the wacky world of "plain" HDF5

is just as easy to set the File-level metadata to fix this - so maybe this is finally your way to coerce me into doing this with my plain HDF5... So, both of these are small, easy to work with issues. Not even bugs. But opportunities for (IMHO) improvement. Thanks

[Pytables-users] Strange differences in behavior via trMap

Well, I've gotta say that you guys have been doing a great job finding what seem to be some very subtle bugs!  In recognition of that - here is yet another that I've found!I've only tested the following so far on OS X - there is some similarity with my previous problem getting Unsupported types, so

[Pytables-users] pytables diff / merge

code in any Python SCM system. -- Dav Clark @Stanford / Wandell Lab 917-544-8408 ))<>(( --- This SF.Net email is sponsored by xPML, a groundbreaking scripting language that extends applications into web and mobile media. Attend the live

Re: [Pytables-users] 'Safe' operation with pytables

atlab (matlab can't delete things from HDF5 - indeed, it can only write things that are not already there, no changes at all)... bleh. Cheers, -- Dav Clark @Stanford / Wandell Lab 917-544-8408 ))<>(( --- This SF.Net email is spon

[Pytables-users] 'Safe' operation with pytables

system goes into production... corruption of the central repository would be terrible! Cheers, -- Dav Clark @Stanford / Wandell Lab 917-544-8408 ))<>(( HDF5-DIAG: Error detected in HDF5 library version: 1.6.5 thread 3086534336. Back trace follows. #000: H5Dio.c line 499 in H5D

Re: [Pytables-users] Re: Matlab experience?

On Wednesday 22 March 2006 03:35, Francesc Altet wrote: > El dg 19 de 03 del 2006 a les 11:38 -0800, en/na Dav Clark va escriure: > > Generally, if you keep everything simple - strings, basic arrays and > > scalars, matlab and pytables both read things fine. However, you > &g

[Pytables-users] Re: Matlab experience? (Achim Gaedke)

manual on how to properly set metadata for things like hdf5 compounds and such, so that pytables will read them. PyTables default behavior with things like compounds is not very robust at this point (so far as I can tell - it won't read them without proper metadata

[Pytables-users] Best practice for variable length array in/with a table

eems a little confusing, and probably not as efficient... Any advice on this would be great! Thanks, Dav Clark --- This SF.Net email is sponsored by xPML, a groundbreaking scripting language that extends applications into web and mobile media. At