+1
I'm already making the 2 to 3 transition, so have left pytables for
awhile ;[. It's great news that the next version will be py3k
compatible! Style change will be a good thing as far as I'm
concerned.
On Wed, Jul 25, 2012 at 12:39 PM, Andre' Walker-Loud
wrote:
> +1
>
> while it will be painf
I'll join in the guessing game.
This looks, in part, a way to store a huge multiple sequence alignment with
a reference sequence (the first character in ( ) being the DNA base in a
reference DNA molecule, but due to the inequal lengths in each VLA, it would
seem that gaps are not stored, or stored
Oops. I thought I was reading the array off disk for the speed test, but
apparently the array was already in RAM. Changing this so that I read the
array, eg where(a[:] == id), takes about the same time as searching for the
id value in a table.
Sorry about that.
Rich
---
I've been finding pytables useful for organizing big genomics data (e.g.
storing and querying ~200 Gb all vs all uniparc smith-waterman hits from
Uniprot).
One thing that has surprised me a little:
I was interested in the efficiency of querying small tables storing an index
(integer) and an integ
