Hi Dave, Brian,
Just jumping into comment on Boost. Yes, it is welcomed and in fact
already used in the TPP (as well as the TPP-included ProteoWizard
project); however, because the Boost API and process of building Boost
libraries have not been particularly stable, we've found it necessary to
fix the version of Boost that we work with. Our current version is
1.39.0. As long as you can test against that, you're contributes would
be fine-- and no doubt very welcomed.
-Natalie
On 2/4/10 2:26 PM, Dave Trudgian wrote:
Brian,
Yup. I just discovered this too, as per other post. On our servers
it's not disk-bound, as the 1.6GB .pep.xml is fully cached, but the
continued rpeated slows things down.
R.E. solutions for this, is Boost code welcomed in the main TPP tools?
I think I can re-write using a single pass parse of the .pep.xml into
a Boost.MultiIndex hash of structs/classes containing the required
peptide info.
DT
Brian Pratt wrote:
Looking at the code I can see where this would easily become
diskbound for large data sets - it reads and rereads the same pepXML
files repeatedly, but the effect is probably masked by disk cacheing
up to a certain point. Somebody would need to write some logic for
cacheing the file contents to speed this up properly.
Brian
On Thu, Feb 4, 2010 at 12:09 PM, Jake W <[email protected]
<mailto:[email protected]>> wrote:
I've seen the same thing. On datasets where
ASAPRatioPeptideRatioParser completes in a few minutes,
ASAPRatioProteinRatioParser can take an hour or so. This is on a
Windows machine running TPP ver. 4.3.0.
Jake
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