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Re: Can somebody sponsor dialign-t



Le Tue, Nov 13, 2007 at 08:49:24PM -0200, Nelson A. de Oliveira a écrit :
> Hi again!
> 
> On Nov 13, 2007 8:34 PM, Nelson A. de Oliveira <naoliv@gmail.com> wrote:
> > It builds fine if using -O0
> > Do you want to use -O0 temporarily and upload it?
> 
> With -Os it also builds fine (-O1 fails)
> -Os is better than nothing (-O0)

Hi Nelson, this is a great idea !

Here is a benchmark I just made with bHLH proteins:

chouca〔source〕$ for i in dialign-t-O* ; do echo $i ; for j in 1 2 3 ;
do ./$i ../conf test2.fasta | grep time ; done ; done
dialign-t-O0
Total time: 23.690000 secs
Total time: 23.590000 secs
Total time: 23.590000 secs
dialign-t-O1
Total time: 17.350000 secs
Total time: 17.350000 secs
Total time: 17.340000 secs
dialign-t-O2
Total time: 16.750000 secs
Total time: 16.790000 secs
Total time: 16.760000 secs
dialign-t-O3
Total time: 17.040000 secs
Total time: 16.810000 secs
Total time: 16.800000 secs
dialign-t-Os
Total time: 17.920000 secs
Total time: 18.020000 secs
Total time: 17.960000 secs

chouca〔source〕$ ls -la dialign-t-O*
-rwxr-xr-x 1 charles charles  88445 2007-11-14 12:59 dialign-t-O0
-rwxr-xr-x 1 charles charles 103629 2007-11-14 12:58 dialign-t-O1
-rwxr-xr-x 1 charles charles 105311 2007-11-14 12:57 dialign-t-O2
-rwxr-xr-x 1 charles charles 114863 2007-11-14 12:57 dialign-t-O3
-rwxr-xr-x 1 charles charles  84256 2007-11-14 12:58 dialign-t-Os

Os is much better than O0, and the temporary loss of performance is in
my opinion acceptable.

I hope that we can make a few more serious benchmarks and decide which
options of compliation to use before Lenny's release; for the moment I
tend to override the upstream makefiles and use O2 everywhere. (And this
benchmark seems to confirm that it is not a too bad idea).

Have a nice day,

-- 
Charles Plessy
http://charles.plessy.org
Wako, Saitama, Japan



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