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182 Commits

Author SHA1 Message Date
Michael Raskin
901574fe8a Julia language: update to a fresh version 
Update julia and some of its dependencies

Split PCRE because a lot of packages depend on it and I am not sure we
want to test them in a hurry (and Julia specifies exact version).
 2012-08-02 17:48:36 +04:00
Lluís Batlle i Rossell
8f50680a05 I hope now I guess fine how to tell ATLAS not to accept any simd for i686. 
svn path=/nixpkgs/trunk/; revision=33793
 2012-04-15 12:44:48 +00:00
Lluís Batlle i Rossell
2e753bc4cf Typo again in atlas. 
svn path=/nixpkgs/trunk/; revision=33791
 2012-04-15 08:11:12 +00:00
Lluís Batlle i Rossell
023cd3b7bd Oh, I removed -fPIC in my last atlas commit. I didn't mean to. 
svn path=/nixpkgs/trunk/; revision=33790
 2012-04-15 07:58:58 +00:00
Lluís Batlle i Rossell
30d7a7fbe1 I think we better disable SIMD for i686. Or it can detect whatever the machine has. 
svn path=/nixpkgs/trunk/; revision=33789
 2012-04-14 22:00:12 +00:00
Lluís Batlle i Rossell
60ecc500f9 Trying to fix atlas i686. I set Pentium II and having sse/sse2 at the same time for i686... 
I think Pentium II does not have sse.


svn path=/nixpkgs/trunk/; revision=33787
 2012-04-14 18:58:30 +00:00
Lluís Batlle i Rossell
4250dd8104 I made atlas build for fixed architectures. 
We saw a crash in many computers, in the octave check phase, where octave crashed.
It was due to atlas being built for AMD Family 10h, which has a special SSE
trick that others computer don't have.

For x86_64, atlas is for K7. And for i686, PII.


svn path=/nixpkgs/trunk/; revision=33780
 2012-04-13 18:46:24 +00:00
Michael Raskin
3c69bcf348 Support shared library build; tests do not currently work for shared build. 
svn path=/nixpkgs/trunk/; revision=33613
 2012-04-05 12:18:56 +00:00
Michael Raskin
2f97078c96 Support shared library build 
svn path=/nixpkgs/trunk/; revision=33612
 2012-04-05 12:18:08 +00:00
Peter Simons
e321903ff1 Atlas aborts the build some kind of CPU frequency scaling is detected on the 
build machine because that feature offsets the performance timings. We ignore
that check, however, because with binaries being pre-built on Hydra those
timings aren't accurate for the local machine in the first place. The build log
might show something such as the following:

 | It appears you have cpu throttling enabled, which makes timings
 | unreliable and an ATLAS install nonsensical.  Aborting.
 | See ATLAS/INSTALL.txt for further information
 | Ignoring CPU throttling by user override!

svn path=/nixpkgs/trunk/; revision=32506
 2012-02-23 11:33:26 +00:00
Lluís Batlle i Rossell
4d4d324776 Making liblapack do the check phase 
svn path=/nixpkgs/trunk/; revision=32494
 2012-02-22 22:41:27 +00:00
Lluís Batlle i Rossell
8f7485d784 Making atlas do the check phase. 
svn path=/nixpkgs/trunk/; revision=32493
 2012-02-22 22:40:35 +00:00
Lluís Batlle i Rossell
e4c4ab35e5 I think I fixed atlas for i686. It wants '-b 32'. Why, I don't know. 
svn path=/nixpkgs/trunk/; revision=32471
 2012-02-22 11:37:10 +00:00
Lluís Batlle i Rossell
5e2de19cc1 Fixing octave, so plot(1) works. 
Linking octave with clapack did not work.

I updated lapack, and additionally I build it with atlas, instead of blas. That should give
better performance. I don't know if atlas builds everywhere though.

On the other hand, maybe some programs linking with liblapack will fail. We'll have to check
the hydra reports.

I plan to remove clapack; liblapack provides a C interface too.


svn path=/nixpkgs/trunk/; revision=32464
 2012-02-21 21:43:44 +00:00
Lluís Batlle i Rossell
2847a37fa9 Updating atlas to 3.9.67, the latest development version 
svn path=/nixpkgs/trunk/; revision=32458
 2012-02-21 14:49:36 +00:00
Eelco Dolstra
6609710409 * Get rid of many instances of "args: with args;", and other coding 
guidelines violations.
* Updated libsamplerate to 0.1.7.

svn path=/nixpkgs/trunk/; revision=22782
 2010-07-28 11:55:54 +00:00
David Guibert
3563194637 compile static libraries for blas and lapack 
svn path=/nixpkgs/trunk/; revision=22549
 2010-07-09 13:15:56 +00:00
Eelco Dolstra
0a882d423b * Fix stdenv evaluation - use ${stdenv.shell} instead of 
${stdenv.bash}/bin/bash.

svn path=/nixpkgs/trunk/; revision=19723
 2010-01-29 00:17:59 +00:00
Peter Simons
30bbff2b68 pkgs/development/libraries/science/math/liblapack: fixed license tag 
Thanks to Ludovic Courtès for pointing that out.

svn path=/nixpkgs/trunk/; revision=19687
 2010-01-26 19:28:09 +00:00
Peter Simons
6a61d675bb pkgs/development/libraries/science/math/blas: set license to "public domain" 
It's not entirely clear whether BLAS is in the public domain, but according to
<87636orixx.fsf@gnu.org> Debian did classify it that way, and the license text
sure feels like the authors intend the package to be in the public domain. So
here we are.

svn path=/nixpkgs/trunk/; revision=19686
 2010-01-26 19:28:03 +00:00
Peter Simons
8cb6ced793 pkgs/development/libraries/science/math/liblapack: fixed build and updated to version 3.2.1 
svn path=/nixpkgs/trunk/; revision=19672
 2010-01-26 14:53:13 +00:00
Peter Simons
a5030f06df pkgs/development/libraries/science/math/blas: added BLAS version 20070405 
svn path=/nixpkgs/trunk/; revision=19671
 2010-01-26 14:53:08 +00:00
Marc Weber
94ba737704 fix atlas by Tobias Neumann 
svn path=/nixpkgs/trunk/; revision=15685
 2009-05-21 17:39:17 +00:00
Lluís Batlle i Rossell
645279d544 Updating atlas 
svn path=/nixpkgs/trunk/; revision=14957
 2009-04-08 22:08:05 +00:00
Marc Weber
d97a7e08bc make atlas build again (tested on amd64) 
svn path=/nixpkgs/trunk/; revision=13560
 2008-12-02 22:55:33 +00:00
Pjotr Prins
3ce5cba9c7 Added pkgMaintainer info to these 'biology' section packages. 
svn path=/nixpkgs/trunk/; revision=12987
 2008-10-07 15:12:06 +00:00
Pjotr Prins
b3aa5d6bfc Added meta.pkgMaintainer to biology packages - a claim to fame, or 
you know who to blame!

svn path=/nixpkgs/trunk/; revision=12986
 2008-10-07 15:12:01 +00:00
Pjotr Prins
2391d84867 Two math packages 
svn path=/nixpkgs/trunk/; revision=12955
 2008-10-05 09:01:59 +00:00
Pjotr Prins
73d2e4f49d - Some Ruby interpreter bumped version 
- Kernel headers 2.6.18 added (XEN virtual images)
- unifdef package added for kernel headers 2.6.18
- Python Zope and 4suite added
- Trying bioconductor packages with R-lang (still failing)
- Bumped gmp version
- Added rq cluster runner - still requires extra gems (installs, but does not run)


svn path=/nixpkgs/trunk/; revision=12766
 2008-08-29 13:53:28 +00:00
Pjotr Prins
07595b0397 Introduced biolib package 
svn path=/nixpkgs/trunk/; revision=12535
 2008-08-07 15:01:21 +00:00
Pjotr Prins
289da88ccc Moved NCBI-tools to applications 
svn path=/nixpkgs/trunk/; revision=12004
 2008-06-07 06:34:02 +00:00
Pjotr Prins
d78d018ad8 Added ncbi-tools 
svn path=/nixpkgs/trunk/; revision=12003
 2008-06-06 19:42:00 +00:00