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Author SHA1 Message Date
Eelco Dolstra 2aa6f262cb Merge remote-tracking branch 'origin/master' into stdenv-updates 2013-02-15 13:36:34 +01:00
Peter Simons 83df975ba8 atlas: allow users to override the CPU configuration used to build ATLAS 2013-02-06 12:27:23 +01:00
Peter Simons 3334f33daf atlas: update to version 3.10.1
This patch fixes issue #297.
2013-02-06 11:31:49 +01:00
Eelco Dolstra 5bb548d2e4 Merge remote-tracking branch 'origin/master' into stdenv-updates 2013-01-17 14:19:14 +01:00
Eelco Dolstra 7fd42a8380 Get rid of the "sf" alias for "sourceforge" 2013-01-14 12:00:32 +01:00
Eelco Dolstra ab3eeabfed Rename buildNativeInputs -> nativeBuildInputs
Likewise for propagatedBuildNativeInputs, etc.  "buildNativeInputs"
sounds like an imperative rather than a noun phrase.
2012-12-28 19:20:09 +01:00
Eelco Dolstra 5553546c21 Remove a bunch of unreferenced files
Plus a small number of obsolete packages (like old versions of qemu).
2012-11-29 13:43:37 +01:00
Ludovic Courtès bf08f68ccb blas: really fix installation on FreeBSD 2012-10-18 17:35:00 +02:00
Ludovic Courtès dc3fafe06d blas: `install -d' on FreeBSD 2012-10-18 10:21:24 +02:00
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