Commit graph

429 commits

Author SHA1 Message Date
Pascal Wittmann f99d5cf2fc Fixed some descriptions 2015-04-28 10:55:20 +02:00
Thomas Tuegel 8ed9f847b1 openblas: update to 0.2.14 2015-04-24 18:21:20 -05:00
Thomas Tuegel c90744fcb5 openblas: downgrade to 0.2.12, build generic target 2015-04-17 07:35:19 -05:00
Nikolay Amiantov d5d8efa0b8 ipopt: update 2015-03-29 13:05:27 +03:00
Thomas Tuegel b692340441 openblas: fix build on i686 2015-02-26 06:44:03 -06:00
Nikolay Amiantov d6363498e0 ipopt: update package 2015-02-03 14:27:51 +03:00
Domen Kožar de9f27b07d remove biolib 2015-01-18 11:52:00 +01:00
Raffael Mancini 3878472f02 ipopt: fix build after minor gcc update (close #5519)
The configure script only checks for a specific version to enable a fix in
finding cstdlib and cstring.
2015-01-01 11:12:19 +01:00
Thomas Tuegel d582090a15 suitesparse: add version 4.4.1 2014-12-27 13:47:53 -06:00
Thomas Tuegel 81c0f94d74 arpack: build against atlasWithLapack 2014-12-27 13:40:40 -06:00
Thomas Tuegel 893f277bd7 arpack: version bump to 3.2.0 2014-12-27 13:40:40 -06:00
Thomas Tuegel 3ce76d4dd0 atlas: optionally build with full lapack 2014-12-27 13:40:40 -06:00
Thomas Tuegel 91657e30ca atlas: fix generic options
Build atlas with the generic options recommended by the upstream
documentation for distributions. The expression now takes the parameter
'threads' which configures the number of threads atlas will use. The
default is to build serial atlas ('threads = "0"'). The expression also
takes the parameter 'cacheEdge' which is the L2 cache per core, in
bytes. This reduces build time because the cache size doesn't need to be
detected. It also reduces impurity, since different build nodes on Hydra
may have different hardware. It is set to 256k by default, which is
recommended for distributions by the upstream documentation.
2014-12-27 13:40:40 -06:00
Thomas Tuegel 8a5d7e7944 openblas: version bump to 0.2.13 2014-12-27 13:40:40 -06:00
Nikolay Amiantov bfbb46ea92 ipopt: add package 2014-11-12 03:43:35 +03:00
Mateusz Kowalczyk 007f80c1d0 Turn more licenses into lib.licenses style
Should eval cleanly, as far as -A tarball tells me.

Relevant: issue #2999, issue #739
2014-11-06 00:48:16 +00:00
Thomas Tuegel 16901dcae2 atlas: add ttuegel as maintainer 2014-09-21 11:00:24 -05:00
Thomas Tuegel 1d8d3d8bbe atlas: version bump to 3.10.2 2014-09-21 11:00:24 -05:00
Thomas Tuegel 634b9ae6d4 openblas: add ttuegel as maintainer 2014-08-29 10:06:24 -05:00
Thomas Tuegel 9ade2dfa3c openblas: add local build preference to pinned versions 2014-08-29 10:06:24 -05:00
Thomas Tuegel df731f151f openblas: add version 0.2.11 2014-08-29 10:06:24 -05:00
Thomas Tuegel 40ccaa2b4c openblas: pin all the versions julia requires 2014-08-29 10:06:24 -05:00
Bjørn Forsman c9baba9212 Fix many package descriptions
(My OCD kicked in today...)

Remove repeated package names, capitalize first word, remove trailing
periods and move overlong descriptions to longDescription.

I also simplified some descriptions as well, when they were particularly
long or technical, often based on Arch Linux' package descriptions.

I've tried to stay away from generated expressions (and I think I
succeeded).

Some specifics worth mentioning:
 * cron, has "Vixie Cron" in its description. The "Vixie" part is not
   mentioned anywhere else. I kept it in a parenthesis at the end of the
   description.

 * ctags description started with "Exuberant Ctags ...", and the
   "exuberant" part is not mentioned elsewhere. Kept it in a parenthesis
   at the end of description.

 * nix has the description "The Nix Deployment System". Since that
   doesn't really say much what it is/does (especially after removing
   the package name!), I changed that to "Powerful package manager that
   makes package management reliable and reproducible" (borrowed from
   nixos.org).

 * Tons of "GNU Foo, Foo is a [the important bits]" descriptions
   is changed to just [the important bits]. If the package name doesn't
   contain GNU I don't think it's needed to say it in the description
   either.
2014-08-24 22:31:37 +02:00
Michael Raskin 33ef69390b Fix Julia 0.3.0 build (for most purposes). Not making default yet because it is unclear if I missed something important. Failed to make it use external openblas and lapack correctly… 2014-08-24 00:24:55 +04:00
Michael Raskin d2539c6ff5 Adding Julia 0.3.0: some progress, but doesn't work yet 2014-08-21 22:09:55 +04:00
Michael Raskin 9fe10c90fa Properly mark platform support for arpack in relation to its openblas dependency 2014-08-10 16:36:48 +04:00
Eelco Dolstra 8a7f3c3618 Mark a bunch of packages as broken or not supported on Darwin 2014-08-08 17:59:02 +02:00
Mateusz Kowalczyk 7a45996233 Turn some license strings into lib.licenses values 2014-07-28 11:31:14 +02:00
Rob Vermaas 1a6a797ec3 Add liblbfgs 1.10 2014-05-07 14:22:04 +02:00
Thomas Tuegel df5639183c Claim maintainership of recently added packages
Also set platforms for some packages where it was missing.
2014-03-07 11:23:30 -06:00
Thomas Tuegel 2bd2747a50 arpack: version 3.1.5, fix pkgconfig 2014-03-01 18:46:53 -06:00
Thomas Tuegel bcd9f04226 add arpack-3.1.4 2014-01-26 08:57:11 -06:00
Michael Raskin 4dad238bab Fix forced CPU choice according to current openblas documentation 2014-01-05 16:34:05 +04:00
Jonas Hoersch 5ddefd6155 blas: update to version 20110419 2013-09-17 16:40:34 +02:00
Peter Simons a940651968 liblapack: add myself as a maintainer and enable Hydra builds (in stdenv-updates) 2013-08-16 22:45:30 +02:00
Peter Simons 400d4a03b0 Update references to 'rLang' to the new name 'R'. 2013-07-04 23:41:22 +02:00
Peter Simons 3df0409cb6 liblapack: propagate the 'shared' flag to atlas 2013-07-04 13:42:47 +02:00
Evgeny Egorochkin 9c6f7cc9c1 Add package versions to some of the packages or fix existing ones to conform to nixpkgs conventions. 2013-06-07 03:15:45 +03:00
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