Thomas Tuegel
cd7cfcc9a2
arpack: include OpenBLAS path in pkgconfig file
2015-12-22 14:22:19 -06:00
Vladimír Čunát
ffb72182a6
blas: fix remains of hardcoded version
...
Thanks to @knedlsepp for pointing out
2b71fdbbc3 (commitcomment-14919659)
2015-12-11 10:25:40 +01:00
Pascal Wittmann
7fd2796e99
Replace 'with plaforms; platform' with 'platforms.platform'
2015-11-17 21:30:43 +01:00
Thomas Tuegel
9a2d5cb4d5
openblas: include which
on all platforms
...
The `f_check` script uses `which` to check that the Fortran compiler is
available. `which` is a shell built-in on NixOS, but not on Darwin or
other Linuxes.
2015-11-07 14:00:04 -06:00
Thomas Tuegel
841df2cd7a
openblas: use packaged LAPACK
...
Upstream began shipping OpenBLAS with LAPACK 3.4.1. This is the version
we were using in Nixpkgs anyway, so there is no reason to continue
copying the LAPACK sources into the build tree.
2015-11-07 14:00:04 -06:00
Thomas Tuegel
3d87c5f9c3
openblas: 0.2.14 -> 0.2.15
2015-11-05 10:24:31 -06:00
Thomas Tuegel
b3bb609b96
atlas: build on Linux only
...
Fixes #10808 .
2015-11-04 12:36:23 -06:00
Jude Taylor
9da6517c36
atlas: patch out usage of deprecated tmpnam on darwin
2015-10-30 20:15:26 -07:00
Vladimír Čunát
2b71fdbbc3
blas: fix by updating, fixes #10420 , close #10545
...
The new URL also looks more stable.
2015-10-22 20:13:33 +02:00
Nikolay Amiantov
d54a459063
ipopt: 3.12.3 -> 3.12.4
2015-10-15 17:06:23 +03:00
Thomas Tuegel
0daee71b1c
suitesparse: link shared library against openblas
2015-10-11 09:16:34 -05:00
Thomas Tuegel
eb300443f0
openblas: run tests
2015-10-11 09:16:27 -05:00
Thomas Tuegel
cd2c0e4e86
openspecfun: init at 0.4
2015-10-10 12:55:30 -05:00
Thomas Tuegel
f9e7011626
fixup! openlibm: init at 0.4.1
2015-10-10 12:55:08 -05:00
Thomas Tuegel
3436c78fc3
openlibm: init at 0.4.1
2015-10-09 19:02:01 -05:00
Thomas Tuegel
aa4efac850
arpack: update homepage
2015-09-16 11:08:39 -05:00
danshapero
8885889b48
metis: init at 5.1.0
2015-08-13 16:53:18 +02:00
Thomas Tuegel
74e4f6befa
ipopt: build with openblas
2015-06-12 07:26:47 -05:00
Thomas Tuegel
71b848b45d
openblas: build with USE_OPENMP=0 on Darwin
...
Darwin's clang does not support OpenMP yet. OpenMP is required on other
platforms for e.g. Julia.
2015-06-09 06:34:52 -05:00
Thomas Tuegel
fff0191f48
arpack: build with openblas
2015-06-04 17:42:03 -05:00
Thomas Tuegel
e36b3ec0a5
suitesparse: build shared libraries
2015-06-04 17:42:03 -05:00
Thomas Tuegel
a17d8bcc4b
suitesparse_4_4: update to 4.4.4
2015-06-04 17:42:02 -05:00
Thomas Tuegel
e5ee1a0577
suitesparse: remove unnecessary patches
2015-06-04 17:42:02 -05:00
Thomas Tuegel
b02f300c44
suitesparse_4_4_1: build with openblas
...
Compared to ATLAS, OpenBLAS offers better performance, faster builds,
and dynamic architecture detection.
2015-06-04 17:42:01 -05:00
Thomas Tuegel
982aabc561
suitesparse_4_2: build with openblas
...
Compared to ATLAS, OpenBLAS offers better performance, faster builds,
and dynamic architecture detection.
2015-06-04 17:42:01 -05:00
Thomas Tuegel
b4eb8a5bc3
openblas: remove old expressions
2015-06-04 17:42:01 -05:00
Thomas Tuegel
86fb034008
openblas: build with native-width integers by default
2015-06-04 17:42:01 -05:00
Thomas Tuegel
14ee766024
openblas: set NUM_THREADS and USE_OPENMP
2015-06-04 17:42:00 -05:00
Peter Simons
d3073741a3
Merge pull request #8042 from adnelson/liblapack_atlas_dependency_optional
...
Liblapack atlas dependency optional
2015-05-30 19:25:54 +02:00
Allen Nelson
e001340cf6
returned to two-file structure for liblapack
2015-05-28 21:49:06 -05:00
Peter Simons
99273a6716
Merge pull request #8047 from nckx/master
...
Don't use "with licenses;" for single licences
2015-05-28 22:14:53 +02:00
Peter Simons
bcd5dc6bac
Merge pull request #8023 from thinkpad20/pure_liblapack
...
added cmake flag to prevent autodetection of SDK directory
2015-05-28 21:44:07 +02:00
Allen Nelson
2c125cf37a
removed default dependency of liblapack on ATLAS. was causing an unnecessary double-build of atlas
2015-05-28 12:39:49 -05:00
Tobias Geerinckx-Rice
158e1cfdd0
Don't use "with licenses;" for single licences
...
And don't use square brackets on such lines.
2015-05-28 19:20:29 +02:00
Tobias Geerinckx-Rice
b2d7f4b1ba
Use common licence attributes from lib/licenses.nix
...
Many (less easily automatically converted) old-style strings
remain.
Where there was any possible ambiguity about the exact version or
variant intended, nothing was changed. IANAL, nor a search robot.
Use `with stdenv.lib` wherever it makes sense.
2015-05-27 22:00:06 +02:00
Allen Nelson
6eb8ff878d
added cmake flag to prevent autodetection of SDK directory
2015-05-27 12:42:40 -07:00
Allen Nelson
2a0a5c697e
added clang dependency, using unix platform
2015-05-18 17:47:03 -05:00
Allen Nelson
b4b6215523
added flags/switches necessary to get openblas to compile on osx
2015-05-18 17:01:43 -05:00
Nikolay Amiantov
f1b51945bc
ti-rpc: update package
2015-05-18 17:21:08 +03:00
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