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Author SHA1 Message Date
Renaud 6186a6f012
Merge pull request #58484 from sveitser/cudnn-v7.4.2 
cudnn_cudatoolkit_10: 7.3.1 -> 7.4.2
 2019-04-24 22:40:17 +02:00
Daniel Schaefer bac4d95aa2 treewide: Change URLs to HTTPS 
Lots of URLs were HTTP redirect to HTTPS. Changed those and checked them
if there's actual content. Inspired by
https://github.com/NixOS/nixpkgs/issues/60004
 2019-04-22 10:19:54 +02:00
Mateusz Kowalczyk 575d6a4826
Merge pull request #58417 from andersk/ortools-7.0 
or-tools: 6.10 -> 7.0, add Python bindings
 2019-04-20 17:39:23 +09:00
Matthew Bauer f475aeaf29
Merge pull request #59535 from matthewbauer/homepage-fixes 
treewide: update homepages to https where available
 2019-04-15 20:47:30 -04:00
Matthew Bauer 290a5d916e treewide: update homepages to https where available 
Based on "problems" from repology:

https://repology.org/repository/nix_unstable/problems

Mostly simple changes to reflect redirects.
 2019-04-15 10:10:05 -04:00
Dmitry Kalinkin 59c81160e7
Merge pull request #58504 from symphorien/static-proot 
Static proot, wafHook cross compilation
 2019-04-13 12:04:32 -04:00
Matthew Bauer a79a8f29bc waf: use wafConfigureFlags for waf flags 
This avoids the potential conflict between autoconf flags and the waf
flags. There is some overlap between the two but waf errors when it
doesn’t recognize the flag.
 2019-04-09 23:44:37 -04:00
Frederik Rietdijk d108b49168 Merge master into staging-next 2019-04-09 16:38:35 +02:00
Vladimír Čunát e1f55599cc
Merge #58589: openblas: fix aarch64 build 2019-04-07 16:58:42 +02:00
Jan Tojnar cb1a20499a
Merge branch 'master' into staging 2019-04-05 11:37:15 +02:00
Markus Kowalewski 70867a92f6
arpack: fix tests on darwin 2019-04-03 10:48:52 +02:00
Markus Kowalewski 9a60a65249
arpack: 3.6.3 -> 3.7.0 
* switch to FetchFromGitHub
* switch from autotools to cmake
* add eigen to input (is now required)
 2019-04-03 10:48:52 +02:00
Markus Kowalewski 734c6c21cb
mkl: 2019.0.117 -> 2019.3.199 2019-04-01 21:50:23 +02:00
Markus Kowalewski fa28a838f3
openblas: fix aarch64 build 2019-03-31 12:19:41 +02:00
Markus Kowalewski 4c74ee948e
clblas: turn of gtest, fix build 
clblas does not work anymore with gmock 1.8.1.
Turning off the test suite fixes the build.
 2019-03-29 13:59:45 +01:00
sveitser e29e315c5f
cudnn_cudatoolkit_10: 7.3.1 -> 7.4.2 2019-03-28 21:49:13 +08:00
Anders Kaseorg ae6b9dcb0e or-tools: 6.10 -> 7.0 
Signed-off-by: Anders Kaseorg <andersk@mit.edu>
 2019-03-26 17:04:03 -07:00
Anders Kaseorg 08e9273e29 or-tools: Add Python bindings 
Signed-off-by: Anders Kaseorg <andersk@mit.edu>
 2019-03-26 17:04:03 -07:00
Wael M. Nasreddine 5af0780492
Merge remote-tracking branch 'origin/master' into staging 
* origin/master: (693 commits)
  buildGoModule: use go_1_12 instead of go_1_11 (#58103)
  gitAndTools.lab: 0.15.2 -> 0.15.3 (#58091)
  signal-desktop: 1.22.0 -> 1.23.0
  added missing semicolon to documentation
  terminus_font_ttf: 4.46.0 -> 4.47.0
  buildGoModule: remove SSL env vars in favor of cacert in buildInputs (#58071)
  dav1d: init at 0.2.1
  dropbox-cli: 2018.11.28 -> 2019.02.14
  atlassian-confluence: 6.14.1 -> 6.14.2
  maintainers: update email for dywedir
  python.pkgs.hglib: use patch to specify hg path (#57926)
  chkrootkit: 0.52 -> 0.53
  radare2-cutter: 1.7.2 -> 1.8.0
  autorandr: 1.7 -> 1.8
  pythonPackages.pyhepmc: fix build
  llvm-polly/clang-polly: use latest llvm
  apulse: 0.1.11.1 -> 0.1.12, cleanup
  factorio: experimental 0.17.14 → 0.17.16 (#58000)
  sequeler: 0.6.7 -> 0.6.8
  nasc: 0.5.1 -> 0.5.2
  ...
 2019-03-21 21:01:25 -07:00
R. RyanTM e14d70d955 primesieve: 7.3 -> 7.4 (#57375) 
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/primesieve/versions
 2019-03-12 22:43:56 +01:00
Matthew Bauer 37eba81c7b
Merge pull request #56391 from matthewbauer/cmake-treewide 
Add more CMake flags
 2019-03-11 12:43:46 -04:00
Matthew Bauer 6ed49262f5 treewide: remove BUILD_TESTING flag 
This is now set by CMake
 2019-03-11 10:11:28 -04:00
R. RyanTM cac06fc53d ipopt: 3.12.11 -> 3.12.12 
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/ipopt/versions
 2019-03-03 20:47:42 +01:00
Averell Dalton d7806fe4ed openblas: adjust makeFlags handling 2019-02-23 09:13:57 +01:00
Markus Kowalewski dbf5135385
scalapack: update meta data 
* Set platform from linux -> x86_64-linux
  Scalapack does not seem to run properly on ARM (failing tests)

* Add markuskowa as maintainer
 2019-02-21 15:08:33 +01:00
Markus Kowalewski 4aa90ac089
scalapack: add openmpi4 compatibility patch 2019-02-21 15:08:32 +01:00
Will Dietz 32322da1a6 openblas: fix config breakage introduced for configs using 'false' 
My earlier change mistakenly expected `toString false` to produce '0'
instead of the empty string, leading to unexpected config changes.

Intended to address issue mentioned here and in following discussion:

https://github.com/NixOS/nixpkgs/pull/53972#issuecomment-459981602

Sorry, folks!

(special-case handling of bools here makes this "cleanup" a bit
 less of an obvious win but hopefully still preferable overall :))

-----------

makeFlags in resulting derivation, according to this one-liner:

$ nix show-derivation -f . openblas|jq ".[].env.makeFlags"

before:
"BINARY=64 CC=cc CROSS= DYNAMIC_ARCH=1 FC=gfortran HOSTCC=cc INTERFACE64=1 NO_BINARY_MODE= NO_STATIC=1 NUM_THREADS=64 PREFIX=/1rz4g4znpzjwh1xymhjpm42vipw92pr73vdgl6xs1hycac8kf2n9 TARGET=ATHLON USE_OPENMP=1"

after:
"BINARY=64 CC=cc CROSS=0 DYNAMIC_ARCH=1 FC=gfortran HOSTCC=cc INTERFACE64=1 NO_BINARY_MODE=0 NO_STATIC=1 NUM_THREADS=64 PREFIX=/1rz4g4znpzjwh1xymhjpm42vipw92pr73vdgl6xs1hycac8kf2n9 TARGET=ATHLON USE_OPENMP=1"

Without knowing how `placeholder` works, it seems interesting if
entirely unrelated that the `PREFIX` is same for both! :). TIL.
 2019-02-17 19:51:55 +01:00
Dylan Simon e69fdc1715 sympow: fix patch url to working revision (#55778) 
fix_pointer_initialization2.patch no longer exists on trunk -- download
from a fixed older revision where it did.
 2019-02-14 21:10:37 +01:00
Matthew Bauer 2433c575f0 openblas: fix on linux 
This reverse changes made cfc4313 which broke builds on linux. Still
not sure why this broke Linux, but we can investigate it later.
“buildPackages.stdenv.cc” shouldn’t be put in nativeBuildInputs in
general. Either way, this restores hashes to before that commit.

thanks to @jethrokuan
 2019-02-10 20:16:16 -05:00
Matthew Bauer cfc43138cb openblas: fix on darwin 
The openblas script relies on CC=clang for succesfully compiling on
Darwin systems. This seems like bad behavior, but we get things like
https://hydra.nixos.org/build/87657058 otherwise.

Fixes #55536.
 2019-02-10 18:49:04 -05:00
Vladimír Čunát c40f211499
Merge branch 'staging-next' 
It's not completely without regressions, but ATM it seems to bring more
upsides than downsides and the iteration is too long already.
 2019-02-10 14:20:49 +01:00
Orivej Desh 59cd3ee895 nccl: 2.1.4 -> 2.4.2-1 (#55292) 2019-02-10 01:20:04 +00:00
Vladimír Čunát ff101946a8
Merge branch 'master' into staging-next 
Hydra nixpkgs: ?compare=1503899
 2019-02-06 14:24:46 +01:00
Guillaume Bouchard 9f0ee6c606 primesieve: init at 7.3 2019-02-04 13:03:50 +01:00
Vladimír Čunát 5effa4e0f9
Merge branch 'master' into staging-next 
Comments on conflicts:
- llvm: d6f401e1 vs. 469ecc70 - docs for 6 and 7 say the default is
  to build all targets, so we should be fine
- some pypi hashes: they were equivalent, just base16 vs. base32
 2019-02-01 09:22:29 +01:00
Markus Kowalewski 57c37456db
openblas: make the optimazation target overridable 2019-01-29 14:34:02 +01:00
Will Dietz 1f0467005d openblas: 0.3.4 -> 0.3.5, rework a bit (#53972) 
* openblas: simplify a bit, fix doCheck so tests are enabled non-cross.

* doCheck should be 'true' in (at least) the non-cross case,
  this looks like an inverted check that's largely benign
* doCheck will be set to 'false' in the cross case anyway,
  makeDerivation does this IIRC
* targetPrefix can be used without checking, probably by design

Derivation hash does change but no "real" functionality change intended.

* openblas: nix types for config attrs (hash-preserving)

* openblas: more nix-ification, merge in cross attrs, prefer to always set

(but set appropriately for cross and non-cross cases both)

* I'm not sure what NO_BINARY_MODE does,
  this change now sets explicitly false in the non-cross scenario
  (previously unset unless cross).
* Drop musl NO_AFFINITY case, will be removed in upgrade shortly

* openblas: 0.3.4 -> 0.3.5
 2019-01-15 16:36:07 +01:00
Frederik Rietdijk 05ee1015bb openblas: fix cross-compilation 2019-01-15 10:11:33 +01:00
Timo Kaufmann 04ba895ecd
suitesparse: 5.3.0 -> 5.4.0 (#53128) 2019-01-01 15:47:55 +01:00
Silvan Mosberger eb864397a0
Merge pull request #52508 from tkonolige/fix_suitesparse_darwin 
suitesparse: Fix darwin support
 2018-12-31 03:24:48 +01:00
agracie a3fc481b76 mkl: fix hash on Darwin 2018-12-26 20:57:08 -05:00
Bas van Dijk 72eae72223 openblas: fix build on x86_64-darwin 
See: https://github.com/xianyi/OpenBLAS/issues/1926
 2018-12-20 13:25:44 +01:00
Benjamin Hipple 6206a342e0 mkl: include Intel's libiomp.so in the MKL RPM unpack 
Since Intel's default openmp implementation is available in the same src
tarball, we can just include it in the package. This means that `mkl` now "just
works" without any environment variables, fragile setup-hooks, or forced
propagation.

Since the openmp implementation is only needed at runtime (and for test cases),
users can substitute a different one if they prefer by exporting it with
`LD_PRELOAD`, which is how Intel recommends handling this. If they do not do so,
`libiomp.so` lives next to `libmkl_rt.so` and thus will be in the RPATH as a
sane default.

Since this still comes from the same src tarball, we can ship it without losing
the fixed-output derivation; likewise, since Hydra is not building or caching
these, shipping these proprietary packages costs no bandwidth for the nix
community.
 2018-12-19 22:05:22 +01:00
Tristan Konolige 00005ce0bd suitesparse: Fix darwin support 
Suitesparse libraries would end up containing references to the build
directory. fixDarwinDylibNames appears to not fix this problem. We
manually use intall_name_tool to set the library paths correctly.
 2018-12-18 18:08:17 -07:00
Frederik Rietdijk 4deb04a97a openblas: 0.3.3 -> 0.3.4 2018-12-07 15:21:25 +01:00
Frederik Rietdijk a510aa2672 Merge master into staging-next 2018-12-03 12:18:43 +01:00
Will Dietz cd14ad53c3 or-tools: appease warning re:python3, try testing 2018-12-01 13:38:16 -06:00
Will Dietz 046e7980f9 or-tools: parallel 2018-12-01 13:38:16 -06:00
Will Dietz 70c2e88c96 or-tools: touchup 2018-12-01 13:38:16 -06:00
Will Dietz c4feda8b01 or-tools: v6.9.1 -> v6.10 
https://github.com/google/or-tools/releases/tag/v6.10
 2018-12-01 13:38:16 -06:00
Frederik Rietdijk fed881e510 Merge staging-next into staging 2018-11-21 12:39:46 +01:00
Matthew Bauer d492f53faf
Merge pull request #50527 from matthewbauer/ninja-check-phase 
Add check phase to ninja setup hook
 2018-11-20 16:55:12 -06:00
Timo Kaufmann 6059bf842a
Merge pull request #49994 from r-ryantm/auto-update/python3.6-cvxopt 
python36Packages.cvxopt: 1.2.1 -> 1.2.2
 2018-11-20 14:25:43 +01:00
Matthew Bauer 285eb9a894 cmake: set CTEST_OUTPUT_ON_FAILURE globally 
We should always use this.
 2018-11-19 16:16:16 -06:00
Frederik Rietdijk e343a85cfb Merge master into staging-next 2018-11-19 09:55:32 +01:00
Matthew Bauer 2c47a4229f treewide: remove ctest usages 
These are already in the generated makefiles!
 2018-11-18 19:31:02 -06:00
Matthew Bauer 2c1d3a9a82 Merge remote-tracking branch 'upstream/master' into staging 2018-11-18 19:02:09 -06:00
Orivej Desh e66d263f6b eigen3_3: move version overrides to all-packages.nix 2018-11-18 10:53:25 +00:00
Frederik Rietdijk 63c6875f26 Merge master into staging-next 2018-11-18 10:32:12 +01:00
Renaud cde945a165
Merge pull request #48044 from schneefux/pkg/fetchfromgithub 
treewide: Use fetchFromGitHub instead of fetchurl
 2018-11-14 09:48:22 +01:00
Matthew Bauer f2a20b6e52 treewide: use wafHook 
Replace "waf" phases with wafHook that manages everything
automatically. Should make things more modular.

Packages affected here are:

- a2jmidid
- ams-lv2
- ardour
- fomp
- guitarix
- ingen
- jalv
- mda-lv2
- non
- patchage
- hamster-time-tracker
- kupfer
- xiphos
- xfce4-dockbarx-plugin
- xfce4-namebar-plugin
- dropbox
- clasp
- aubio
- liliv
- lv2
- lvtk
- ntk
- raul
- sratom
- suil
- ganv
- ndn-cxx
- ns3
- serd
- sord
- termbox
- wxmupen64plus
- jackaudio
- pflask
- blockhash
- glmark2
- weighttp
 2018-11-13 19:13:48 -06:00
Daiderd Jordan 5b8c4b0646
suitesparse: fixup darwin libraries 
The build created libraries with an install_name that points to the
build directory instead of the installation prefix.  Causing errors like
this when other packages try to link against it's libraries.

    Library not loaded: /private/tmp/nix-build-suitesparse-5.3.0.drv-0/SuiteSparse/lib/libcholmod.3.0.12.dylib
 2018-11-13 00:25:32 +01:00
markuskowa 45a4adb1b3
Merge branch 'master' into atlas-remove 2018-11-11 02:22:04 +01:00
Markus Kowalewski 06f3676770
scalapack: set platform to linux 2018-11-11 02:17:20 +01:00
markuskowa bf8c031074
Merge pull request #49199 from markuskowa/fet-scalapack 
scalapack: switch to openblas and add test
 2018-11-05 21:12:01 +01:00
Matthew Bauer 95373d3634 atlas: remove 
atlas is broken and can apparently be removed.

Fixes #49594
 2018-11-04 20:23:12 -06:00
Patrick Hilhorst 4cfeb9da53
cudatoolkit, cudnn: many updates 
cudatoolkit_9_1: 9.1.85.1 -> 9.1.85.3
cudatoolkit_9_2: init at 9.2.148.1
cudatoolkit_9: 9.1.85.1 -> 9.2.148.1
cudatoolkit_10, cudatoolkit_10_0: init at 10.0.130

cudnn_cudatoolkit_9_0: 7.0.5 -> 7.3.0
cudnn_cudatoolkit_9_1: init at 7.1.3
cudnn_cudatoolkit_9_2: init at 7.2.1
cudnn_cudatoolkit_9: 7.0.5 (9.1) -> 7.3.1 (9.2)
cudnn_cudatoolkit_10, cudnn_cudatoolkit_10_0: init at 7.3.1
 2018-10-30 19:09:20 +01:00
Markus Kowalewski 41a579aa68
scalapack: switch to openblas + add test 
* change from blas,lapack to openblas
* add check phase
* enable parallel building
* fix license
 2018-10-27 01:06:07 +02:00
Mateusz Kowalczyk 02fb26136c or-tools: new package (v6.9.1) 2018-10-25 14:15:13 +09:00
Mateusz Kowalczyk b41f8936b9 QuadProgpp: Add new package. 
Necessary for #48895.
 2018-10-24 09:19:26 +09:00
Michael Raskin acb7d85993 lrs: init at 7.0 2018-10-23 11:41:29 +03:00
Renaud 0cc07aeee6
Merge pull request #48172 from jluttine/cholmod-extra-1.2.0 
cholmod-extra: init at 1.2.0
 2018-10-21 17:28:30 +02:00
Thomas Tuegel 2e4397f631
Merge pull request #35213 from jluttine/suitesparse-5.1.2 
suitesparse: 4.4.4 -> 5.3.0
 2018-10-20 08:07:27 -05:00
Jörg Thalheim 351319e557
Merge pull request #48419 from r-ryantm/auto-update/ipopt 
ipopt: 3.12.10 -> 3.12.11
 2018-10-15 21:36:42 +01:00
Matthew Bauer 0b298d516a
Merge pull request #47182 from bhipple/add/mkl 
mkl: init at 2019.0.117
 2018-10-15 15:17:57 -05:00
R. RyanTM ab050719ba ipopt: 3.12.10 -> 3.12.11 
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/ipopt/versions
 2018-10-14 08:11:02 -07:00
Jaakko Luttinen f065de344d
cholmod-extra: init at 1.2.0 2018-10-10 22:08:25 +03:00
Jaakko Luttinen 8fb27604fb
suitesparse: 4.4.4 -> 5.3.0 2018-10-10 07:36:00 +03:00
schneefux d81a96e601 mirtk: use fetchFromGitHub instead of fetchgit 2018-10-08 14:33:55 +02:00
Timo Kaufmann 65589faa2f zn_poly: 0.9 -> 0.9.1 
Sage has taken over maintenance since the original author no longer
maintains the project.
 2018-10-05 15:50:30 +02:00
Benjamin Hipple 0b82df8dbe Convert entire mkl package to a fixed-output derivation 2018-10-04 13:16:20 +00:00
Benjamin Hipple ba02a2c371 Add Darwin as a supported platform 2018-10-02 22:53:48 -04:00
Daiderd Jordan 1383c08f2c
Merge branch 'master' into staging-next 2018-10-01 19:42:07 +02:00
R. RyanTM 0e5e4aed06 arpack: 3.5.0 -> 3.6.3 
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/arpack/versions
 2018-09-26 11:28:59 +02:00
John Ericson c701d6cb21 Merge remote-tracking branch 'upstream/master' into staging 2018-09-25 14:20:27 -04:00
Will Dietz 8a0a34f766 openblas: try leaving openmp enabled w/musl 2018-09-25 00:08:17 -05:00
Dmitry Vyal 81caec3568 openblas-0.3.1 -> 0.3.3 2018-09-23 09:35:29 +02:00
Frederik Rietdijk 14673d61ed Merge master into staging 2018-09-23 09:33:09 +02:00
Benjamin Hipple d7c1d04af4 mkl: init at 2019.0.117 
This packags the Intel Math Kernel library on x86-64 platforms, which is a
dependency for many data science and machine learning packages.

Upstream, Intel provides proprietary binary RPMs with a permissive
redistribution license. These have been repackaged in both Debian and Anaconda,
so we are not the first distribution to redistribute.
 2018-09-22 15:28:39 -04:00
Orivej Desh f0c0e2acc6 htslib: 1.7 -> 1.9 2018-09-21 22:42:28 +00:00
John Ericson 7319013ea1 Merge remote-tracking branch 'upstream/master' into staging 2018-09-18 16:55:42 -04:00
Christopher Ostrouchov 9ef31b2f96 papi: init at 5.6.0 (#46619) 
papi is a high resolution performance counter.
 2018-09-13 23:35:06 +02:00
Christopher Ostrouchov e34a9fff1f scalapack: init at 2.0.2 (#46610) 
Added scalapack with flexibility to choose blas, lapack, and mpi
implementation.
 2018-09-13 21:27:47 +02:00
Uli Baum 79d9145469 parmetis: set license to unfree 
generic unfree license fits best
 2018-09-13 21:10:40 +02:00
Christopher Ostrouchov 3c2a74719a parmetis: init at 4.0.3 (#46615) 2018-09-13 21:02:17 +02:00
Daiderd Jordan 89e52157c8
Merge pull request #46584 from LnL7/darwin-broken-a 
broken darwin packages (a)
 2018-09-13 00:05:42 +02:00
Josef Kemetmüller d726c0ff1d scs: Fix darwin build 
Additionally we make the unit-test deterministic by specifying a seed
instead of using something random.
 2018-09-12 20:58:26 +02:00
Daiderd Jordan f1542f612b
atlas: mark broken on darwin 
Started to fail since 3.10.3.

    /private/tmp/nix-build-atlas-3.10.3.drv-0/ATLAS/build/bin/ATLrun.sh: line 4: 31119 Segmentation fault: 11  $atldir/$*
    make[3]: *** [Makefile:1695: ssanity_test] Error 139

/cc ZHF #45961
 2018-09-12 20:50:54 +02:00
Timo Kaufmann 408eacbc89 openblas: fix pkg-config alias name 
Turns out the filename is important. It should be `cblas`, not
`openblas-cblas`.
 2018-09-03 23:57:45 +02:00
Robert Schütz 93550cbddf Merge branch 'master' into staging-next 2018-08-31 17:32:48 +02:00
John Ericson 2c2f1e37d4 reewide: Purge all uses `stdenv.system` and top-level `system` 
It is deprecated and will be removed after 18.09.
 2018-08-30 17:20:32 -04:00
Robert Schütz a9780a095b Merge branch 'master' into staging-next 2018-08-30 21:56:13 +02:00
Jan Tojnar c1e53166ad
Revert "sympow: don't use placeholder" 
This reverts commit bae15c811f.
 2018-08-30 18:18:30 +02:00
Timo Kaufmann c614c15f93
Merge pull request #45257 from timokau/openblas-pc 
openblas: add pkg-config aliases
 2018-08-26 20:13:19 +02:00
Benjamin Hipple 291de70ed6 scs: init at 2.0.2 (#45294) 2018-08-23 23:26:41 +02:00
Timo Kaufmann 26d5d030fe openblas: add pkg-config aliases 2018-08-21 16:39:57 +02:00
Vladimír Čunát 153a19df05
Merge branch 'master' into staging-next 
Hydra: ?compare=1474536
 2018-08-20 09:15:33 +02:00
Timo Kaufmann 8014c7f186
Merge pull request #45013 from jbaum98/fflas-ffpack_darwin 
fflas-ffpack: Add darwin support
 2018-08-19 16:24:52 +02:00
Jake Waksbaum 8374400cec fflas-ffpack: Add darwin support 2018-08-18 20:28:06 +00:00
Benjamin Hipple 65bb0b23b9 Add platforms.all 2018-08-18 12:11:06 -04:00
Benjamin Hipple 460029cf94 ecos: init at 2.0.6 2018-08-18 03:38:50 +00:00
Vladimír Čunát 14aa936ec5
Merge branch 'staging-next' into staging 2018-08-17 20:53:27 +02:00
Vladimír Čunát cbabebcc2e
Merge branch 'master' into staging-next 
Hydra: ?compare=1473892
 2018-08-17 13:45:21 +02:00
Sarah Brofeldt 692c02ff4b
Merge pull request #44993 from bcdarwin/MIRTK 
mirtk: init at 2.0.0
 2018-08-16 10:51:12 +02:00
Jake Waksbaum c0c854da95 zn_poly: Add darwin support 2018-08-14 00:49:42 -04:00
Ben Darwin 0adc6f4d8f mirtk: init at 2.0.0 2018-08-13 15:55:04 -04:00
Vladimír Čunát ded9a4b1aa
Merge branch 'staging-next' into staging 
Commits from master, conflict resolutions, etc.
 2018-08-13 20:57:50 +02:00
Vladimír Čunát 00df25ee57
Merge branch 'master' into staging-next 
Hydra: ?compare=1472947
 2018-08-12 10:33:41 +02:00
Jan Malakhovski b2563a55b7 nifticlib: disable tests 2018-08-11 09:35:38 +00:00
Jake Waksbaum 6385e5ffda lcalc: Add darwin support (#44850) 2018-08-10 09:53:52 +02:00
Frederik Rietdijk d9fa74ba78 Merge master into staging 2018-08-09 18:28:15 +02:00
Timo Kaufmann aabc55e154 libhomfly: init at 1.02r5 
libhomfly is a new standard package for sage. See
https://trac.sagemath.org/ticket/25705
 2018-08-05 16:50:33 +02:00
Timo Kaufmann 34c2f4150b libbraiding: init at 1.0 
libbraiding is a new standard package for sage. See
https://trac.sagemath.org/ticket/25705
 2018-08-05 16:50:32 +02:00
Timo Kaufmann e550e5d0c7 lcalc: apply c++11 patch 2018-08-04 14:22:29 +02:00
John Ericson db965063b3 treewide: Make configureFlags lists 2018-08-03 17:06:03 -04:00
Frederik Rietdijk ad47d658d1 Merge master into staging-next 2018-07-21 19:43:53 +02:00
Jörg Thalheim 218298b30f
Merge branch 'master' into unused5 2018-07-21 15:41:22 +01:00
volth 52f53c69ce pkgs/*: remove unreferenced function arguments 2018-07-21 02:48:04 +00:00
volth 6d2857a311 [bot] treewide: remove unused 'inherit' in let blocks 2018-07-20 19:38:19 +00:00
Frederik Rietdijk 8213ff161c Merge master into staging-next 2018-07-19 18:24:24 +02:00
Luke Adams eba8679bc5 cudnn*_cudatoolkit*: use public NVIDIA mirror (#31551) 
* cudnn*_cudatoolkit*: use NVIDIA mirror instead of requireFile

* cudnn_cudatoolkit7: update hash since public mirror is different
 2018-07-18 03:21:57 +00:00
Will Dietz 1b3d8eefe3 openblas: backport another patch, fix crash w/Go and Octave 
Also fixes numpy crashing during tests w/musl.
 2018-07-12 12:03:26 -05:00
Timo Kaufmann d2f0fc1f41 openblas: backport fix 
https://github.com/xianyi/OpenBLAS/issues/1666

Causing test failures in cvxopt and (according to an openblas issue) numpy.
 2018-07-11 22:06:32 +02:00
aszlig c8ed322b04
openblas: 0.3.0 -> 0.3.1 
Since the exposure of the version attribute done in
892a0e8ff4, the OpenBLAS build fails for
i686-linux:

https://nix-cache.s3.amazonaws.com/log/wi79zyfmwdpwx7bm29dzqh4vglx3x550-openblas-0.3.0.drv

According to @edolstra the build slaves of Hydra updated to a new
kernel, which seems to be the real cause for this issue. The latter is
already tracked upstream[1] and a fix[2] is already included in version
0.3.1.

This very update cases 4795 rebuilds across all architectures we
support, so it's still not significant enough to go through staging. In
addition the number of rebuilds doesn't include the amount of builds
that are currently failing.

My original idea was to add a patch just for fixing this on i686-linux
and do the real update via staging, but the amount of rebuilds still is
in an acceptable range IMO and @edolstra agreed on that on IRC.

[1]: https://github.com/xianyi/OpenBLAS/issues/1575
[2]: https://github.com/xianyi/OpenBLAS/pull/1583

Signed-off-by: aszlig <aszlig@nix.build>
Cc: @ttuegel
 2018-07-01 18:46:36 +02:00
Timo Kaufmann 5d78baa37a sympow: actually install datafiles 2018-06-30 01:20:46 +02:00
Timo Kaufmann 082169ab02 fetchurl: add sageupstream mirror 2018-06-30 01:20:44 +02:00
Timo Kaufmann 892a0e8ff4 openblas: expose version attribute 2018-06-30 01:20:44 +02:00
Matthew Bauer 753544ab52
Merge pull request #42471 from r-ryantm/auto-update/openlibm 
openlibm: 0.5.5 -> 0.6.0
 2018-06-28 22:06:11 -04:00
Silvan Mosberger 57bccb3cb8 treewide: http -> https sources (#42676) 
* treewide: http -> https sources

This updates the source urls of all top-level packages from http to
https where possible.

* buildtorrent: fix url and tab -> spaces
 2018-06-28 20:43:35 +02:00
R. RyanTM b9137d6bce openlibm: 0.5.5 -> 0.6.0 
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/openlibm/versions.

These checks were done:

- built on NixOS

- 0 of 0 passed binary check by having a zero exit code.
- 0 of 0 passed binary check by having the new version present in output.
- found 0.6.0 with grep in /nix/store/crnh2jiksr0b3sq5v6fc9x7zrrsjgirg-openlibm-0.6.0
- directory tree listing: https://gist.github.com/c287196625881e2d6c72af761704718e
- du listing: https://gist.github.com/ac9a45900fb2ba4ff48120c343677dec
 2018-06-23 18:48:17 -07:00
R. RyanTM 12a554dc31 brial: 1.2.3 -> 1.2.4 
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/brial/versions.

These checks were done:

- built on NixOS

- 0 of 0 passed binary check by having a zero exit code.
- 0 of 0 passed binary check by having the new version present in output.
- found 1.2.4 with grep in /nix/store/d80z046q8l3rhi7zwbcxzaydfrqxvzq9-brial-1.2.4
- directory tree listing: https://gist.github.com/73a4fe4d778faacdf1c17f40a83e3884
- du listing: https://gist.github.com/23202c35b020ea0976f7c4ff9e23ca2c
 2018-06-19 16:52:22 -07:00
Vladimír Čunát 31530c185e
Merge a subset of staging (security) 
In particular, this contains Firefox-related and libgcrypt updates.
Other larger rebuilds would apparently need lots of time to catch up
on Hydra, due to nontrivial rebuilds in other branches than staging.
 2018-06-15 08:48:02 +02:00
R. RyanTM cc9fc2bdcd ipopt: 3.12.9 -> 3.12.10 (#41555) 
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/ipopt/versions.

These checks were done:

- built on NixOS

- 0 of 0 passed binary check by having a zero exit code.
- 0 of 0 passed binary check by having the new version present in output.
- found 3.12.10 with grep in /nix/store/6748l35g9dz7z77wqwal99ylrhn87liv-ipopt-3.12.10
- directory tree listing: https://gist.github.com/5da4bb4853af0913caca26e8cbc87666
- du listing: https://gist.github.com/c4d8373c7d9a61f39479151fdffa99cb
 2018-06-09 23:33:17 +02:00
Will Dietz 912b58a2c1 openblas: workaround mass-rebuilds 
Thanks for the suggestion:
https://github.com/NixOS/nixpkgs/pull/41639#issuecomment-395509669
 2018-06-07 13:38:08 -05:00
Will Dietz b1d54822e4 openblas: remove patch that's no longer needed (PR merged) 2018-06-07 12:20:08 -05:00
Frederik Rietdijk 4dc7cc8cc7
Merge pull request #41259 from jyp/tf-1.7.1-bin 
python.pkgs.tensorflow: wheel version
 2018-06-07 11:27:39 +02:00
R. RyanTM 9d1d274928 openblas: 0.2.20 -> 0.3.0 (#41054) 2018-06-03 13:23:38 +00:00
Jean-Philippe Bernardy 397c4b7748 cudatoolkit: add 9.0 
This version is a dependency of tensorflow binaries
 2018-05-31 22:21:54 +02:00
Jean-Philippe Bernardy 9e730ee254 renaming cudatoolkit version numbers 2018-05-31 22:21:53 +02:00
Orivej Desh 0159beb89c ns-3: fix build after #28029 2018-05-30 02:37:40 +00:00
Ben Darwin 7a64b0726a bicgl: init at 2017-09-10 2018-05-09 14:05:29 -04:00
Robert Schütz 6e6005c2af
Merge pull request #38794 from timokau/brial-init 
brial: init at 1.2.3
 2018-05-08 08:08:15 +02:00
Timo Kaufmann 8b5ecf9141 brial: init at 1.2.3 2018-05-08 01:27:35 +02:00
Timo Kaufmann ca9ea31ae1 liblapack: 3.4.1 -> 3.8.0 2018-05-06 21:12:01 +02:00
Matthew Justin Bauer 8e6684ca32
Merge pull request #39795 from r-ryantm/auto-update/atlas 
atlas: 3.10.2 -> 3.10.3
 2018-05-04 17:18:23 -05:00
R. RyanTM 24761ef5d4 atlas: 3.10.2 -> 3.10.3 
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/atlas/versions.

These checks were done:

- built on NixOS
- Warning: no binary found that responded to help or version flags. (This warning appears even if the package isn't expected to have binaries.)
- found 3.10.3 with grep in /nix/store/bgqampvgm3zdncg3206n7qnvyvl0jipj-atlas-3.10.3
- directory tree listing: https://gist.github.com/a7dd287df10b13796423e3c2df0850eb
 2018-04-30 23:08:21 -07:00
Timo Kaufmann a0076a4fb6 rubiks: fix build 2018-04-27 17:53:58 +02:00
Daiderd Jordan bae15c811f
sympow: don't use placeholder 2018-04-26 22:50:36 +02:00
Matthew Justin Bauer 7ebb6212a2
Merge pull request #38805 from timokau/zn_poly-init 
zn_poly: init at 0.9
 2018-04-24 09:28:27 -05:00
Timo Kaufmann 28c023e246 zn_poly: init at 0.9 2018-04-22 20:44:06 +02:00
Timo Kaufmann 0c9aaf0814 rankwidth: init at 0.7 2018-04-22 20:11:49 +02:00
Timo Kaufmann b74e884aab flintqs: init at 1.0 2018-04-21 20:43:56 -05:00
Timo Kaufmann d0d7894f75 rubiks: init at 20070917 2018-04-21 20:42:58 -05:00
Timo Kaufmann 10124a4743 lcalc: init at 1.23 (#38796) 2018-04-21 20:38:40 -05:00
Jörg Thalheim f7785dd61c
Merge branch 'master' into minc_ecosystem 2018-04-21 20:18:27 +01:00
Jörg Thalheim 38d6decac3
Merge pull request #38804 from timokau/sympow-init 
sympow: init at 1.018.1
 2018-04-21 19:46:59 +01:00
Timo Kaufmann f8fbe0f157 sympow: init at 1.018.1 2018-04-20 10:28:44 +02:00
Timo Kaufmann d8e5160b23 planarity: init at 3.0.0.5 (#38800) 2018-04-19 08:43:44 +02:00
Jörg Thalheim be5ad658df
Merge pull request #38971 from knedlsepp/fix-darwin-gpu-stuff 
Fix clblas and libgpuarray on darwin
 2018-04-17 13:58:54 +01:00
Josef Kemetmüller 357d8f600c clblas: Enable darwin build 2018-04-15 12:12:25 +02:00
Robert Schütz 089eefe724
Merge pull request #38795 from timokau/cliquer-init 
cliquer: init at 1.21
 2018-04-14 17:41:11 +02:00
Timo Kaufmann 2c23faa3d8 cliquer: init at 1.21 2018-04-14 10:33:54 +02:00
Timo Kaufmann 7d625f6c08 m4rie: init at 20150908 2018-04-12 13:40:27 +02:00
Robert Schütz 077bf8de4c
Merge pull request #38762 from timokau/m4ri-init 
m4ri: init at 20140914
 2018-04-12 13:26:52 +02:00
Timo Kaufmann 280b421cbb m4ri: init at 20140914 2018-04-12 13:24:20 +02:00
Ben Darwin 1575136ff2 Merge branch 'minc_ecosystem' of github.com:bcdarwin/nixpkgs into minc_ecosystem 2018-04-10 13:35:39 -04:00
Ben Darwin efb02d3c00 elastix: 4.8 -> 4.9.0 2018-04-10 13:34:29 -04:00
Ben Darwin 12fa2f9fd3 metadata fixes: EBTKS, MNI::Perllib, Text::Format 2018-04-10 00:53:55 -04:00
Ben Darwin c1488921a0 oobicpl: init at 2016-03-02 2018-04-09 18:07:52 -04:00
Ben Darwin d094f52112 fix EBTKS version naming 2018-04-09 18:07:15 -04:00
Ben Darwin c9db4cabc8 bicpl: init at 2017-09-10 2018-04-09 18:07:15 -04:00
Ben Darwin cf2aac6a04 address license/version issues for PR #29782 2018-04-09 18:06:54 -04:00
Ben Darwin e7d447ce2c EBTKS: init at 1.6.50 (develop branch) 2018-04-09 18:06:33 -04:00
Frederik Rietdijk 595a72589f Merge master into staging 2018-04-08 10:54:17 +02:00
Matthieu Coudron 863c2908f2 ns-3: init at 28.0 
ns-3 is a discrete event C++ network simulator developed at www.nsnam.org .

Python bindings & manual building are disabled by default but you can
override it.
 2018-04-06 13:54:20 +09:00
Daiderd Jordan a378141684
caffe2: mark linux only 2018-04-05 20:05:18 +02:00
Tuomas Tynkkynen 747ebe3f66 Merge remote-tracking branch 'upstream/master' into staging 
Conflicts:
	pkgs/top-level/all-packages.nix
 2018-04-03 02:22:54 +03:00
Ryan Mulligan 85afb4e1e6 petsc: 3.8.3 -> 3.8.4 
Semi-automatic update generated by https://github.com/ryantm/nix-update tools.

This update was made based on information from https://repology.org/metapackage/petsc/versions.

These checks were done:

- built on NixOS
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/saws/getSAWs.bash -h` got 0 exit code
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/saws/getSAWs.bash --help` got 0 exit code
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/saws/getSAWs.bash help` got 0 exit code
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/petscdiff -h` got 0 exit code
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/petscdiff --help` got 0 exit code
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/petscdiff -h` and found version 3.8.4
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/petscdiff --help` and found version 3.8.4
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/update.py -h` got 0 exit code
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/update.py --help` got 0 exit code
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/update.py help` got 0 exit code
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/update.py -V` and found version 3.8.4
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/update.py -v` and found version 3.8.4
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/update.py --version` and found version 3.8.4
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/update.py version` and found version 3.8.4
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/update.py -h` and found version 3.8.4
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/update.py --help` and found version 3.8.4
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/update.py help` and found version 3.8.4
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/sendToJenkins -h` got 0 exit code
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/sendToJenkins --help` got 0 exit code
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/petscnagupgrade.py -h` got 0 exit code
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/petscnagupgrade.py --help` got 0 exit code
- ran `/nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4/bin/petscnagupgrade.py help` got 0 exit code
- found 3.8.4 with grep in /nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4
- found 3.8.4 in filename of file in /nix/store/czmq31v2xa85ql17whbn05774cncbr4a-petsc-3.8.4
- directory tree listing: https://gist.github.com/da90b8c44c7ed274deb2e1a2c7de8dad
 2018-03-28 00:48:35 -07:00
Shea Levy d0a8866622
Merge branch 'binutils-2.30' into staging 2018-03-22 07:28:10 -04:00
Shea Levy 5ce31aa6b7
Revert "atlas: 3.10.2 -> 3.10.3" 
3.10.3 segfaults with glibc 2.27, and since it was fairly recently
added via autoupdate hopefully it's not too strongly needed yet.

This reverts commit 4c28d80be2.
 2018-03-20 17:21:20 -04:00
Will Dietz 161253f0e0
Merge pull request #37047 from dtzWill/fix/openblas-numpy-musl 
openblas, numpy: fix w/musl
 2018-03-19 13:39:24 -05:00
Ryan Mulligan 4c28d80be2 atlas: 3.10.2 -> 3.10.3 
Semi-automatic update generated by https://github.com/ryantm/nix-update tools. These checks were done:

- built on NixOS
- Warning: no binary found that responded to help or version flags. (This warning appears even if the package isn't expected to have binaries.)
- found 3.10.3 with grep in /nix/store/79z1zd6ydm6b7x6xbf8b908iirah8hqn-atlas-3.10.3
 2018-03-16 01:31:41 -07:00
Will Dietz 837538da43 openblas: don't build w/openmp on musl 2018-03-15 18:27:22 -05:00
Joachim F 6ae3aa1560
Merge pull request #36640 from ryantm/auto-update/openlibm 
openlibm: 0.5.4 -> 0.5.5
 2018-03-14 21:13:44 +00:00
Josef Kemetmüller edef344458 petsc: fix darwin build 2018-03-12 00:20:18 +01:00
Yuri Aisaka e559fa19f3 fix compilation on gcc7 2018-03-09 22:34:25 +09:00
Ryan Mulligan 724667fa3f openlibm: 0.5.4 -> 0.5.5 
Semi-automatic update. These checks were done:

- built on NixOS
- Warning: no binary found that responded to help or version flags. (This warning appears even if the package isn't expected to have binaries.)
- found 0.5.5 with grep in /nix/store/im5hsldagl6la2yf5s8rsnv2w57mb76m-openlibm-0.5.5
- found 0.5.5 in filename of file in /nix/store/im5hsldagl6la2yf5s8rsnv2w57mb76m-openlibm-0.5.5
 2018-03-09 05:10:28 -08:00
Ryan Mulligan 1aa5bb44ca blas: 3.7.1 -> 3.8.0 
Semi-automatic update. These checks were performed:

- built on NixOS
- found 3.8.0 in filename of file in /nix/store/6j28cb5b114fxj7x7wpwv8mdbiqxq1fj-blas-3.8.0
 2018-03-04 18:51:48 +00:00
Anders Kaseorg 6f073154da Give working advice for running nix-prefetch-url 
nix-prefetch-url file://… requires a full path.  Suggest an invocation
that will provide one.

Signed-off-by: Anders Kaseorg <andersk@mit.edu>
 2018-03-04 17:28:36 +00:00
Ryan Mulligan 6eecefbfbe petsc: 3.7.6 -> 3.8.3 
Semi-automatic update. These checks were performed:

- built on NixOS
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/saws/getSAWs.bash -h` got 0 exit code
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/saws/getSAWs.bash --help` got 0 exit code
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/saws/getSAWs.bash help` got 0 exit code
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/update.py -h` got 0 exit code
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/update.py --help` got 0 exit code
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/update.py help` got 0 exit code
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/update.py -V` and found version 3.8.3
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/update.py -v` and found version 3.8.3
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/update.py --version` and found version 3.8.3
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/update.py version` and found version 3.8.3
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/update.py -h` and found version 3.8.3
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/update.py --help` and found version 3.8.3
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/update.py help` and found version 3.8.3
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/petscnagupgrade.py -h` got 0 exit code
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/petscnagupgrade.py --help` got 0 exit code
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/petscnagupgrade.py help` got 0 exit code
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/sendToJenkins -h` got 0 exit code
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/sendToJenkins --help` got 0 exit code
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/sendToJenkins -h` and found version 3.8.3
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/sendToJenkins --help` and found version 3.8.3
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/petscdiff -h` got 0 exit code
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/petscdiff --help` got 0 exit code
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/petscdiff -h` and found version 3.8.3
- ran `/nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3/bin/petscdiff --help` and found version 3.8.3
- found 3.8.3 with grep in /nix/store/fgr3yvhrnvfhr0czc4ygx1mnjsrv4f4i-petsc-3.8.3
 2018-03-03 11:03:57 +00:00
Ryan Mulligan d3a20a674c openspecfun: 0.4 -> 0.5.3 
Semi-automatic update. These checks were performed:

- built on NixOS
- found 0.5.3 in filename of file in /nix/store/yqsgs9hw8c3rdia75rswgk98lz3c52ih-openspecfun-0.5.3

cc "@ttuegel"
 2018-02-27 09:02:15 -08:00
Nikolay Amiantov 41abde91ce nccl: 1.2.4-1 -> 2.1.4 
It's closed source now.
 2018-02-25 22:24:09 +03:00
Nikolay Amiantov e77d2106bf ipopt: 3.12.8 -> 3.12.9 2018-02-25 22:24:09 +03:00
Nikolay Amiantov efe836160f cudatoolkit: 9.0.176 -> 9.1.85.1 2018-02-25 22:24:09 +03:00
Yuri Aisaka f8c48908f7 caffe2: init at 0.8.1 (#34956) 2018-02-16 15:09:40 +00:00
Will Dietz 8dfe068f86 openblas: patch to fix on non-glibc 2018-02-13 09:44:48 -06:00
Will Dietz c8081971f4 openblas: NO_AFFINITY=1 fix for musl 2018-02-13 09:44:48 -06:00
Renato Alves b2284e0454
htslib: 1.6 -> 1.7 2018-02-06 15:37:50 +01:00
Markus Kowalewski a16880533f arpack: remove FFLAGS 2018-01-22 15:52:57 -08:00
Markus Kowalewski eb30d65de6 arpack: 3.3.0 -> 3.5.0 2018-01-22 15:36:43 -08:00
Tuomas Tynkkynen 722295fc15 openblas: Support ARMv6 2017-12-30 00:19:57 +02:00
hyphon81 05573d3e06
nccl: init at 1.3.4-1 2017-12-28 17:46:52 +01:00
Orivej Desh 4de81540df
Merge pull request #32427 from TravisWhitaker/cudnn 
cuDNN 7.0.3 -> 7.0.5
 2017-12-17 04:25:42 +00:00
georgewhewell 73b65551f4 openblas: add aarch64 platform config 2017-12-11 19:22:07 +02:00
Travis Whitaker 777c9bfdae cuDNN 7.0.3 -> 7.0.5 2017-12-07 15:13:07 -08:00
Orivej Desh 45cf0b0da4 fenics: restrict to Darwin 
It has never been building on Linux.
 2017-12-01 07:17:15 +00:00
Orivej Desh 4d50d79bc8 atlas: disable parallel building 2017-11-22 06:49:21 +00:00
Orivej Desh d5e3935a6a atlas: enable parallel building 2017-11-21 19:29:10 +00:00
Nikolay Amiantov 77046bed8a cudnn7: 7.0 -> 7.0.3 2017-10-28 17:39:59 +03:00
Nikolay Amiantov 50a223b144 clblas: 20160505 -> 2.12 2017-10-19 12:47:30 +03:00
Nikolay Amiantov 6309e5fa01 cudnn: refactor to use shared derivation 
Also return 8.0-6.0 version for TensorFlow.
 2017-10-19 12:47:30 +03:00
Nikolay Amiantov ce9059a120 cudnn_cudatoolkit9: init at 7.0 
Make it the default.
 2017-10-19 12:47:30 +03:00
Orivej Desh 047c576353 Merge pull request #29963 from mimadrid/update/samtools-1.6.0 
samtools: 1.5.0 -> 1.6.0
 2017-10-02 01:07:11 +00:00
Orivej Desh 0acf94bb9f htslib: fix up 2017-10-01 07:12:52 +00:00
mimadrid 25b17ae1d7
htslib: 1.5.0 -> 1.6.0 2017-09-30 22:14:49 +02:00
Nikolay Amiantov 098c6825e0 blas: 3.5.0 -> 3.7.1 2017-09-25 22:46:44 +03:00
Jörg Thalheim aab8f8df4b nifticlib: use mirror for sourceforge 2017-09-21 09:10:12 +01:00
Ben Darwin 0d981c5761 nifticlib: init at 2.0.0 2017-09-20 19:04:22 -04:00
John Ericson 8fccaa284d Merge pull request #29282 from obsidiansystems/soext 
lib, treewide: Add `*Platform.extensions` and use it where possible
 2017-09-13 11:20:06 -04:00
John Ericson 5aec3f96a2 treewide: Use `*Platform.extensions` 2017-09-13 11:16:10 -04:00
Jean-Philippe Bernardy 1ba197f225 make my maintainer handle match my github username 2017-09-12 15:17:18 +02:00
Jean-Philippe Bernardy d51bd36646 cudnn: add 6.0 2017-09-07 09:28:03 +02:00
jamtrott c8c0cd4d6c petsc: init at 3.7.6 (#28368) 
* petsc: init at 3.7.6

* petsc: use configureFlagsArray

* petsc: Remove unneeded binaries
 2017-09-03 17:11:16 +01:00
James D. Trotter 518fb60797 fenics: init at 2017.1.0 2017-08-15 16:19:45 +02:00
Frederik Rietdijk b14efb6a6c Merge pull request #28211 from mimadrid/update/samtools-1.5.0 
samtools: 1.4.0 -> 1.5.0
 2017-08-13 22:32:48 +02:00
mimadrid 302e7825fa
htslib: 1.4.0 -> 1.5.0 2017-08-13 00:16:42 +02:00
mimadrid 09e0cc7cc7
Update homepage attributes: http -> https 
Homepage link "http://.../" is a permanent redirect to "https://.../" and should be updated
https://repology.org/repository/nix_stable/problems
 2017-08-03 11:56:15 +02:00
Silvan Mosberger f5fa5fa4d6 pkgs: refactor needless quoting of homepage meta attribute (#27809) 
* pkgs: refactor needless quoting of homepage meta attribute

A lot of packages are needlessly quoting the homepage meta attribute
(about 1400, 22%), this commit refactors all of those instances.

* pkgs: Fixing some links that were wrongfully unquoted in the previous
commit

* Fixed some instances
 2017-08-01 22:03:30 +02:00
Frederik Rietdijk ec59e3b3f5 openblas: 0.2.19 -> 0.2.20 2017-07-28 18:08:06 +02:00
Nikolay Amiantov 5fdc1e763f ipopt: 3.12.6 -> 2.12.8 2017-07-27 17:07:44 +03:00
Ben Darwin d1d0824b2f elastix: change platforms to "linux" from "unix" 2017-07-19 17:41:14 -04:00
Ben Darwin b21805d972 elastix: init at 4.8 2017-05-23 18:25:15 -04:00
Tyson Whitehead 8fdbc828b9
clblas-cuda: requires ocl-icd now for libOpenCL.so.1 #25902 2017-05-18 18:32:09 -04:00
Jörg Thalheim be19ad150c Merge pull request #25594 from mimadrid/update/htslib-1.4 
Update/htslib 1.4
 2017-05-11 07:08:56 +01:00
mimadrid 295a23a2db
htslib: 1.3.2 -> 1.4 2017-05-07 23:15:42 +02:00
Daiderd Jordan f240276000
blas: fix darwin library id 2017-04-27 23:25:07 +02:00
Vladimír Čunát 6617c8bd87
A fixed version of commit eb750f9a7b 
For detailed explanation see:
https://github.com/NixOS/nixpkgs/commit/24444513fb5#commitcomment-21767916
 2017-04-14 18:59:36 +02:00
Joachim Fasting 540a6412e3
suitesparse_4_4: NIX_CFLAGS -> NIX_CFLAGS_COMPILE 
Tested with nix-build -A suitesparse_4_4
 2017-04-12 19:27:03 +02:00
Joachim Fasting a883581ddb
suitesparse_4_2: remove bogus NIX_CFLAGS 
NIX_CFLAGS should be NIX_CFLAGS_COMPILE; since pic is the default, we
simply remove the bogus declaration.

Tested with nix-build -A suitesparse_4_2
 2017-04-12 19:26:58 +02:00
Frederik Rietdijk 767e459200 Merge pull request #22726 from matthewbauer/openblas-closure-size 
openblas: disable static libs
 2017-04-10 16:11:19 +02:00
Matthew Daiter d712c04d25 suitesparse: refining CUDA support 2017-04-04 17:23:20 +02:00
Matthew Daiter 6f721ce534 suitesparse: add CUDA support 2017-03-29 15:47:51 +02:00
Matthew Bauer bd8654f45d openblas: disable static libs 
Disable static on openblas. This should save about 57M from closure sizes.
 2017-02-12 18:45:44 -06:00
Matthew Daiter 82835f7eb3 cudnn51_cudatoolkit80: hash change 2017-02-08 18:40:32 +01:00
Anthony Cowley 084a76ef6f atlas: change platforms to unix 
The build succeeds on darwin and linux.
 2017-01-10 21:02:04 -05:00
Robert Helgesson 2990cd8aea
clblas-cuda: use system gtest library 
Without this the build attempts to download the library.
 2016-12-28 12:21:07 +01:00
mimadrid 25c984f940
htslib: 1.3.1 -> 1.3.2 2016-12-23 19:31:44 -05:00
Thomas Tuegel bed668c051
openblas: refactor and set TARGET always 2016-12-10 16:49:45 -06:00
Nikolay Amiantov be95ceaff2 treewide: quote URLs in my packages 2016-11-24 01:17:52 +03:00
Matthew Daiter 3897b344f3 cudnn51_cudatoolkit80: Init at 5.1-8.0 2016-11-21 14:51:39 +01:00
Falco Peijnenburg 5f5f0614b0 Support for ARM in openblas 
Attempting to build openblas on ARM resulted in the error "unsopported system: armv7l_linux". This PR resolves that issue and some other issues that pop up when trying to build openblas for ARM.
 2016-11-18 12:44:49 +01:00
Matthew Daiter 541b3fc7d2 cudnn5_cudatoolkit80: adding to main repo 2016-11-07 12:07:29 +01:00
Daiderd Jordan 3187b01720 Merge pull request #19816 from veprbl/octave_fixes 
octave: darwin fix
 2016-11-05 10:49:33 +01:00
Frederik Rietdijk 7077a270bf Merge remote-tracking branch 'upstream/master' into HEAD 2016-10-26 13:06:43 +02:00
Dmitry Kalinkin a8eb57d953
openblas: silence warnings on darwin 
Without this one gets a lot of build time warnings like:

ld: warning: object file (/tmp/strip.2OzFn8) was built for newer OSX
version (10.9) than being linked (10.7)
 2016-10-23 21:19:14 -04:00
Thomas Tuegel a58ec829e4
openblas: disable some hardening flags 2016-10-22 12:57:40 -05:00
Frederik Rietdijk 9b66b5c2cc liblapack: use python2 2016-10-18 23:16:05 +02:00
Thomas Tuegel d94abcb157
openblas: 0.2.17 -> 0.2.19 2016-09-09 19:42:54 -05:00
Michael Raskin 6b075ee8b1 openlibm: 0.4.1 -> 0.5.4 2016-09-06 19:31:38 +02:00
obadz 0e8d2725dc Merge branch 'master' into staging 2016-08-23 18:50:06 +01:00
Tuomas Tynkkynen a18ee4acb7 treewide: Make explicit that 'dev' output of boost is used 
Also fix one incorrect output in geant.
 2016-08-23 04:32:21 +03:00
Tuomas Tynkkynen d3705faa56 treewide: Use makeLibraryPath in LD_LIBRARY_PATHs 2016-08-23 00:14:00 +03:00
Robin Gloster 33e1c78ae3 Merge remote-tracking branch 'upstream/master' into hardened-stdenv 2016-08-16 07:54:01 +00:00
Nikolay Amiantov 0464600859 ipopt: 3.12.4 -> 3.12.6 2016-08-14 22:37:08 +03:00
Robin Gloster 1b979d8384 Merge remote-tracking branch 'upstream/master' into hardened-stdenv 2016-08-03 13:34:44 +00:00
Tuomas Tynkkynen 21f17d69f6 treewide: Add lots of meta.platforms 
Build-tested on x86_64 Linux & Mac.
 2016-08-02 21:42:43 +03:00
Robin Gloster 1f04b4a566 Merge remote-tracking branch 'upstream/master' into hardened-stdenv 2016-07-21 00:56:43 +00:00
Josef Kemetmueller f3dc4d9ec3 superlu: init at 5.2.1 2016-07-19 12:37:08 +00:00
Franz Pletz f597e97236 atlas: Fix hardening 2016-07-13 19:30:52 +02:00
Franz Pletz 26dd9acba5 Merge remote-tracking branch 'origin/master' into hardened-stdenv 2016-07-09 13:21:28 +02:00
Joachim Fasting 46b07b335b Merge pull request #16379 from mimadrid/init/bcftools-1.3.1 
bcftools: init at 1.3.1
 2016-06-24 22:15:51 +02:00
mimadrid d3da5cbf44
htslib: init at 1.3.1 2016-06-24 21:08:16 +02:00
artuuge 465d6a2113 Theano-cuda: init at 0.8.2 2016-06-20 01:06:07 +02:00
Robin Gloster 8031cba2ab Merge remote-tracking branch 'upstream/master' into hardened-stdenv 2016-06-10 09:27:04 +00:00
artuuge 5b51f0bff9 clblas-cuda: init at git-20160505 2016-06-05 14:33:19 +02:00
Ian-Woo Kim ff8985e7ab cudnn: add cudatoolkit to propagatedBuildInputs 2016-06-02 19:33:03 +02:00
Robin Gloster 2d382f3d98 Merge remote-tracking branch 'upstream/master' into hardened-stdenv 2016-05-30 19:39:34 +00:00
Arseniy Seroka c6b3aca4e2 Merge pull request #15654 from wavewave/magma 
magma: init at 2.0.2
 2016-05-26 01:02:14 +03:00
Ian-Woo Kim e47070ad64 cudnn: init at 4.0 2016-05-25 18:26:57 +00:00
Ian-Woo Kim fd42fccd4c magma: init at 2.0.2 2016-05-25 18:14:41 +00:00
Franz Pletz f8d481754c
Merge remote-tracking branch 'origin/master' into hardened-stdenv 2016-05-18 17:10:02 +02:00
Peter Simons 8e462995ba Bring my stdenv.lib.maintainers user name in line with my github nick. 2016-05-16 22:49:55 +02:00
Evgeny Egorochkin 4b979eef29 atlas: put the name suffix where it belongs 2016-05-16 10:19:38 +03:00
Robin Gloster d020caa5b2 Merge remote-tracking branch 'upstream/master' into hardened-stdenv 2016-04-18 13:49:22 +00:00
= 9ec9da1a24 iSpike: init at 2.1.1 2016-04-12 14:36:20 +02:00
Robin Gloster 696d85a62d Merge remote-tracking branch 'upstream/master' into hardened-stdenv 2016-04-03 11:01:57 +00:00
Frederik Rietdijk 4bd01c5cbd openblas_2_14: remove 
because we don't need it for numpy anymore.
 2016-03-31 21:51:45 +02:00
Franz Pletz 2e08d8234e Merge remote-tracking branch 'origin/master' 2016-03-31 10:06:30 +02:00
Frederik Rietdijk c1abb1d404 openblas: 0.2.15 -> 0.2.17 2016-03-28 15:58:10 +02:00
Robin Gloster 3f45f0948d Merge remote-tracking branch 'upstream/master' into hardened-stdenv 2016-03-15 01:44:24 +00:00
Anthony Cowley f3a6f3e2f3 suitesparse: build dylibs on darwin 
Makes the shared libraries usable on darwin so that, e.g., the Julia
compiler may be built.
 2016-03-13 04:13:26 -04:00
Anthony Cowley 9d1053dc6d suitesparse: darwin compatibility 
There is no librt on darwin, so it must be disabled.
 2016-03-12 21:17:15 -05:00
Robin Gloster 5969a59052 Merge remote-tracking branch 'upstream/master' into hardened-stdenv 2016-02-09 16:28:44 +00:00
Frederik Rietdijk 3e476a73ef openblas_2_14: init at 0.2.14 2016-02-08 20:33:31 +01:00
Robin Gloster acb408646e remove local pic flags, now set by hardened stdenv 2016-01-30 16:36:57 +00:00
Thomas Tuegel 36a08ce5a0 arpack: 3.2.0 -> 3.3.0 2015-12-28 11:44:03 -06:00
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