Commit Graph

557 Commits

Author SHA1 Message Date
R. RyanTM
1450740470 suitesparse: 5.7.1 -> 5.7.2 2020-04-10 11:55:20 -07:00
Benjamin Hipple
a1f6400fd5
Merge pull request #84451 from robertodr/update-mkl
mkl: 2020.0.166 -> 2020.1.217 (Linux only)
2020-04-10 13:54:49 -04:00
Michael Reilly
84cf00f980
treewide: Per RFC45, remove all unquoted URLs 2020-04-10 17:54:53 +01:00
Mario Rodas
2f41064d86
Merge pull request #84455 from r-ryantm/auto-update/petsc
petsc: 3.12.4 -> 3.13.0
2020-04-08 21:35:27 -05:00
Niklas Hambüchen
df907c4786 openblas: Add singleThreaded option. Off by default.
See https://github.com/xianyi/OpenBLAS/issues/2543
2020-04-08 13:46:04 +02:00
Mario Rodas
ad15e4e8a0
petsc: fix build on darwin 2020-04-06 12:00:00 +00:00
R. RyanTM
758e81662f petsc: 3.12.4 -> 3.13.0 2020-04-06 11:46:40 +00:00
Roberto Di Remigio
488527eaa6
mkl: 2020.0.166 -> 2020.1.217 2020-04-06 11:57:22 +02:00
Roberto Di Remigio
335e097352
mkl: 2019.5.281 -> 2020.0.166 (Linux only) 2020-03-27 08:45:20 +01:00
Jan Tojnar
d951c534da
Merge pull request #82274 from jtojnar/suitesparese-5.6
suitesparse: 5.4.0 → 5.7.1 + clean up
2020-03-22 06:58:25 +01:00
Josef Kemetmüller
fbb273c5fe fenics: 2017.1.0 -> 2019.1.0
Fixes: NixOS/nixpkgs#75886
2020-03-19 21:48:27 -07:00
Timo Kaufmann
d8d0b60c22
Merge pull request #82766 from r-ryantm/auto-update/brial
brial: 1.2.7 -> 1.2.8
2020-03-17 14:29:02 +00:00
R. RyanTM
707e0b1e96 brial: 1.2.7 -> 1.2.8 2020-03-17 01:13:50 +00:00
Tom Hall
c6c753668d openblas: disable optimisation pending fix
See https://github.com/xianyi/OpenBLAS/issues/2496
2020-03-14 18:06:59 +00:00
wucke13
4f58c15ee6 petsc: 3.8.4 -> 3.12.4
+ add cxx flag to configure, because getdp needs it
2020-03-13 04:10:20 +00:00
Jan Tojnar
b552b84ae2
suitesparse: ultimate clean-up
* Switch to default buildPhase & installPhase
* In preConfigure
	* Do not add -DNPARTITION to CHOLMOD_CONFIG. That would disable the use of Metis but we already have that.
	* Do not remove -lrt on Darwin, Darwin compiler can handle that and the code no longer exists anyway.
	* With CUDA enabled
		* Do not replace CUDA_ROOT. It does not exist any more. Instead we are setting CUDA_PATH in makeFlags.
		* Do not replace GPU_BLAS_PATH, it defaults to CUDA_PATH so it will end up with the same value.
		* Do not add -DCHOLMOD_OMP_NUM_THREADS to GPU_CONFIG. Why would be having the library use the same number of threads as the builder a good idea?
		* Do not replace CUDA_PATH, we are setting it in makeFlags now.
		* Do not replace CUDART_LIB and CUBLAS_LIB. They were being replaced incorrectly (cuda libs are located in lib directory, not lib64). Instead set the correct paths in makeFlags.
		* Do not replace CUDA_INC_PATH. Its default looks like it will end up with the same value.
		* Do not replace NV20, NV30, NV35 – not used any more.
		* Do not replace NVCC, defaults to the same.
		* Do not replace NVCCFLAGS, we just used the default from SourceSparse 4.4.7 with -gencode=arch=compute_60,code=compute_60 tacked on top. Current upstream default looks much better.
* Stop adding -DNTIMER to CFLAGS on Darwin – clock_gettime is supported by macOS 10.12 SDK.
* In buildPhase
	* Move the make arguments to makeFlags and library to buildFlags, allowing us to drop the manual make call. I did not verify all of these are still needed.
	* Remove the creation of libsuitesparse.so. As far as I could tell it is some kind of remnant of our old expression – perhaps due to past deficiencies of the build scripts, we created the individual libraries as symlinks to libsuitesparse.so: e36b3ec0a5 But since the build script can now build individual .so libraries, there should be no need for this abomination. No other distros do this either.
* In installPhase
	* No need to copy things manually, there is an install target. We just need to pass INSTALL=$out flag to make to let it know where to install the files.
	* I do not have means of verifying the darwin dylib name fix but it looks like it might be fixed in an upcoming release.
	* I dropped the rpath fixup as it does not seem to be needed any more (ldd does not report any unresolved libraries).
2020-03-11 03:45:25 +01:00
Jan Tojnar
c16d5b6534
suitesparse: do not build Mongoose & GraphBLAS
We already have package for them
2020-03-11 02:33:06 +01:00
Jan Tojnar
306cf6091f
suitesparse: link against system metis 2020-03-10 21:16:28 +01:00
Jan Tojnar
e9d7774b7b
suitesparse: 5.4.0 → 5.7.1 2020-03-10 21:16:27 +01:00
Jan Tojnar
559f02e208
suitesparse-graphblas: init at 3.1.2 2020-03-10 21:16:27 +01:00
Jan Tojnar
b4e6293a8d
mongoose: init at 2.0.4 2020-03-10 20:35:44 +01:00
Jan Tojnar
40ae28791f
suitesparse: clean up
* Split to multiple outputs
* Fetch source from GitLab (the only source for future releases)
* Re-order attrset to be more idiomatic
* Format with nixpkgs-fmt
2020-03-10 20:35:44 +01:00
Josef Kemetmüller
1cc9b2501d suitesparse: Enable parallel building 2020-03-10 17:16:17 +01:00
Mario Rodas
99722af1d5
Merge pull request #81843 from OmnipotentEntity/cudnn-7.6.5
cudnn_cudatoolkit_10_2: init at 7.6.5
2020-03-10 07:19:50 -05:00
R. RyanTM
e04fab644f osi: 0.108.4 -> 0.108.6 2020-03-06 07:22:33 +01:00
Michael Reilly
972db874b3 cudnn_cudatoolkit_10_2: init at 7.6.5 2020-03-05 15:14:10 -05:00
Frederik Rietdijk
9d88ee08f6 Merge master into staging-next 2020-02-18 16:09:19 +01:00
Dylan Simon
e25f0b3e3d scalapack: 2.1 -> 2.1.0
2.1 seems to have disappeared
2020-02-17 18:31:13 -05:00
Frederik Rietdijk
ec1184f461 Merge master into staging-next 2020-02-17 15:12:28 +01:00
Drew Risinger
c71f63a337 ecos: 2.0.6 -> 2.0.7
Bump ecos module.
2020-02-16 19:12:52 -08:00
R. RyanTM
6222192872 openblas: 0.3.7 -> 0.3.8 2020-02-11 12:01:57 +00:00
Anders Kaseorg
1a32e383e6 or-tools: 7.3 -> 7.5
Signed-off-by: Anders Kaseorg <andersk@mit.edu>
2020-02-10 20:40:12 +01:00
R. RyanTM
5659946d6a m4ri: 20200115 -> 20200125 2020-02-08 16:16:48 +00:00
Drew Risinger
c13bf84d45 libraries.science.math.scs: 2.0.2 -> 2.1.1 2020-01-31 16:05:05 -05:00
Frederik Rietdijk
dce0ca29d9 Merge master into staging-next 2020-01-28 10:46:13 +01:00
Timo Kaufmann
e39e304638
Merge pull request #78496 from r-ryantm/auto-update/brial
brial: 1.2.6 -> 1.2.7
2020-01-26 23:28:02 +01:00
R. RyanTM
2d172e6403 brial: 1.2.6 -> 1.2.7 2020-01-26 02:39:07 +00:00
Timo Kaufmann
d62e410ccd
Merge pull request #78222 from r-ryantm/auto-update/m4ri
m4ri: 20140914 -> 20200115
2020-01-22 17:43:44 +01:00
R. RyanTM
813678058f m4ri: 20140914 -> 20200115 2020-01-21 23:46:57 +00:00
R. RyanTM
3937313195 m4rie: 20150908 -> 20200115 2020-01-21 23:24:43 +00:00
Anders Kaseorg
3cd8ce3bce treewide: Fix unsafe concatenation of $LD_LIBRARY_PATH
Naive concatenation of $LD_LIBRARY_PATH can result in an empty
colon-delimited segment; this tells glibc to load libraries from the
current directory, which is definitely wrong, and may be a security
vulnerability if the current directory is untrusted.  (See #67234, for
example.)  Fix this throughout the tree.

Signed-off-by: Anders Kaseorg <andersk@mit.edu>
2020-01-15 09:47:03 +01:00
Niklas Hambüchen
de1e61f34d
Merge pull request #77104 from r-ryantm/auto-update/htslib
htslib: 1.9 -> 1.10.2
2020-01-13 01:51:32 +01:00
Mario Rodas
5ab4676d88
Merge pull request #77194 from r-ryantm/auto-update/primesieve
primesieve: 7.4 -> 7.5
2020-01-09 05:02:21 -05:00
R. RyanTM
e28fe589d9 primesieve: 7.4 -> 7.5 2020-01-07 00:22:48 -08:00
R. RyanTM
940d12bf5d htslib: 1.9 -> 1.10.2 2020-01-06 09:16:51 -08:00
Mario Rodas
e11aab8340
Merge pull request #76356 from r-ryantm/auto-update/openlibm
openlibm: 0.6.0 -> 0.7.0
2020-01-06 09:58:54 -05:00
Frederik Rietdijk
17ab5f9d88 Merge master into staging-next 2020-01-06 10:38:20 +01:00
Ryan Mulligan
f8cd096aad
Merge pull request #54967 from volhovm/volhovm/clmagma
clmagma: init at 1.3
2020-01-05 08:18:12 -08:00
Frederik Rietdijk
828f93a326 Merge master into staging-next 2020-01-05 16:00:21 +01:00
markuskowa
1c55261574
Merge pull request #75526 from robertodr/more-mkl
Add GNU threading and Fortran libraries to MKL package
2020-01-04 20:36:43 +01:00