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5011 Commits

Author SHA1 Message Date
Michael F. Herbst
5656554922 Add krims and lazyten (#5771) 
* Add krims to spack

* Add lazyten to spack

* Add description for lazyten

* Changes suggested by @davydden and @junghans
 2017-10-15 11:45:11 -06:00
Denis Davydov
a16ec21fbe boost: remove preferred 1.63 (#5770) 
1.64 had issues serialization (make_array and others) when built with
+mpi+python. It appears that those issues are fixed in 1.65.1
so we can remove preferred tag from 1.63.
 2017-10-14 16:50:28 -06:00
Denis Davydov
cfd823c3f7 intel-tbb: add 2018.1 (#5769) 2017-10-14 16:40:23 -06:00
Denis Davydov
dcb888d477 gsl: add 2.4 (#5768) 2017-10-14 16:39:43 -06:00
Denis Davydov
8f52295dd8 oce: add 0.18.2 (#5767) 2017-10-14 16:39:21 -06:00
Christoph Junghans
31115af128 boost: call_once_variadic.patch is already part of 1.56.0 (#5341) 2017-10-14 12:53:25 -06:00
Christoph Junghans
a685372636 Revert "Use cflags instead of the args variable (#5756)" (#5765) 
This reverts commit 6c3184820a.
 2017-10-14 13:55:02 +02:00
Satish Balay
0168025c1c superlu_dist: update to latest version 5.2.1 (#5762) 
The interface to +int64 changed from  -D_LONGINT to XSDK_INDEX_SIZE=64. This change
uses the appropriate interface for for the given version
 2017-10-13 21:22:44 -06:00
David Gardner
f885c89fdc Update Sundials package (#5696) 
* initial update of sundials package

* fix bugs in initial sundials update

* add xsdk cmake setup, fix generic math option, add cuda/raja Makefiles to install fixes

* Fix lapack install bug, add new conflicts, clean up formatting

* Address pull requeset comments and make fomatting style consistent

Remove blas variant as blas is only needed when used by an external
linear solver. Set related CMake blas variables as needed depending
enabled external linear solvers.

Add minimum required CMake version.

Additional conflicts and dependencies for external libraries based
on mpi, indextype, and precision.

Fix SuperLU_MT logic to check which threading type SuperLU_MT was
configured with.

Add maintaiers.

Change Sundials solver options to use an array of values.

Consistently use % for formatting.

* change triple-single quotes to single quotes

* Change indextype option to a single int64 option
 2017-10-13 21:13:10 -06:00
Yifan Zhu
4d3424a5d4 r-preprocesscore: added versioned dependency on r (#5671) 2017-10-13 18:50:26 -06:00
Yifan Zhu
e6109381fc r-rmpi: added list_url and updated md5 (#5698) 2017-10-13 18:35:06 -06:00
Yifan Zhu
ad8b9522d6 r-edger: added versioned dependency on r (#5669) 2017-10-13 18:32:43 -06:00
Yifan Zhu
8c2fe52f8e r-s4vectors: added versioned dependency on r (#5672) 2017-10-13 18:32:17 -06:00
Denis Davydov
c13e13a52b likwid: update versions (#5757) 2017-10-13 16:08:49 -06:00
Yifan Zhu
2c73c9fb50 r-xvector: added versioned dependency on r (#5731) 2017-10-13 16:01:18 -06:00
Satish Balay
6fcfc3bd5a flake8: fix warnings (#5759) 2017-10-13 15:16:58 -06:00
Ondřej Čertík
6c3184820a Use cflags instead of the args variable (#5756) 
That way the user can still append things to CFLAGS.
 2017-10-13 15:15:06 -06:00
Christoph Junghans
3c7dd367f8 py-espresso: initial commit (#5724) 2017-10-13 12:29:30 -07:00
Christoph Junghans
23e801923d espressopp -> py-espressopp (#5732) 
* espressopp -> py-espressopp

* Update package.py
 2017-10-13 12:28:36 -07:00
Ondřej Čertík
e76cfbbfd8 Fix m4 to compile with Intel (#5728) 
Fixes #5705.
 2017-10-13 11:20:49 -06:00
Yifan Zhu
8ffe18f1dc r-biostrings: added versioned dependency on r (#5667) 2017-10-13 07:51:30 -06:00
Yifan Zhu
ce1e5e3098 r-zlibbioc: added versioned dependency on r (#5674) 2017-10-13 07:50:10 -06:00
Denis Davydov
b8c1ce43fa trilinos / oce : add missing if before calling macOS_version (#5743) 
* trilinos: add missing if before calling macOS_version

* oce: add missing if before calling macOS_version
 2017-10-13 07:49:18 -06:00
Yifan Zhu
9716a6f37f r-readr: created new package (#5741) 2017-10-13 07:47:43 -06:00
Yifan Zhu
350624a231 r-dorng: created new package (#5740) 2017-10-13 07:47:01 -06:00
Yifan Zhu
9f3e055e8b r-stringr: added list_url and version 1.2.0 (#5738) 2017-10-13 07:46:29 -06:00
Yifan Zhu
525b69bbad r-stringi: added list_url and version 1.1.5 and 1.1.3 (#5737) 2017-10-13 07:45:26 -06:00
Yifan Zhu
0b117a03c6 r-summarizedexperiment: created new package (#5734) 2017-10-13 07:45:05 -06:00
Yifan Zhu
501ebe6706 r-yaqcaffy: added list_url and versioned dependency on r (#5730) 2017-10-13 07:44:26 -06:00
Denis Davydov
65f12c8160 slepc: refine version constraints for petsc 3.8 (#5752) 2017-10-13 07:11:17 -06:00
Denis Davydov
22ef8efce9 openblas: remove extra develop version (#5750) 2017-10-13 12:10:05 +02:00
Denis Davydov
b182e2334d gettext: fix prefix (#5749) 2017-10-13 10:52:55 +02:00
Brian Van Essen
bd185b8146 Lbann flags (#5747) 
* Fixed the datatype flag in the LBANN package.  Also added develop
version to OpenBLAS.

* Fixed where the datatype flag should be set.
 2017-10-12 20:23:38 -06:00
Yifan Zhu
f2a6685d8c r-gcrma: added versioned dependency on r (#5670) 2017-10-12 16:18:30 -06:00
Yifan Zhu
d4906169e0 r-simpleaffy: added versioned dependency on r (#5673) 2017-10-12 16:18:15 -06:00
Satish Balay
59163f9750 petsc: add in maintainers (#5729) 2017-10-12 15:09:47 -06:00
David Hows
8ff8b7476c Add the option for a versioned layout to boost (#5709) 2017-10-12 12:51:39 -06:00
Audrey Thoma
36ed96e7dd kaks-calculator: new package (#5725) 
* kaks-calculator: new package

* kaks-calculator: new package

* fixing homepage
 2017-10-12 12:47:11 -06:00
Satish Balay
98c2184bd3 petsc: update to latest 3.8 version [and include 3.7.7] (#5723) 
Also fix flake8 warning "import os should be before import sys"
 2017-10-12 12:46:00 -06:00
Jon Rood
c0b2e7db73 Add OpenFAST package (wind turbine simulation tool). (#5662) 
* Add OpenFAST package (wind turbine simulator).
* Adding maintainer to openfast package.
* Fixing copyright date.
 2017-10-12 11:42:51 -07:00
Denis Davydov
1b53e82348 various fixes for macOS high sierra (#5647) 
* various fixes for macOS high sierra

* add macOS_version() helper function

* flake8 fixes

* update oce and trilinos

* fix bison
 2017-10-12 11:41:57 -07:00
Carlos Bederián
db149876a4 samtools: add version 1.6 + some fixes (#5715) 
* htslib: add version 1.6

* samtools: add version 1.6, remove zlib dependency

* bcftools: add version 1.6, switch to using standalone htslib
 2017-10-12 10:08:31 -06:00
Audrey Thoma
87c65fafa9 minimap2: new package (#5722) 2017-10-12 10:07:42 -06:00
David Hows
90cd075277 Initial version of libpcap (#5710) 
Add a package script for libpcap with the current version (1.8.1)
 2017-10-12 07:00:21 -06:00
Yifan Zhu
e807397074 r-affy: added versioned dependency on r (#5660) 2017-10-11 19:49:48 -06:00
Yifan Zhu
36eba3bf58 r-affyio: added versioned dependency on r (#5661) 2017-10-11 19:49:28 -06:00
Yifan Zhu
db0fec4d09 r-biocinstaller: added versioned dependency on r (#5663) 2017-10-11 19:49:08 -06:00
Yifan Zhu
4e8ac1d525 r-matrixstats: created new package (#5682) 2017-10-11 19:48:39 -06:00
Yifan Zhu
5e41ad6fed r-biocgenerics: added version 0.22.1 and added versioned dependency on r (#5683) 2017-10-11 19:48:19 -06:00
Yifan Zhu
8d48f07de1 r-genomeinfodbdata: added versioned dependency on r (#5685) 2017-10-11 19:48:00 -06:00