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Author SHA1 Message Date
健美猞猁
a79230c832 casacore does not support fftw+mpi . (#10839) 2019-03-12 19:59:48 -05:00
健美猞猁
d32a342fc6 Aoflagger: a new package. (#10840) 
* A new package: aoflagger.

* aoflagger does not support boost>1.66.0 .

* Add fftw~mpi dependency.

* flake8.

* Flake8.

* Update package heder.

* md5 -> sha256.
 2019-03-12 19:59:24 -05:00
Axel Huebl
fd6d3f6b8c openPMD-api: shared variant (#10847) 
Add a variant to control shared/static builds (one at a time) and
make shared the default.
 2019-03-12 19:58:44 -05:00
Alberto Chiusole
46fb6ed5b6 Revert to manual flag enabling, due to RegCM bug in configure. (#10863) 
The configure of RegCM treats --disable-FEATURE as --enable-FEATURE,
so we cannot use enable_or_disable.
 2019-03-12 19:48:45 -05:00
Owen Solberg
dc5b16a8e9 added checksum for 20190222 release of gnu parallel (#10865) 2019-03-12 19:40:29 -05:00
Eric Martin
50193229ea py-llvmlite: Add versions 0.26.0 and 0.27.1 (#10866) 2019-03-12 19:40:01 -05:00
Mark W. Krentel
3ed6e78338 New package: ibm-java (#10777) 
* Add binary package of the IBM Java SDK for big and little-endian
  powerpc (power7, 8 and 9).  The jdk and openjdk packages only install
  on x86_64.
* Add ibm-java as a java provider
* The jdk and openjdk packages only install on x86_64. Add conflicts
  for ppc64 and ppc64le to jdk and openjdk.
 2019-03-12 18:05:47 -05:00
wspear
e1e5eb29d2 Elfutils package: add m4 dependency and version 0.176 (#10834) 
* Elfutils requires m4 to build
* Add version 0.176
 2019-03-12 17:35:59 -05:00
Robert Pavel
1450fe72fa New package: Draco (#10844) 2019-03-11 20:57:00 -05:00
Matthias Diener
5e68af5a78 scons package: add missing dependency to py-setuptools (#10856) 2019-03-11 20:30:12 -05:00
Jiawei Zhuang
74b33e9f82 OpenMPI: v4.0.0 + Slurm installation error (#10853) 
shmemrun and oshrun do not exist in OpenMPI v4.0.0
(ref: https://www.open-mpi.org/doc/v4.0/)

The Spack OpenMPI package was failing the install by trying to
remove them. This guards the removal of several scripts when
using the Slurm scheduler to handle the case where they don't exist.
 2019-03-11 20:18:50 -05:00
Michael Kuhn
1e6b13d335 Fix URLs for VI-HPS projects (#10821) 
URLs for the opari2, otf2, and scorep packages have changed (although
the checksums are the same)
 2019-03-11 20:12:44 -05:00
Stas Sergienko
9ffd508d7c mpich: add psm2 fabric support (#10814) 
psm2 is only supported for versions 2.2 and up, so a conflict is
added for earlier versions
 2019-03-11 20:10:02 -05:00
健美猞猁
888bb76758 New package: cotter (#10838) 2019-03-11 19:46:40 -05:00
Eric Martin
1d51cdf824 STAR: Add versions 2.7.0d and 2.7.0e (#10831) 2019-03-11 19:44:54 -05:00
Eric Martin
23b73ca982 py-chardet: Add version 3.0.2 (#10827) 2019-03-11 19:44:30 -05:00
Eric Martin
2e47b45d9f py-urllib3: Add version 1.21.1 (#10826) 2019-03-11 19:44:07 -05:00
Greg Sjaardema
204063e21a cgns package: add version 3.4.0 and update hdf5 dependency (#10803) 
* Add version 3.4.0
* Update checksums for older versions to sha256
* Require hdf5~mpi when building with ~mpi
 2019-03-11 19:43:16 -05:00
Eric Martin
dc0b6a0613 samtools package: Add version 1.5 and htslib 1.5 dependency (#10825) 2019-03-11 19:29:29 -05:00
Alberto Chiusole
2b591653fa hdf5 package: add version 1.10.5 (#10794) 2019-03-11 15:15:03 -05:00
Justin Stanley
46466381b8 py-crossmap: new package at 0.3.3 (#10854) 2019-03-11 15:13:02 -05:00
Michael Kuhn
9425075a23 flex: Apply 2.6.4 patch regardless of gcc version (#10841) 
It seems that this is actually a glibc problem and while 2.6.4 builds
without the patch on newer versions of gcc (@8:), it still sometimes
segfaults (as observed during the doxygen build).
 2019-03-11 15:12:28 -05:00
Ce Qin
43525d3445 mpich: remove libpciaccess dependency for MacOS (#10795) 2019-03-11 15:06:49 -05:00
Gregory Lee
1fd01af773
added intel 19.0.3 packages (#10835) 
* added intel 19.0.3 packages

* added intel 19.0.3 packages
 2019-03-11 07:03:24 -07:00
Chris Green
1931bc8b40
Add 2019.{3,4} and patches for pedantic warnings. (#10836) 2019-03-11 09:03:19 -05:00
Chris Green
7e22fdfa21
boost: patch for problem with warnings for 1.69.0. (#10820) 2019-03-11 09:02:50 -05:00
Eric Martin
43b45f4140 breseq package: Add version 0.33.2 and zlib dependency (#10747) 
For zlib, also update the `CFLAGS`/`LDFLAGS`
 2019-03-08 20:57:00 -06:00
Denis Davydov
c81e68030a intel: add 2019.3 (#10843) 2019-03-08 14:50:58 -08:00
Christoph Junghans
0d07dea2eb
snap: overwrite flags (#10832) 2019-03-07 14:53:04 -07:00
Christoph Junghans
c11e745421
cloverleaf3d: overwrite flags (#10830) 2019-03-07 14:08:52 -07:00
Christoph Junghans
2f7589adc4
cloverleaf: overwrite flags (#10829) 2019-03-07 14:08:36 -07:00
Levi Baber
016945f67a
autofact: fix dependency (#10818) 2019-03-07 13:51:40 -06:00
Eric Martin
e750c5af66 trimmomatic package: restrict java dependency to version 8 (#10741) 2019-03-07 13:49:57 -06:00
Tristan Carel
dd6e91fcb6 Nix package: update dependencies (#10646) 
* Add 'fiber' as a default library for boost
* Add autoconf/automake etc. dependencies to libseccomp package
* New package: brotli
* New package: editline
* Add brotli, editline, boost dependencies to Nix
 2019-03-07 13:32:55 -06:00
Matthias Maiterth
23822e9717 GEOPM package: add version 1.0.0-rc2 (#10737) 2019-03-07 13:18:05 -06:00
Eric Martin
d072a1e0e3 py-sip package: Add version 4.19.3 (#10742) 2019-03-07 13:16:54 -06:00
Eric Martin
435db9d1a5 seqtk package: Add version 1.3 (#10743) 2019-03-07 13:16:20 -06:00
Michael Kuhn
3fb75e1206 flex package: patch for building 2.6.4 with gcc 7 (#10754) 
Remove 2.6.3 as preferred version (but keep it available for
building). The latest version (currently 2.6.4) is now preferred
(according to Spack's defaults).
 2019-03-07 13:15:47 -06:00
Eric Martin
49e307398b py-certifi: Add version 2017.4.17 (#10828) 2019-03-07 13:09:26 -06:00
Michael Kuhn
2fed84058d py-flake8: Add missing dependencies for @3.7.7 (#10796) 
* Update dependencies for py-flake8 when building version 3.7.7
* Add FIXME comment for an example dependency constraint which causes
  concretization to hang
* Add py-entrypoints version 0.3
* Add py-pycodestyle version 2.5.0
 2019-03-07 12:50:30 -06:00
健美猞猁
42633e34ab CMake package: update libuv dependency constraints (#10824) 
* Add libuv version 1.10.0
* CMake versions before 3.12.0 do not build with libuv version
  1.25.0, so a constraint is added to build earlier versions of
  CMake with libuv version 1.10.x
 2019-03-07 12:42:24 -06:00
prs513rosewood
32bbffc869 thrust: add versions 1.9.0-1.9.4 (#10823) 2019-03-07 14:36:59 +01:00
Eric Martin
efdeb860d1 transdecoder package: Add version 5.5.0 and fix up url and installation paths (#10745) 
* Add version 5.5.0 and fix installation locations
* URL format has changed as of version 5.5.0
* Update paths created for installation
 2019-03-06 20:58:50 -06:00
Eric Martin
45856c3660 bsseeker2 package: Add versions 2.1.8 and 2.1.5 (#10748) 
As of version 2.1.8, the url format changed, so also update that
 2019-03-06 20:55:06 -06:00
Jeongseok Lee
0e22a94f81 Eigen package: support Spack-external builds using Eigen (#10751) 
Update CPATH in setup_environment for Eigen, so that the
Spack-generated module for Eigen will help builds outside of Spack
use the appropriate include prefix for Eigen headers 
(<install_prefix>/include/eigen3/ rather than <install_prefix>/include/)
Note that this only updates the run-time environment, rather than the
build-time environment, so Spack builds depending on Eigen that use
pkgconfig will not be confused by the presence of the Eigen include
directory in CPATH.
 2019-03-06 20:48:38 -06:00
Matthias Diener
836f40e30f scons: add version 3.0.4, cleanup URLs (#10806) 2019-03-06 20:39:39 -06:00
HAOCHENG LIU
a3a8ed7234 vtk-m package: turn off mpi support by default (#10755) 2019-03-06 20:34:49 -06:00
健美猞猁
9d880b8838 New package: dysco (#10767) 2019-03-06 20:25:06 -06:00
Greg Sjaardema
c19df8be5d NetCDF package: update constraints on hdf5 mpi support (#10788) 
Update NetCDF to require building hdf5 without mpi when NetCDF itself
is built without mpi support.
 2019-03-06 20:20:16 -06:00
Satish Balay
35daaa440f omega-h: add version 9.22.2 and update gcc 8 conflict (#10776) 
* Versions before 9.22.2 compiler with gcc 8.3 or later
* Added version 9.22.2, which compiles with all gcc 8.x versions
  (including those before 8.3)
 2019-03-06 20:10:47 -06:00