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Author SHA1 Message Date
jkelling
84e6fb3a64 package nccl: Fix install_targets for verison 2.3.5-5: (#9623) 2018-10-25 17:57:41 -07:00
Justin Stanley
b1e84d4cdc r-argparse: remove unnecessary r-getopt version (#9638) 
There is no checksum for r-getopt@1.19 and this package is compatible
with the latest version anyway.
 2018-10-25 17:55:22 -07:00
Justin Stanley
b7973d01ef spades: add conflict with older gcc (#9640) 2018-10-25 17:54:27 -07:00
Miles Perry
837dc22a0b new package: karma (#9571) 2018-10-25 17:53:22 -07:00
Cameron Stanavige
e91f8f5f82 unifycr: new package (#9594) 2018-10-25 17:50:45 -07:00
Matthias Diener
df7cd00c47 hdf5: add version 1.10.4 (#9625) 2018-10-25 17:22:45 -07:00
Denis Davydov
fb86598b35 suite-sparse: add GCC version constraint (#9622) 
Move suite-sparse gcc version constraint from dealii to suite-sparse
package and update it (gcc 4.9 is required as of version 5.2.0 rather
than 5.1.0). The constraint is now expressed as a conflict rather
than a dependency.
 2018-10-25 17:20:25 -07:00
dorier
534b71bdf1 Package VisIt: updated visit package (#9433) 
* updated visit package

* make hdf5 and silo conflict with ~gui variant

* Changed parallel => mpi and quotes in description

* Corrected +mpi variant in VisIt package

The previous commit introduced a bug (+parallel variant wasn't renamed +mpi), and the +mpi variant wasn't True by default. This is corrected.
 2018-10-25 23:53:29 +02:00
Federico Ficarelli
8d27c1fea1 spdlog: add new versions (#9636) 2018-10-25 12:45:09 +02:00
Matthias Diener
0fdd47b947 git: add new version 2.19.1 (#9637) 2018-10-25 12:43:22 +02:00
Jon Rood
a0fb2838ea Add pic variants to tioga, openfast, nalu-wind, and nalu. (#9560) 2018-10-24 14:39:12 +02:00
Matthias Wolf
8767167c79 py-pyarrow: new package (#9416) 
arrow: add missing dependency for python build

The Parquet library moved into the Arrow organisation, hence add a
parquet flavor and adapt dependencies.
 2018-10-24 12:53:32 +02:00
Dave
6738352700 Warpx: non-conditional dependency on MPI (#9587) 2018-10-24 12:44:28 +02:00
dorier
d33c1a14d7 New package: Damaris (#9601) 2018-10-24 10:28:39 +02:00
Stephen Herbein
49c705aebe flux-core & flux-sched: update versions and dependencies, fix git tags (#9610) 
* flux: ensure git tags are always available

previous `--unshallow` would only run when `--depth 0` was used.  If
1--single-branch` was used, then the `.git/shallow` file would not exist
and `--unshallow` would not work.

add v0.6.0 and update dependencies accordingly

update dependencies to match latest flux versions

adds support for python 3
increases precision of czmq version required for older flux versions
adds new lz4 dependency
 2018-10-24 10:06:34 +02:00
Cameron Smith
19207549ad pumi: add version 2.2.0 (#9606) 2018-10-22 22:21:50 -05:00
Gregory Lee
e4a24c3fbc added stat version 4.0.1 (#9607) 
* Add stat version 4.0.1
* stat 4.0.1: requires py-xdot
* stat versions at or above 4.0.0 dont require python 2 (it still
  requires python but can build with 2 or 3)
* stat versions at or above 4.0.0 dont require py-pygtk and py-enum34
* Replace py-xdot version 0.9.1 with 1.0
* py-xdot: use lib directory vs. lib64 for atk dependency
 2018-10-22 18:59:44 -07:00
Satish Balay
31bed8f8f2 plasma: add 18.10.0 and fix URL (#9608) 2018-10-22 18:00:39 -07:00
Satish Balay
1a69bb474f
hypre: update to version 2.15.1 (#9602) 2018-10-22 18:05:23 -05:00
Satish Balay
408c156544
sundials: update to version 3.2.1 (#9603) 2018-10-22 18:04:53 -05:00
Piotr Luszczek
01913fb34d PLASMA: add version 18.9.0 (w/CMake) (#9489) 
* Add version 18.9.0 (w/CMake)
* Add version dependent install methods to handle transition from
  Make-based package (17.1) to CMake-based package, using the NEST
  package as an example
* Remove unnecessary build_targets method for older Make-based
  version
* Don't retrieve just the C/Fortran interfaces for netlib-lapack -
  blas/lapack libs are now handled the same for all implementations
* Remove netlib-lapack detection patch
 2018-10-22 11:26:23 -07:00
Pieter Ghysels
db98418fef Update STRUMPACK package: (#9580) 
* add new version 3.1.0
* add conflict for parmetis without mpi
* strumpack >= 3.1.0 uses -DTPL_ENABLE_<package> instead of
  -DSTRUMPACK_USE_<package>
* require cmake at least 3.2
 2018-10-22 11:05:14 -07:00
Peter Scheibel
c50fdbc058 py-gtk needs to build with python@2.7 and also requires atk, so the atk python dependency cannot be unconditionally constrained to @3: (#9596) 2018-10-22 10:08:17 -07:00
Daniel Topa
531c29bd8b PMIX: replace md5 hash with sha256 for recent versions (#9585) 2018-10-19 18:28:19 -07:00
Ricardo Silva
d0c38f0473 plumed: libmatheval support (#9586) 
* plumed: add libmatheval dependency (used by the 'function' module)
* guile: add variant to build with threads interface
* libmatheval: add flex dependency
 2018-10-19 18:18:56 -07:00
Justin Stanley
187dfb61a3 new package: trimal (starting at 1.4.1) (#9592) 2018-10-19 18:01:55 -07:00
Justin Stanley
29cb82c988 new package: lastz (starting at 1.04.00) (#9593) 2018-10-19 17:57:46 -07:00
Justin Stanley
d048bbb7ee bcftools: add version 1.9 (#9595) 2018-10-19 17:30:52 -07:00
Ricardo Silva
53678d4f2f New package: DFT-FE (#9197) 2018-10-19 15:04:15 -07:00
Denis Davydov
20d830f8df new package: dbcsr (#9491) 
Also add its dependency, py-fypp
 2018-10-19 14:59:46 -07:00
Justin Stanley
e219bc39dc jdk: added version 11.0.1 (#9583) 2018-10-19 10:51:38 -07:00
Dave
343ad17383 warpx: new package (#9584) 2018-10-19 13:31:22 +02:00
Dan Han
5f482b3c14 r-biom-utils: changed MD5 to SHA, added list_url (#9539) 2018-10-18 18:27:24 -07:00
sknigh
df7c9c2e7b binutils: add older version 2.25.1 (#9579) 
Added version available in RHEL/Centos 7
 2018-10-18 13:42:32 -07:00
Jordan Moxon
7d06d446f0 blaze package: add versions 3.3 and 3.4 (#9546) 2018-10-18 13:41:21 -07:00
Dan Han
92df7b0020 r-matr and r-callr: add new versions, list_urls (#9562) 2018-10-18 13:40:38 -07:00
Neil Flood
b5815e2629 qt4: Patch configure to allow webkit with recent gcc (#9264) 2018-10-18 13:28:53 -07:00
Geoffrey Oxberry
38111dc68e llvm: rename "trunk" version to "develop" (#9320) 2018-10-18 13:22:56 -07:00
David Wells
caab0d53a2 Update samrai 2.4.4 (#9311) 
* Add support for samrai+silo.
* Add patch for SAMRAI 2.4.4
 2018-10-18 13:20:07 -07:00
Justin Stanley
37056edb56 r-rmarkdown: add r-catools dependency (#9470) 2018-10-18 13:15:01 -07:00
Matthias Wolf
b1849f9c8b parquet: add -fPIC option (#9367) 
This adds a pic variant and also exports all compiler flags as CMake
arguments
 2018-10-18 13:12:56 -07:00
Michael Kuhn
48c7ee37c1 qt: addversion 5.11.2 (#9555) 2018-10-18 13:02:32 -07:00
Matt Belhorn
0f5f49f751 spark: set JAVA_HOME for hadoop CLASSPATH fetching (#9439) 
Sets the `JAVA_HOME` in the `hadoop` subprocess called during
`spark.setup_environment`.
 2018-10-18 12:45:11 -07:00
Justin Stanley
a2dc958248 new package: trinotate (starting at 3.1.1) (#9471) 2018-10-18 11:47:46 -07:00
Matthias Diener
3228f0af57 byobu: add new version 5.127 (#9529) 2018-10-18 11:45:01 -07:00
Dan Han
aecdcaad34 ranimation: added list_url (#9538) 2018-10-18 11:44:47 -07:00
Michael Kuhn
6f21c7f87c freetype: Add version 2.9.1 (#9551) 2018-10-18 11:44:16 -07:00
Cameron Smith
fbbe4968f0 add pumi version docstring (#9577) 2018-10-18 11:42:25 -07:00
Matthias Wolf
572bbfda6d py-seaborn: add version 0.9.0 (#9553) 2018-10-18 11:40:58 -07:00
Matthias Wolf
8738268e0a py-hdfs: new package (#9575) 2018-10-18 11:39:54 -07:00
Brian Van Essen
659d845185 lbann: add aluminum dependency (#9523) 
* Added support for the Aluminum library to LBANN and Hydrogen. Also
  fixed several bugs in the grouping of dependencies of both packages.
* Updated the conduit package to have the proper dependency on the
  python variant.
* Added new versions for NCCL
* Fixed a bug in how Hydrogen set the path for OpenBLAS.
* Added support for conduit in LBANN.
 2018-10-18 11:22:17 -07:00
Ruben Di Battista
d1db12e153 vtk: add support for Xdmf IO. (#9510) 
* vtk: add variants for Xdmf IO support, ffmpeg support, and MPI
* vtk: depends on boost when Xdmf support is enabled
* vtk: add backported patch for python3.7
* vtk: New policy only for cmake >= 3.12
* mesa: add py-argparse dependency (for build)
* lz4: use MOREFLAGS instead of LIBS to add -lrt
 2018-10-18 10:18:05 -07:00
Javier Cervantes
3d32e8add2 Add new python package: hepdata-validator (#9547) 
* Add new python package: hepdata-validator

* Update to new license header
 2018-10-18 03:53:44 -07:00
Levi Baber
286f0c8236
Revert "py-hdfs: new package (#9421)" (#9572) 
This reverts commit 5a7d0c458b.
 2018-10-17 19:26:59 -05:00
Leonhard Reichenbach
ea033d4b71 py-numpy: update to version 1.15.2 (#9535) 2018-10-18 01:30:04 +02:00
Michael Kuhn
e0e54c0073 scalasca: add 2.4 (#9556) 
scalasca actually requires cubew, not the full cube bundle. However,
cubew@4.4 causes the build of previous versions to fail because there is
no cube-config script anymore.
 2018-10-18 01:27:08 +02:00
Matthias Wolf
5a7d0c458b py-hdfs: new package (#9421) 2018-10-17 18:10:20 -05:00
Todd Gamblin
eea786f4e8 relicense: replace LGPL headers with Apache-2.0/MIT SPDX headers 
- remove the old LGPL license headers from all files in Spack
- add SPDX headers to all files
  - core and most packages are (Apache-2.0 OR MIT)
  - a very small number of remaining packages are LGPL-2.1-only
 2018-10-17 14:42:06 -07:00
Todd Gamblin
3501bc9124 relicense: remove LGPL-2.1-only farmhash package 
- we did not get consent for this package
 2018-10-17 14:42:06 -07:00
Todd Gamblin
7ba4c6200c relicense: remove significant contributions from peetsv 
- This is bundled into one commit to make it easy to revert if we do get
  consent from peetsv's company to relicense these contributions.

- Revert "dialign-tx adding patch for gcc@5.4.0 (#6413)"
  - This reverts commit 09eeb991a2.

- Remove the following LGPL-2.1 packages because we have not gotten
  consent to relicense them:
  - fast-gbs
  - igv
  - metasv
  - perl-xml-libxml
  - py-cnvkit
  - py-crossmap
  - py-pybedtools
  - py-pyfaidx
  - py-pyvcf
  - py-vmd-python
  - r-cghflasso
  - r-dismo
  - r-proc
  - r-spatial
  - r-utf8
 2018-10-17 14:42:06 -07:00
Dan Ibanez
470a45c516 omega-h: fix dependencies (#9552) 
* omega-h: fix dependencies

1. Remove Gmodel altogether. Omega_h doesn't
   actually call Gmodel for anything, it was
   more or less just doing additional unit
   testing for Gmodel

2. Make Trilinos off by default. Most codes do
   not need the ParameterList interface, and
   Kokkos through Trilinos is not well explored
   in Spack

3. Use modern CMake style to choose the zlib
   dependency
 2018-10-17 13:30:19 -05:00
Satish Balay
4225dc106b
omega-h: update to versions 9.19.0, 9.19.1 (#9548) 
* omega-h: update to versions 9.19.0, 9.19.1

* omega-h: add build conflict for gcc-8
 2018-10-17 10:28:48 -05:00
Satish Balay
da3f45eb6b
pflotran: switch to parallel build (#9554) 2018-10-17 09:57:20 -05:00
Satish Balay
62d821d843
amrex: add version 18.10.1 (#9550) 2018-10-17 09:12:49 -05:00
Satish Balay
9838f9609c
gmodel: switch from .zip to .tar.gz to avoid unzip dependency (#9549) 2018-10-17 09:11:43 -05:00
Dan Ibanez
bc213074cd Fixes to Omega_h C++ compiler flags (#9545) 
* omega-h: fix CMake CXX flag options

* omega-h: turn warnings off by default
 2018-10-17 07:49:00 -05:00
Justin M Wozniak
1597d67629 stc and turbine: fix depends_on(type) (#9537) 2018-10-16 13:27:23 -07:00
Jordan Moxon
ef11d27f7f libsharp: new package (#9530) 2018-10-16 11:24:42 -07:00
Leonhard Reichenbach
118f616b19 py-setuptools: add version 40.4.3 (#9534) 2018-10-16 11:03:03 -07:00
snehring
8e2015121b sspace-standard: use Getopt::Std instead of getopts.pl (#9516) 
getopts.pl is not listed as a Spack dependency of sspace-standard,
so without this change, this package was only working on systems
where getopts.pl was already installed.
 2018-10-15 19:07:36 -07:00
Andreas Baumbach
aae994258c update py-mock dependencies based on requirements.txt (#9496) 2018-10-15 18:27:13 -07:00
Daniel Topa
c5185b18cc pmix package: add new versions (#9532) 2018-10-15 18:21:02 -07:00
Christoph Junghans
79c44ddf20
cabana: initial commit (#9444) 
* cabana: initial commit

* Cabana: added v0.1.0-rc0
 2018-10-15 15:45:56 -06:00
Jordan Moxon
9176dc29b0 ssht: new package (#9518) 2018-10-15 12:44:09 -07:00
snehring
ac68ed8fa8 redundans: replace incorrect hard-coded path for sspace-standard (#9483) 2018-10-15 12:43:02 -07:00
Matthias Diener
13c83b8ca4 cmake: add version 3.12.3 (#9528) 2018-10-15 12:40:38 -07:00
Ricardo Silva
24865fccdc sra-toolkit: new version and preserve symlinks (#9525) 
Before this, the same files were copied 3 times
 2018-10-15 11:09:00 -07:00
Jon Rood
3a2088b4f7 Build Nalu-Wind and Trilinos statically on Darwin (#9522) 
* Added conflict in Trilinos for STK when building as shared on Darwin.
* Created shared variant for Nalu and Nalu-Wind to automatically build
  Trilinos as static library on Darwin. 
* Moved ECP tags from Nalu to Nalu-Wind (the latter is the official
  ECP application).
 2018-10-15 11:03:11 -07:00
Leonhard Reichenbach
91f9a25905 py-scikit-learn: added version 0.20.0 (#9526) 2018-10-15 10:25:05 -07:00
Justin M Wozniak
ec81ec5f54 Swift/T Release 1.3 (#4641) 
New release of Swift/T along with turbine, adlbx, and exmcutils
dependencies. Update URLs for archive downloads.
 2018-10-12 17:32:27 -07:00
Andreas Baumbach
028391c0a3 py-spyder: update dependencies and fix build (#9207) 
* Remove py-setuptools dependency from py-spyder (fixes #9205)
* Add constraint on transitive qt dependency to build with webkit
  extension (required for this package)
* Update pycodestyle dependency constraints
* reordered dependencies (py-zmq, py-chardet) to confirm to the
  ordering in setup.py
 2018-10-12 10:57:32 -07:00
Leonhard Reichenbach
b0430457aa Added py-pandas@0.23.4 and py-bottleneck@1.2.1 (#9515) 2018-10-12 18:52:39 +02:00
Michael Kuhn
84f4e86358 Update scorep and friends (#9495) 
- cube: Add 4.4.2, add conflicts for ~gui, build 4.4 from cubegui tar
- cubelib: Add 4.4.2
- cubew: Add 4.4.1
- opari2: Add 2.0.4
- scorep: Add 4.1
 2018-10-12 18:51:52 +02:00
Satish Balay
e38f39e4ea
superlu-dist: fix v5.3.0 buid - its attempting to build internal blas (#9517) 
https://github.com/spack/spack/issues/9514
 2018-10-12 10:58:37 -05:00
Lars Bilke
6db1472c58 vtk: Added mpi variant (#9494) 2018-10-12 11:33:01 +02:00
Michael Kuhn
24c75d39e4 codes, dia, nest: fix pkg-config dependency (#9498) 
pkgconfig is the virtual provider, pkg-config is a specific
implementation.
 2018-10-12 09:57:44 +02:00
Michael Kuhn
cfd0b46941 at-spi2-atk: add missing pkgconfig dependency (#9503) 2018-10-12 09:56:44 +02:00
Michael Kuhn
1200b19b52 dbus: add missing pkgconfig dependency (#9497) 2018-10-12 09:55:33 +02:00
sknigh
a7dc725e2d Ease nlohmann-json conflict with gcc 4.8 (#9506) 2018-10-12 09:45:54 +02:00
Michael Kuhn
2ae75702c0 libepoxy: fix build (#9508) 
- Add missing pkgconfig dependency
- Explicitly disable egl
 2018-10-12 09:34:09 +02:00
Denis Davydov
5196c1a51a dealii: add 9.0.1 and update to sha256 (#9511) 2018-10-12 09:17:26 +02:00
Satish Balay
91fbc59f22
amrex: add in new version for xsdk [18.09.1, 18.10] (#9501) 2018-10-11 12:47:21 -05:00
Miroslav Stoyanov
a3ffaefebd updated tasmanian package with v6.0, improved depend_on and conflicts information (#9438) 2018-10-11 11:25:20 -05:00
Satish Balay
0226546c29
superlu-dist: switch to sha256sum (#9499) 
replace 5.1.1 with 5.1.2 as 5.1.1 does not build for me. [and 5.1.3 is preferable in this 5.1 series anyway]
 2018-10-11 10:59:27 -05:00
Gustavo Chávez
4b50928a36 Update superlu-dist package.py to support latest release v6.0.0 (#9445) 
* superlu-dist: Update package.py for superlu-dist v6.0.0 using CMake

* superlu_dist: Update the header of package.py

* Specify lapack_blas and DCMAKE_INSTALL_LIBDIR
disable support for superlu-dist before v5
 2018-10-11 10:06:43 -05:00
Denis Davydov
a6fb2fdea4 trilinos: disable superlu-dist by default (#9492) 
current stable releases of PETSc and Trilinos have non-overlapping
requirements on Superlu-dist. For now turn it off by default in
Trilinos, which requires older versions.
 2018-10-11 08:19:32 -05:00
Michael Kuhn
d8414dd770 go: Add 1.11.1 (#9493) 2018-10-11 12:08:42 +02:00
Robert Blake
b18fea6c83 ncdu: add new versions (#9477) 2018-10-10 19:15:33 -07:00
Piotr Luszczek
b100d1fc40 Magma: add version 2.4.0 (#9478) 2018-10-10 19:14:31 -07:00
Denis Davydov
2914644b30 openblas: patch experimental USE_TLS makefile option for 0.3.3 (#9474) 2018-10-10 18:58:47 -07:00
Phil Carns
312de47594 update rdma-core package to specify rundir (#9370) 2018-10-10 18:51:19 -07:00
sknigh
aac8d52075 vtk: added v8.1.1, added option to disable libharu (#9475) 
* Added VTK 8.1.1, added option to disable libharu
* Add variant description to vtk+libharu
 2018-10-10 14:57:28 -07:00
Serban Maerean
113b750b89 Update compile flags for netlib-lapack when building with the XL compiler. (#9318) 
We need to use -O3 -qstrict -qnohot. Modified ibm-xl.patch and netlib-lapack
package file.
 2018-10-10 14:16:50 -07:00
sknigh
013d4ad6a0 Added sst-core and variant for core to sst-macro. (#9380) 2018-10-10 11:02:18 -07:00
Levi Baber
53b19e7919
perl-scalar-util-numeric: new package (#9466) 2018-10-10 12:35:37 -05:00
Gregory Lee
7699419fc1 new xdot.py package and necessary updates to GUI libs (#9179) 
* new xdot.py package and necessary updates to GUI libs

* new xdot.py package and necessary updates to GUI libs
 2018-10-10 19:07:51 +02:00
Michael Kuhn
e176f2a2f5 Fix missing dependencies and glibc build failures (#9106) 
* bison: Add missing build dependencies

bison also depends on cmp, which is currently not available in Spack.

* help2man: Add missing build dependency

* m4: Fix build with newer versions of glibc

* openssl: Add missing build dependency

openssl's configure script is actually a Perl script.

* texinfo: Add missing perl dependency

* diffutils: New package

* findutils: Fix build with newer versions of glibc

* mvapich2, mpich: Add missing findutils dependency
 2018-10-10 14:17:12 +02:00
Michael Kuhn
b85a910463 rdma-core: Fix checksum for @17.1 (#9480) 2018-10-10 14:06:51 +02:00
Seth R. Johnson
8ab6539c0e Add important variants to MOAB and Geant4 (#9409) 
* Add option to disable threads for Geant4
* Add option to enable DagMC in MOAB
* Explicitly add OFF flag when threading is disabled
* Fix unintentional enabling of C++14 in Geant4
  The following always evaluated to True:
    'c++14' or 'c++1y' in spec:
 2018-10-09 17:05:49 -07:00
Dan Han
aede227580 matlab: new version (#9427) 2018-10-09 16:58:52 -07:00
Levi Baber
3e565a734a braker: add missing deps (#9468) 2018-10-09 16:55:28 -07:00
sknigh
03231a39db Added nlohmann-json v3.3.0 (#9463) 2018-10-09 16:54:59 -07:00
Justin Stanley
6c4e0b1bf1 sspace-standard: add perl-perl4-corelibs dep, fix perl scripts (#9473) 
perl scripts were pointing to /usr/bin/perl, changed to point to
the spack-installed perl
 2018-10-09 16:54:32 -07:00
Greg Becker
ca0d9ae7f0
Make builtin flag handlers available in package scope (#8668) 
* Push default flag handlers into module scope

* Preserve backwards compatibility of builtin flag handler names

Ensure Spack continues to work for packages using the `Package.env_flags` idiom and equivalent.

* update docs and tests to match

* Update packages to match new syntax
 2018-10-09 15:18:31 -07:00
Mark W. Krentel
54bd049d99 xerces-c: add variant for transcoder, rework config flags. (#9393) 
* xerces-c: Add variant for choice of transcoder (gnuiconv, iconv, icu,
  macos, windows).  It's important to specify a --enable-transcoder
  option on the configure line or else xerces may make a different
  choice when multiple transcoders are available.
* Pass the compile flags to configure.  For cflags and cxxflags, this is
  necessary to respect the value from the spack install line.
  Otherwise, xerces (and any autotools package) will choose a default
  value that overrides the spack compiler wrapper.
* Add xerces version 3.2.2.
* icu4c needs the --enable-rpath configure option on Darwin
 2018-10-09 15:12:34 -07:00
Dan Han
5cafe1b4e8 blastplus: newest version 2.7.1 (#9472) 2018-10-09 13:22:34 -07:00
Satish Balay
5e4264ed89
xsdk: reorder develop version statements (#9469) 2018-10-09 14:19:29 -05:00
Denis Davydov
ab099e9ba3 trilinos: extend TPetra explicit instantiations and fix missing Teuchos counterparts (#9448) 2018-10-09 12:07:13 -07:00
Chris Green
5ebdc6076f New package: pythia6 (#9340) 
Includes optional extra code for compatibility with Root.
 2018-10-09 11:56:43 -07:00
Satish Balay
9ee8a1055b
petsc: add petsc-3.10.2 (#9467) 2018-10-09 13:14:41 -05:00
Robert Pavel
9c221228ef Removed gtk dependency from Candle (#9451) 
After talks with candle dev, removed unsatisfiable conflict with
candle-benchmark and opencv by disabling gtk in the candle spec
 2018-10-09 11:38:54 -06:00
Levi Baber
f12b42e8e6
Autofact: new package (#9317) 
* autofact: new package

* autofact: typo

* autofact: syntax

* autofact: deps

* autofact: perl mods path

* autofact: edit->patch and script path
 2018-10-09 12:26:46 -05:00
Justin Stanley
817ee344c5 perl-perl4-corelibs: new package (#9459) 2018-10-09 09:17:21 -05:00
Ricardo Silva
36941ffb45 New package: tldd (#9434) 
* New package: tldd

* https://gitlab.com/miscripts/tldd

* Improvements

* make it prefetchable by specifying a hash based version
* specify the constraints on pstreams versions (from INSTALL)

* Improvements

* Make it a Makefile Package and only overwrite the install_targets
* Remove the URL as there's really no downloadable 'tar ball' version
 2018-10-09 09:15:42 -05:00
Justin Stanley
22a56d86ae energyplus: new package starting at 8.9.0 (#9262) 
* energyplus: new package starting at 8.9.0

* energyplus: fix misleading comment

* energyplus: remove redundant version url
 2018-10-09 08:45:13 -05:00
Pieter Ghysels
838337da37 STRUMPACK: new package (#9429) 
* Initial commit for new package STRUMPACK, a linear solver library.

* Update to STRUMPACK version 3.0.3.
This adds a check for OpenMP task priority support (since OpenMP 4.5)
 2018-10-09 08:44:49 -05:00
Justin Stanley
8f4123e564 r-proto: added 1.0.0 (#9456) 
* r-proto: added 1.0.0

* r-proto: reorder versions
 2018-10-09 08:44:17 -05:00
Justin Stanley
b17fb74e5f ant: add tested 1.10.0, switch build target (#9358) 2018-10-08 17:09:56 -05:00
Justin Stanley
80100ffc39 treesub: new package starting at 0.2 (#9361) 
* treesub: new package starting at 0.2

* treesub: fix ant build, add exec script

* treesub: use portable octal format

* treesub: add license header

not sure how it even went missing.
 2018-10-08 16:26:51 -05:00
Miles Perry
4e20b16dbe added list URL for r-rodbc (#9460) 2018-10-08 16:25:52 -05:00
Justin Stanley
b8e0d5824e r-edger: add r-rcpp dependency (#9457) 
* r-edger: add r-rcpp dependency

* r-edger: add r-rcpp to link deps
 2018-10-08 16:25:31 -05:00
Simon Flood
84046b79b2 New package: pplacer (#9112) 
* New package: pplacer

Simple package - copies files and directory out of a zip file

* Update package.py
 2018-10-08 16:02:12 -05:00
Justin Stanley
b2e255fe5a figtree: new package starting at 1.4.3 (#9359) 
* figtree: new package starting at 1.4.3

* figtree: add java dep

* figtree: use portable octal format

* figtree: remove boilerplate
 2018-10-08 16:00:21 -05:00
snehring
c379f4ee24 sspace-standard: adding threads variant to perl dependency (#9452) 2018-10-08 15:41:36 -05:00
Justin Stanley
b62571ecdf r-readxl: added 1.1.0 (#9454) 2018-10-08 15:40:45 -05:00
Strahinja Trecakov
cf52083b74 perl-module-build new version (#9404) 2018-10-08 09:12:13 +02:00
dorier
e51b48d9a1 Catalyst Package: made Python mandatory at build time (#9432) 
The build process of Catalyst requires Python at build time (see line 86) even when the +python variant is not selected.
When the +python variant is selected, Python becomes required at build, link, and run time. There doesn't seem to be any restriction on the version of Python required when +python is not selected.
 2018-10-08 09:10:03 +02:00
dorier
baa664ffaa Fix: bug in VTK package (#9431) 
* Fix: bug in VTK package

Fix for issue 9423 (https://github.com/spack/spack/issues/9423): compilers other than clang don't have the `is_apple` property.

* VTK package: removing trailing whitespace

So flake8 stops complaining.
 2018-10-08 09:08:50 +02:00
Matthias Wolf
c0249eddb1 py-pyspark: new package (#9419) 2018-10-08 09:03:31 +02:00
Jon Rood
2e11d5914c Update HYPRE with version 2.15.0. (#9443) 2018-10-08 08:58:02 +02:00
DDevHan
75fe3a5436 Pacvim new (#9273) 
* pacvim: new package

* pacvim: removed fixme's

* pacvim: added full docstring

* pacvim: fixing docstring
 2018-10-05 12:07:22 -05:00
Matthias Wolf
d77ed45bfe py-jprops: new package @ 1.0.2 (#9417) 2018-10-05 10:58:49 -05:00
DDevHan
b8fcc4d230 Canu-Updated to lastest version:1.7.1 (#9413) 
* Canu-Updated to lastest version:1.7.1

* canu: added sha256 hash as comment above version

* canu: changed to sha256
 2018-10-05 10:56:03 -05:00
Reid Priedhorsky
7c35c70217 add Charliecloud 0.9.2 and 0.9.3 (#9441) 2018-10-05 11:16:07 +02:00
Justin Stanley
011ad24950 salmon: remove static link to libstdc++ (#9343) 2018-10-04 20:57:33 -05:00
Patrick Gartung
d981f28a80 Davix version update (#9304) 
* Replace old version with new version
* Remove patch only needed by CMS
 2018-10-04 16:12:53 -07:00
Patrick Gartung
5a20217a54 VecGeom: add versions and cxxstd variant (#9303) 2018-10-04 16:11:28 -07:00
Patrick Gartung
9b5f3d77f3 Valgrind: add ubsan and only64bit variants. (#9302) 
* Add conflict for +ubsan when building with clang on MacOS
* only64bit is enabled by default
 2018-10-04 16:06:10 -07:00
Matthias Wolf
2b3e7dbd93 py-py4j: add version 0.10.6 (#9418) 2018-10-04 15:32:54 -05:00
dorier
872e3c76f6 Package mesa: added dependency on zlib (#9424) 2018-10-03 19:48:42 -07:00
Denis Davydov
600acbbe66 python: add details on missing library to error message (#9332) 
When a library cannot be found, the exception now includes the name
of the library that was requested.
 2018-10-03 19:46:14 -07:00
Cody Balos
219846684b SUNDIALS: add new versions (#9401) 
* Add SUNDIALS 3.2.0 and 4.0.0-dev.2 releases.
* Update CMake dependency version constraints
* Update CMake args to find raja dependency
 2018-10-03 19:37:54 -07:00
Daryl W. Grunau
7f4b436ab6 ParaView: add versions (#9428) 2018-10-03 19:34:38 -07:00
Geoffrey Oxberry
98cdd616ca py-flake8: enum34 not required for python 3.4 and up (#9415) 
py-flake8 only requires py-enum34 when using a python version
earlier than 3.4
 2018-10-03 19:33:22 -07:00
Robert Pavel
479e71a832 Specified Maximum Matplotlib for Candle (#9425) 
Specifying that Candle-benchmarks requires matplotlib 2.x due to
matplotlib 3.x requiring python 3.x
 2018-10-03 11:47:17 -06:00
Valentin Clement (バレンタイン クレメン)
a97e9cb282 CLAW Compiler: Add Spack Package (#9405) 2018-10-03 17:17:13 +02:00
Matthias Wolf
fe60b2f6de py-progress: new package. (#9420) 2018-10-03 17:12:30 +02:00
Christoph Junghans
63844a97f8
openmc: version bump (#7974) 
* openmc: version bump

* s/mit-crpg/openmc-dev/
 2018-10-03 09:12:14 -06:00
Satish Balay
297f8537b5
trilinos: superlu_dist patch is now in trilinos develop - so removing it (#9422) 
https://github.com/trilinos/Trilinos/pull/3209
 2018-10-03 09:52:12 -05:00
Satish Balay
846e2c7ca9
PETSc: configure use CFLAGS,FFLAGS,CXXFLAGS from spack (#9383) 2018-10-03 08:19:43 -05:00
alcharal
c46a7a61f0 Abyss: added variant maxk (#9280) 2018-10-02 17:27:25 -07:00
dorier
8f29fbb605 Adding new versions to Catalyst package (#9267) 2018-10-02 17:25:56 -07:00
Mario Melara
eff3ad3346 Spades: add version 3.12 (#9286) 2018-10-02 17:24:39 -07:00
sknigh
d056427a00 Added cudnn 7.3 (#9400) 2018-10-02 17:24:13 -07:00
sknigh
89ccaa2472 Added perl 5.28 (#9379) 2018-10-02 15:48:28 -07:00
Abhinav Bhatele
0352b4808e [WIP] Release 2.0 of the ECP Proxy Apps suite (#9368) 
* Release 2.0 of the ECP Proxy Apps suite

* update laghos version

* make install dir structure consistent across all ecp-proxy-apps

* minor

* update macsio version
 2018-10-02 16:35:41 -06:00
Gregory Lee
676b3b0364 added py-matplotlib version 3.0.0 (#9335) 2018-10-02 15:35:06 -07:00
Abhinav Bhatele
d962e65cf2 PICSAR: new package (#9411) 2018-10-02 16:04:49 -06:00
rvinaybharadwaj
46a9121f00 Spackage for Thornado-mini (#9363) 2018-10-02 16:03:58 -06:00
Abhinav Bhatele
f6fb176d10 PICSARlite: actually builds PICSARlite now instead of PICSAR (#9410) 
also removed variants which shouldn't be there
 2018-10-02 15:46:31 -06:00
Abhinav Bhatele
1ba061f6ec MACSio: update package (#9412) 2018-10-02 15:46:09 -06:00
David Orman
e8af5847a0 Intel parallel studio 2019 cluster edition (#9295) 
* untracking file

* intel-parallel-studio: added 2019 cluster edition and checksum
 2018-10-02 13:04:57 -05:00
Abhinav Bhatele
25be114f75 new package: TraceR (#9298) 2018-10-02 11:04:11 -07:00
Justin Stanley
4e031d25a4 raxml: build all matching variants (#9377) 2018-10-02 09:20:47 -05:00
Prasanna Balaprakash
658e42ae3f ytopt: new package (#9403) 2018-10-01 23:16:32 -07:00
Geoff Womeldorff
922c1a5652 kokkos: bugfix for case wherein kokkos backends enabled in spack but not parsed correctly (#9396) 2018-10-01 17:36:55 -06:00
Matthias Diener
f38bfde6f3 nvptx-tools: add new package (#9378) 
* nvptx-tools: add new package

* Update package.py

* Update package.py
 2018-10-01 16:55:41 -05:00
Ricardo Silva
d031bd7461 patching p4est to select the proper openmp lib (#9381) 
* patching p4est to select the proper openmp lib

* For when compiler.openmp_flag isn't supported

* authored by @nrichart, I only tested it

* Adding openmp variant

Signed-off-by: Ricardo Silva <ricardo.silva@epfl.ch>
 2018-10-01 22:43:40 +02:00
Geoff Womeldorff
57236fa2ce kokkos: add serial backend explicitly. add kokkos options and kokkos cuda options. (#9276) 2018-10-01 10:24:43 -06:00
Justin Stanley
691a19226c redundans: add py-numpy dep, snap-berkeley version constraint (#9354) 2018-10-01 05:54:50 -05:00
Abhinav Bhatele
a6ab5edea6 Laghos: add version 1.1 (#9389) 2018-09-30 05:38:52 -06:00
Justin Stanley
bf757bd231 lighttpd: install to bin vs sbin (#9337) 2018-09-28 18:38:51 -07:00
Justin Stanley
ad13a9989f gsnap: add 2018-07-04 (#9356) 2018-09-28 17:07:08 -05:00
Levi Baber
017199b5d6
py-flake8-polyfill: removing unnecessary build_args (#9284) 2018-09-28 14:49:45 -05:00
Levi Baber
6ac167a891
libsigcpp: add a real homepage (#9282) 2018-09-28 14:48:31 -05:00
Aronnax, Miles V. [ISU/LAS]
e9863f56f3 Gapfiller 1.10 f01 (#9163) 
* GapFiller.pl fixes: line endings, env perl, convert to Getopt::Std, requires perl with threads.

* GapFiller.pl fixed source path, install location.

* Fixed missing space.
 2018-09-28 14:45:54 -05:00
Justin Stanley
d6daa8fab5 perl-dbd-sqlite: new package starting at 1.56 (#9338) 2018-09-28 14:08:14 -05:00
Levi Baber
6d0b3f0e71
r-biocparallel: new link dependency added in last version (#9274) 2018-09-28 13:56:46 -05:00
Levi Baber
5d3fb74e24
r-misc3d: add a real homepage (#9283) 2018-09-28 13:54:50 -05:00
Justin Stanley
43ae3bd2c9 perl-cgi: new package starting at 4.37 (#9339) 2018-09-28 13:53:40 -05:00
Justin Stanley
a5d6f79fe0 r-rots: fix package type (#9344) 2018-09-28 13:11:09 -05:00
Serban Maerean
2ac648407e Add PETSc 3.10.1 to PETSc's spackage file (#9382) 
* Add version 3.10.1 to the PETSc spackage file.
* Makefile changes required for building PETSc native tests with the XL compiler.
 2018-09-28 10:46:21 -07:00
snehring
3c713661b8 gmap-gsnap: set default value for simd variant (#9366) 
Also add zlib/bzip2 dependencies.
 2018-09-28 10:41:41 -07:00
Mark W. Krentel
f641a72a8b libpfm4: add version and compiler flags (#9291) 
Set default optimization level (-O2) if not specified in cflags.
 2018-09-28 10:36:27 -07:00
Denis Davydov
2cd7783e9e mpich: fix 3.2 patch (#9330) 
patch does not apply to 3.2.1 (released in late 2017).
Given that it fixes the issue discussed in May 2016, most likely
it shall apply only to 3.2
 2018-09-28 08:18:55 -05:00
Eric Müller
1e75aef0e9 Bazel: update env handling, add versions (#9369) 
Building bazel yielded errors since commit cd9691d. The first commit
fixes the build for older bazel versions, the second commit adds new
versions and ports the patches to these versions.
 2018-09-27 19:37:31 -07:00
sknigh
bd801da1bf Set libs property for tcl and tk (#9372) 2018-09-27 19:34:18 -07:00
sknigh
496bc3cd23 Added legacylaunchers variant to openmpi (#9336) 
Lots of programs still have mpiexec/mpirun baked in.
 2018-09-27 19:29:15 -07:00
sknigh
5047d86732 yaml-cpp: conflict with gcc 4.7 instead of 4.8 (#9371) 
4.8 has c++11 support, and RHEL/Centos 7 still use 4.8.5
 2018-09-27 13:37:36 -07:00
sknigh
7db31c6671 Added slurm 17.11 and 18.08 (#9345) 2018-09-27 13:34:41 -07:00
sknigh
2155163a37 Added Cuda 10 (#9310) 2018-09-27 13:33:53 -07:00
Abhinav Bhatele
37918e0536 ember: put all READMEs into docs and add executables in bin (#9362) 2018-09-27 05:49:15 -06:00
dorier
9e448d4c4f py-pybind11: add version 2.2.4 (#9355) 2018-09-26 19:19:46 -07:00
Denis Davydov
12c59c5b55 arpack-ng: add version 3.6.3 (#9331) 2018-09-26 19:12:41 -07:00
Justin Stanley
e41677b560 new package: r-processx (#9342) 2018-09-26 19:12:06 -07:00
Justin Stanley
bf4ac40ade new package: r-ps (#9341) 2018-09-26 19:08:55 -07:00
Justin Stanley
b35dccf875 paml: remove old version, added 4.9h (#9360) 2018-09-26 19:03:35 -07:00
Daniel Topa
c9d8226bc6 new package versions: ucx, libhio, and hwloc (#9365) 2018-09-26 18:53:54 -07:00
Abhinav Bhatele
d0ed39f51a miniVite: new package (#9348) 2018-09-26 19:48:34 -06:00
Abhinav Bhatele
41b35a783e fix build errors, make mpi variant default and add openmp variant (#9364) 2018-09-26 19:47:51 -06:00
Peer-Timo Bremer
2f28bd7d7f new package: TALASS (#9326) 2018-09-26 18:15:47 -07:00
Abhinav Bhatele
d5cdb1a2a7 update URLs for Laghos and MACSio (#9351) 2018-09-26 17:22:05 -06:00
dorier
4be8ae2b70 VTK package: don't require "+llvm" for mesa dependency (#9256) 2018-09-26 11:20:01 -07:00
lingnanyuan
f88735c1eb gmap-gsnap: Add variant for different cpu support. (#8087) 
* gmap-gsnap: Add variant for different cpu support.

* gmap-gsnap: fix flake8 error.

* gmap-gsnap: remove sys import.

* Change variant type to multi-valued.

* remove if-statement.

* gmap-gsnap: Build in seperate directories.

* gmap-gsnap: remove make distclean.

* gmap-gsnap: rewrite the recipe.
 2018-09-26 11:56:39 -05:00
Justin Stanley
6c0f0dbdfd qt: fix dbus builds (#9315) 2018-09-25 11:33:19 -05:00
Satish Balay
2c4a057fe4
petsc: add new versions 3.9.4 and 3.10.0 (#9319) 
* petsc: add new versions 3.9.4 and 3.10.0

* petsc:update superlu_dist dependency for version 3.10 [might have to change this later for xsdk]

* slepc: add in new releases 3.9.2 and 3.10.0
 2018-09-24 23:57:38 -05:00
Satish Balay
6b1b84267d superlu_dist: (master) has cxx11 sources - so update make.inc to list cxx11 compilers (#9316) 2018-09-24 21:53:14 -05:00
Justin Stanley
43b0948457 lighttpd: new package starting at 1.4.50 (#9325) 2018-09-24 21:33:39 -05:00
Denis Davydov
79eaa16118 intel: add 2019.0 (#9328) 2018-09-24 21:27:43 -05:00
Strahinja Trecakov
8947b6b909 New package: r-animation (#9314) 
* adding r-animation package
 2018-09-24 11:28:05 -07:00
Strahinja Trecakov
82f19f72f7 new versions of r-dplyr,r-plogr,r-rlang (#9313) 2018-09-24 11:22:04 -07:00
rvinaybharadwaj
e227542500 Spack package for PICSARlite (#9288) 2018-09-24 11:12:01 -06:00
rvinaybharadwaj
2656ed63eb Spack package for Ember (#9292) 2018-09-21 13:04:39 -06:00
Andrew Gaspar
72be5c86fa Add newer versions of spdlog (#9290) 2018-09-20 17:53:15 +02:00
sknigh
2bc895083b Added llvm 7.0.0 (#9296) 2018-09-20 17:21:42 +02:00
Axel Huebl
9e2ff95ec5 Catch2: 2.3.0+ (#9300) 
* Catch2: 2.3.0+

Add the latest two releases of Catch2.
In 2.3.0+, the include changed to a future-proof
`<catch2/catch.hpp>` path which dependent projects will break upon.

* openPMD-api: Catch2 2.3.0+

openPMD-api just updated to use the new, future-proof Catch2
headers `<catch2/catch.hpp>`.
 2018-09-20 15:55:18 +02:00
Christoph Junghans
7b2b2fb969
sw4lite: add v1.1 (#9289) 2018-09-19 13:30:28 -06:00
Adam J. Stewart
133dd7a4ac Fix version parsing for cistem package (#9260) 
Adds 'code' to the list of suffixes that are excluded from version
parsing of URLs, such that if a URL contains the string
'cistem-1.0.0-beta-source-code', a version X will substitute in to
produce a URL with cistem-X-source-code ('source' was already excluded).
The 'cistem' package version is updated to make use of this (and fix
a fetching bug with the cistem package). A unit test is added to check
this parsing case.
 2018-09-18 19:29:18 -07:00
sknigh
467d501060 sst-macro package: add versions and variants (#9271) 
Added variants for: mpi support, clang skeletonizer, building as
static and/or shared, and more.
 2018-09-18 19:06:13 -07:00
Geoffrey Lentner
3f04ebf600 hadoop package: fix url and checksum (#9263) 2018-09-18 18:49:52 -07:00
Geoffrey Oxberry
c971f6f1eb apple-libunwind: update path to library (#9265) 2018-09-18 18:48:53 -07:00
Levi Baber
d14971b061 new package: rclone (#9268) 2018-09-18 18:39:07 -07:00
Howard Pritchard
21884d804f libhio: add patch for 1.4.1.2 release (#9270) 
Turns out that there was a configury problem in libhio
which caused issues building the package on non-cray
systems, aka when using mpicc and friends.

Signed-off-by: Howard Pritchard <hppritcha@gmail.com>
 2018-09-18 17:26:34 -06:00
Christoph Junghans
41de79a1b6
xsbench: added v18 (#9269) 2018-09-18 14:07:37 -06:00
Christoph Junghans
5135f03c03
Packages/candle benchmarks (#9266) 
* candle-benchmarks: added v0.1

* ecp-proxy-apps: v1.0 now depends on candle-benchmarks@0.0
 2018-09-18 13:02:03 -06:00
Douglas Duckworth
842d754338 star - added latest versions with shasum (#9257) 
* star - added latest versions with shasum

* star - added latest versions with shasum
 2018-09-16 15:44:33 -05:00
Geoffrey Oxberry
f9aed03e83 coinhsl: add @2015.06.23, explain versions, SHA256 (#9258) 2018-09-16 15:03:26 -05:00
Pramod Kumbhar
50378c15a9 Update rdma-core : new version and conflict with intel (#9255) 
* Update rdma-core : new version and conflict with intel

* address review comments
 2018-09-15 19:42:45 -05:00
toffer93
b3bdf92f26 changed to new install_tree formalism (#9181) 2018-09-15 09:40:50 -05:00
Matthias Diener
4942237278 gdb: add lzma support by default (#9247) 
This is required at least on RedHat/Fedora.

Many (most?) other people distribute gdb with this support enabled:
http://tomszilagyi.github.io/2018/03/Remote-gdb-with-stl-pp
https://bugzilla.redhat.com/show_bug.cgi?id=1596490
 2018-09-15 09:06:16 -05:00
Levi Baber
3f9fc0f765 breakdancer: fix several issues (#9251) 
* add perl dependencies
* put bam2cfg in path
* fix perl dir
 2018-09-14 20:11:34 -07:00
Miles Perry
301643bdc4 Feature/py picrust (#9184) 2018-09-14 17:24:17 -07:00
Michael Kuhn
c2f6c98ed9 rdma-core: Fix missing pkg-config dependency (#9195) 
rdma-core requires pkg-config, otherwise libnl can not be found.
 2018-09-14 17:21:05 -07:00
Justin Stanley
b09ece58f6 jdk: added 10.0.2_13 (#9203) 2018-09-14 17:17:32 -07:00
Jon Rood
8f80ee7a40 Updating amrvis to allow building with profiling support. (#9204) 
* Updating amrvis to allow building with profiling support.
* Setting MPI default to true.
 2018-09-14 17:16:35 -07:00
Stephen Hudson
ae1420bffc Update py-libensemble package to v0.3.0 (#9210) 2018-09-14 17:15:31 -07:00
Stephen McDowell
ea3c59ed37 add eigen@3.3.5 (#9212) 2018-09-14 17:14:46 -07:00
Geoffrey Oxberry
affea920cf hypre: patch +shared@2.13.0: on darwin (#9220) 2018-09-14 17:14:30 -07:00
snehring
fa5bf11f16 plumed: updating plumed to latest version (#9227) 2018-09-14 17:13:22 -07:00
Sergey Kosukhin
a9c434d7d7 Build Python 3.7 with external libffi. (#9245) 2018-09-14 17:07:13 -07:00