Commit graph

6986 commits

Author SHA1 Message Date
Justin Stanley
d7c9128875 new package: homer (starting at 4.9.1) (#9669) 2018-11-02 18:18:05 -07:00
Eric
b471a3626e freetype: enable-freetype-config build option for 2.9.1 (#9653)
This builds the 'freetype-config' binary which can be used to get
configuration information about the freetype install, used by some
dependents.
2018-11-02 18:06:40 -07:00
Tim Law
a33d123e2e Add version 2.0.2 of BookLeaf_Cpp and version 3.0.2 of Typhon. (#9662) 2018-11-02 13:30:52 -07:00
Dmitriy
36ddcc2e97 henson: new package (#9657)
* henson: new package

* henson: change github path to henson-insitu

* henson: make mpi-wrappers=off by default

* henson: remove unsued variable and spaces to make linter happy

* henson: rename version master to develop
2018-11-01 18:15:12 +01:00
Thomas Stitt
6a3552274f xeus: new package (#9682)
* xeus: new package
cppzmq: add version 4.3.0
zeromq: make libsodium optional, on by default

* xeus: add patch so it builds, add new version
nlohmann-json: add more versions
cryptopp: add more versions

* xeus: flake8

* xeus: fix license
2018-10-31 20:23:44 -07:00
Abhinav Bhatele
939ce40032 ecp-proxy-apps: disable building CANDLE Benchmarks by default (#9691)
add as a variant
2018-10-31 12:50:37 -06:00
Federico Ficarelli
383cda2c90 lbzip2: add new package (#9688) 2018-10-31 18:08:00 +01:00
Kelly (KT) Thompson
a3ff21eb2b Provide a newer doxygen version. (#9681)
* Provide a newer doxygen version.

+ Also provide a patch that allows collaboration diagrams to work properly with
  C++ std::shared_ptr<T>. Ref:
  6c380ba91a
2018-10-31 18:03:13 +01:00
健美猞猁
79e70afed4 Packmol: a new package. (#9687) 2018-10-31 17:32:09 +01:00
Justin Stanley
abad2c9743 r-dismo: new package starting at 1.1-4 (#9675) 2018-10-31 11:28:09 +01:00
Jim Galarowicz
c10d432a2e Update openspeedshop and cbtf-krell module creation code (#9234)
* Add the setting of CBTF_MPI_IMPLEMENTATION to the cbtf-krell
  and openspeeedshop package files, so that the mpi implementation
  can be found by the tool.  This allows users to not have to
  set this manually if only one mpi implementation is specified
  in the build.
* Update version ranges for dependencies of cbtf packages
2018-10-30 18:41:08 -07:00
Ross Miller
718be8a645 Update dependencies for py-llvmlite (#9668)
Change dependency on llvm from >=6.0 to 6.0:6.99.

Refs #9667
2018-10-30 21:33:43 +01:00
Alberto Chiusole
f602fd8ea4 New package: RegCM, regional climate model. (#9655) 2018-10-30 13:32:59 -07:00
Axel Huebl
33b65ecca0 GCC: ISL and mpfr upper bounds (#9513)
* GCC: constrain version 6, 7, and 8 to build with ISL version at
  most 0.18
* GCC version 9 (not yet released) will be compatible with
  ISL version 0.20 so future GCC releases are constrained to build
  with ISL version at most 0.20
* ISL: Add v0.15, replace all md5 sums with sha256 sums for ISL
  versions
* GCC versions before 6 were constrained to build with ISL 0.14
  but have been confirmed to work with ISL 0.15
* GCC: Place an upper bound on GCC's mpfr dependency
2018-10-30 13:26:41 -07:00
Ruben Di Battista
3c387bfa39 vtk: remove redundant option setting (#9597)
This eliminates duplicates for a couple options which are set
multiple times.
2018-10-30 12:47:48 -07:00
Abhinav Bhatele
26bacbcb8c caliper: specify path to libunwind (#9670) 2018-10-30 18:37:44 +01:00
Dave
be48d41ab1 warpx: Fixes for building on NERSC (#9671) 2018-10-30 18:25:32 +01:00
jthies
38a1732c5a Jthies/xsdk add phist (#8980)
* packages/phist: add variant 'fortran' to enable/disable building the Fortran bindings

* xsdk: add phist

* packages/xsdk: add a comment reg. updating phist dependency

* packages/phist: +fortran variant is only for versions 1.7:

* packages/phist: update comments

* xsdk: forgot to specify kernel library for phist (picked tpetra, assuming trilinos+tpetra will be installed)

* packages/phist: add variant 'openmp' to allow disabling OpenMP

* phist: fix compile error due to missing -lm

* flake8: fix warnings

* packages/phist: fix cmake flag: XSDK_ENABLE_Fortran (rather than XSDK_BUILD_Fortran)

* packages/phist: allow disabling building the scamac matrix generator (which causes trouble on some systems)

* packages/xsdk: disable scamac within phist because it caused problems for @balay and is not essential for now

* packages/phist: actually disable scamac via cmake if ~scamac

* phist: disable openmp from xsdk
2018-10-30 08:12:15 -05:00
jthies
930d6af815 packages/phist: new version 1.7.3 (#9672) 2018-10-30 11:13:11 +01:00
Dan Han
2209d571ea R rjags - new version (#9568)
* REMOVED: -callr: updated to newest version, added sha256, added listurl

* r-rjags: updated

* r-rjags: fix new version
2018-10-29 16:12:20 -05:00
snehring
1e54a42cc9 hoomd-blue: fixing issue during build with newer cmakes (#9543)
* Constrain to build with CMake <= 3.9.6
* Specify installation prefix to match install prefix format of
  other Spack python libraries
2018-10-29 13:46:35 -07:00
Satish Balay
8d4c15e0bd
strumpack: update to version 3.1.1 (#9666) 2018-10-29 15:34:14 -05:00
Satish Balay
6eef6a1d77
slepc: update to version 3.10.1 (#9665) 2018-10-29 15:33:50 -05:00
Miles Perry
2bd453c4a7 add package Feature/sentieon (#9557)
* added package sentieon

* change file location

* updated spack header license and added license_vars

* fixed flake8 error

* fixed license header

* fix license header

* license

* added import os.path

* edits

* flake8 edits
2018-10-29 15:02:27 -05:00
Justin Stanley
c46a39179b orca: new package starting at 4.0.1.2 (#9297)
* orca: new package starting at 4.0.1.2

* orca: fix typo

* orca: fix boilerplate

* orca: reorder deps, add openmpi runtime dependency

* orca: license update
2018-10-29 14:49:58 -05:00
David Wells
c96c38a08f Expand the libMesh dependency list (#9642)
This commit overhauls the libMesh package script in a number of ways:

* We now inherit from AutotoolsPackage.
* libMesh contains about a dozen third-party dependencies that can
  only be provided by the copy bundled with libMesh. This  patch
  enumerates all such bundled dependencies and disables all of them
  by default.
* libMesh supports compilation with external installations of boost,
  eigen, hdf5, slepc, and tbb; this patch adds all of them to
  package.py.
* libMesh will look for a few system executables (xz, bzip, gdb) by
  default. This is now disabled.
* libMesh will now used a copy of perl installed by spack instead of
  trying to find the system copy.
* Compilation with non-system MPI installations requires an additional
  flag (--with-mpi=); this has been added.
2018-10-29 11:50:43 -07:00
Dmitriy
be5c92f7cd diy: new package (#9628) 2018-10-29 10:20:46 +01:00
Denis Davydov
23726617ba Updated octave and gnuplot versions (#9660)
* octave: add 4.2.2, 4.4.0 and 4.4.1
* gnuplot: add 5.2.5
2018-10-29 09:32:30 +01:00
Denis Davydov
d191cb0102 pyfypp: add setuptools build dependency (#9650) 2018-10-26 19:41:10 -07:00
dorier
c8092b3ab7 damaris: add support for VisIt and Catalyst (#9651) 2018-10-26 19:40:25 -07:00
Justin Stanley
91aed716f9 new package: phyluce (starting at 1.6.7) (#9633) 2018-10-26 19:33:32 -07:00
dorier
13e5c3fbe2 VisIt: build vtk without mpi support (#9649)
VisIt cannot use VTK built with mpi support (which was enabled by
default starting in #9494)
2018-10-26 19:01:39 -07:00
Denis Davydov
c3ffd4e1cf valgrind: add 3.14.0 (#9648) 2018-10-26 18:59:16 -07:00
Justin Stanley
718ceb5e85 new package: msmc (starting at 1.1.0) (#9654) 2018-10-26 18:23:45 -07:00
Jonas Lippuner
70bdcd703a kokkos: add pic option (#9643)
Since kokkos only compiles a static library, the -fPIC compiler flag
is required to link kokkos into a Fortran executable
2018-10-26 18:13:48 -07:00
Federico Ficarelli
8d288cd8eb fmt: add new versions and update constraints (#9634)
Update versions and constraints on cmake and supported toolchains
(as stated by the documentation).
2018-10-26 18:08:56 -07:00
Christoph Junghans
734d903b03 cabana: added v0.1.0 (#9644) 2018-10-26 11:18:42 +02:00
Ross Miller
49b652780d Fix issue with miniconda attempting to install the incorrect version (#9589)
The install() function in the miniconda2 & 3 package.py files referenced
self.url, which is hard-coded to 4.3.11.  That's not necessary the
version that the user requested, though.  Changed the install() function
to reference self.stage.archive_file.  Also added a version string for
4.5.11.
2018-10-25 18:16:23 -07:00
Will Furnass
6e261b4186 nag: fix NAG Fortran Compiler MD5 checksum for 6.1; add 6.2 checksum (#9617) 2018-10-25 18:14:30 -07:00
sknigh
a7bb03c7a3 LLVM: add older version and gcc constraint (#9614)
- Added v 5.0.2
- Added conflict with gcc 8 for versions that do not build
2018-10-25 18:05:26 -07:00
dorier
3fc7dd160d updated URL format for Catalyst package when version is greater or equal to 5.6 (#9611) 2018-10-25 18:03:56 -07:00
Justin Stanley
58b98738e1 r-goplot: fix r-rcolorbrewer version format (#9631) 2018-10-25 17:58:07 -07:00
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