Commit graph

10450 commits

Author SHA1 Message Date
Justin Stanley
abad2c9743 r-dismo: new package starting at 1.1-4 (#9675) 2018-10-31 11:28:09 +01:00
Todd Gamblin
2912cf3e17
compilers: update clang fortran compiler wrapper selection (#9678)
Clang has support for using different fortran compilers with the Clang executable.

Spack includes logic to select a compiler wrapper symlink which refers to the fortran executable (since some build systems depend on the name of the compiler, e.g. 'gfortran' or 'flang').

This selection was previously based on the architecture, and chose incorrectly in some situations (e.g. for clang/gfortran on Linux). This replaces architecture-based wrapper selection with a selection that is based on the name of the Fortran compiler executable.
2018-10-30 23:00:43 -07:00
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
Levi Baber
72fa122101 tests: add test for FIXME boilerplate to package_sanity (#9285)
* package_sanity: add test_no_fixme
* cleanup & better assert message
2018-10-30 13:44:25 -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
Bert Wesarg
c43689deb0 setup-env: Avoid different output format of ps (#9629)
setup-env includes a call to 'ps' to determine what shell is being
used. 'ps' can be instructed to use a different default output format
via the 'PS_FORMAT' env variable. Thus unset this variable before
calling 'ps'.
2018-10-29 11:16:55 -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
Todd Gamblin
b27fbfb379
config: spack config blame now colors filenames in config output (#9656)
- it was hard to distinguish all-gray filenames
- added rotating colors to `spack config blame`
2018-10-26 22:19:11 -07:00
Todd Gamblin
daab8d9109
docker: allow docker build to fail until it's fixed (#9658) 2018-10-26 21:50:28 -07:00
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
Omar Padron
aa1c814c75 docker: unite Dockerfiles; auto-deploy images to DockerHub (#9329)
* Unite Dockerfiles - add build/run/push scripts
* update docker documentation
* update .travis.yml
* switch to using a preprocessor on Dockerfiles
* skip building docker images on pull requests
* update files with copyright info
* tweak when travis builds for docker files are done
2018-10-26 10:15:05 -07:00
Christoph Junghans
734d903b03 cabana: added v0.1.0 (#9644) 2018-10-26 11:18:42 +02:00
Todd Gamblin
ad405085ce
license: add copyright to MIT license and SPDX in README (#9645)
- also remove analytics beacon in README, which is not that useful
  anymore.
2018-10-26 00:49:35 -07:00
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
Massimiliano Culpo
0d6e73771b flake8: explicitly allow line break before or after binary operator (#9627)
W503 and W504 are issued for line breaks before or after binary
operators (respectively). This allows either approach (explicitly
instructing flake8 to ignore both of these cases).
2018-10-25 15:11:22 -07:00
Massimiliano Culpo
da537d2211
Fix autoload of direct dependencies for python (#9630)
fixes #9624

merge_config_rules was using `strict=False` to check if a spec
satisfies a constraint, which loosely translates to "this spec has
no conflict with the constraint, so I can potentially add it to the
spec". We want instead `strict=True` which means "the spec satisfies
the constraint right now".
2018-10-25 23:56:03 +02:00
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