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Author SHA1 Message Date
Zack Galbreath
f35d5bbf2b Capture source line number in CTest log parser 2018-05-15 05:43:07 -07:00
Zack Galbreath
d174d6618f Fix typo in comment 2018-05-15 05:43:07 -07:00
Zack Galbreath
072f907831 Add CDash as a valid reporting format 2018-05-15 05:43:07 -07:00
Zack Galbreath
e4e8c72fa1 Initialize report generator before parsing specs 
This will allow us to generate reports for concretization errors
 2018-05-15 05:43:07 -07:00
Zack Galbreath
de01d70ae4 Allow --overwrite and --log-format to be used together 
Restructure the logic of the spack install command to allow these two
command-line arguments to be used at the same time.
 2018-05-15 05:43:07 -07:00
Zack Galbreath
6c5dbdd9cd Format-agnostic data structure for reports 
Replace the JUnit-specific terms 'testsuite' and 'testcase' with
'spec' and 'package', respectively.
 2018-05-15 05:43:07 -07:00
Serban Maerean
0598f70de2 patch petsc test cases for XL compiler (#8091) 
- After spack install, these test cases are built in a seperate step, outside of spack, but they need to patched after staging so users don't have to do it in a seperate step.

- The test cases are installed under `<petsc install directory>/share/petsc/examples` and can be built and executed by invoking `gmake -f gmakefile.test` in that directory.
 2018-05-14 23:53:05 -07:00
Robert Pavel
b956608631 Added Shim to Support hdf5+mpi in Spack Silo (#8130) 
* Added Shim to Support hdf5+mpi in Spack Silo

Added compatibility for hdf5+mpi to silo spackage to support spackages
with dependency chains that include silo and hf5+mpi

* Fixed fixable flake8 issue with silo spackage

Fixed missing whitespace around operator

* Setting MPI Variant to Default to True

As per guidance changing variant to default to MPI builds
 2018-05-14 20:29:03 -05:00
snehring
538d617d14 salmon: adding in version restriction for boost (#8129) 
1.67 does not work with this
 2018-05-14 18:48:28 -05:00
Cameron Smith
3a7fadd67e prenek missing X.h (#8121) 2018-05-14 18:19:46 -05:00
lingnanyuan
34a2d35e50 lordec: Create new package. (#8095) 
* lordec: Create new package.

* lordec: Add homepage, change to MakefilePackage.

* Modify dependency type.
 2018-05-14 16:56:49 -05:00
Eric
6cf1d25d14 r-fit-models: Create new package (#8122) 2018-05-14 16:50:54 -05:00
Eric
c5b1336b69 r-vipor: Create new package (#8128) 2018-05-14 16:38:59 -05:00
Brian Van Essen
281e22ed73 LBANN: add hydrogen as optional dependency (#8085) 
Add Hydrogen package for fork of Elemental library. Update LBANN
to use either Hydrogen or Elemental.
 2018-05-14 11:58:34 -07:00
Eric
e7a737621f r-shinydashboard: Create new package (#8116) 2018-05-14 13:00:18 -05:00
Eric
28982bd103 r-picante: Create new package (#8117) 
* r-picante: Create new package

* Remove dependency already included in RPackage base class
 2018-05-14 13:00:03 -05:00
Eric
f2cc7f769b r-squash: Create new package (#8118) 
* r-squash: Create new package

* Remove dependency already included in RPackage base class

* remove extra file
 2018-05-14 12:59:49 -05:00
Sajid Ali
a47ff73c6e Update py-llvmlite to reflect llvm@6 requirement for versions >0.23.0 (#8109) 
* 	new file:   package.py

* corrected using pep8online.com

* Update package.py

* correct typo

* as requested

* 	modified:   package.py

* Update package.py
 2018-05-14 11:26:01 -05:00
Levi Baber
b5d578a5e1 Aegean: new package (#8113) 
* aegean: new package

* genometools: set dependent env for aegean
 2018-05-14 11:10:19 -05:00
Christoph Junghans
1aef372fbf charliecloud: fix copyright (#8115) 2018-05-14 11:09:57 -05:00
Denis Davydov
42137d59ef dealii: another fix for quick tests only in 9.0 and thus hash (#8114) 2018-05-14 11:07:19 -05:00
健美猞猁
341132a87f A new pacakge: Kaiju. (#8111) 
* A new package: kaiju.

* Replace ftp:// with https://.
 2018-05-14 11:07:00 -05:00
Levi Baber
32662c4edb hisea: new package (#8112) 2018-05-14 09:46:54 -05:00
Sajid Ali
0dabe81a20 Add numexpr 3 (#8107) 
* 	new file:   package.py

* corrected using pep8online.com

* Update package.py

* correct typo

* as requested
 2018-05-14 09:46:14 -05:00
Denis Davydov
635f3e2969 dealii: update hash due to upstream changes (#8105) 2018-05-14 10:49:26 +02:00
healther
05cd983e10 add version 0.6.2 to yaml-cpp (#7931) 2018-05-14 10:44:27 +02:00
Sajid Ali
36b4c899fb Add cmake for newer version of libjpeg-turbo (#8102) 
* 	modified:   package.py

* add official build reference.

* Update package.py

* Update package.py

* Update package.py

* fixed with pep8online.com

* update make to make()

* change homepage
 2018-05-13 22:01:36 -05:00
Christoph Junghans
9f4c2a65a8 charliecloud: initial commit (#8106) 2018-05-13 22:00:18 -05:00
dorier
e758820ed7 boost: added the +numpy variant which enables building libboost_numpy (#8104) 
* added the +numpy variant which enables building the libboost_numpy libraries

* Update package.py

Added `type=('build', 'run')`
 2018-05-13 21:54:12 -05:00
Jon Rood
2d53043361 Create custom PATH that texlive requires in its module. (#8064) 
* Create custom PATH that texlive requires in its module.

* Updating texlive to 2018 distribution.

* Using platform instead of sys for easier portability across linux and osx.
 2018-05-12 18:40:36 -05:00
Yifan Zhu
8270344042 plink: new source version 1.9-beta5 (#8076) 
* plink: new source version 1.9-beta5

* plink: replace version 1.9 with 1.07
 2018-05-12 18:38:22 -05:00
George Hartzell
8dd5ac357c Add package for "bumpversion" (#8078) 
* Add package for "bumpversion"

bumpversion is a tool that automagically increments version numbers
for projects.  It can update files and do other magic along the way.

* Remove py- package prefix and use pypi.io URL

Renamed the package 'bumpversion'.

Fetch the package from pypi.io.

* Add version info for bumpverion@0.5.3
 2018-05-12 18:37:10 -05:00
Yifan Zhu
97f1b36c07 r-cdcfluview: new package (#8089) 
* r-cdcfluview: new package

* updated package.py
 2018-05-12 18:28:18 -05:00
Massimiliano Culpo
867bd9b48c
nfft: added version 3.4.1 Moved package to github (#8099) 2018-05-12 17:25:28 +02:00
Massimiliano Culpo
36ee0cbf88
netcdf: added version 4.6.1 (#8098) 2018-05-12 17:24:59 +02:00
Yifan Zhu
262de64792 shoremap: new package (#7343) 2018-05-12 08:22:45 +02:00
Denis Davydov
e271f14493 dealii: add 9.0.0 (#8096) 2018-05-11 21:59:25 -05:00
Howard Pritchard
efbc230742 pmix: add 1.2.5 and 2.0.3 bug fix releases (#8097) 
Signed-off-by: Howard Pritchard <howardp@lanl.gov>
 2018-05-11 21:58:29 -05:00
Levi Baber
35e1af9acc masurca: new version (#8094) 
* masurca: new version

* masurca: reorder versions
 2018-05-11 14:43:21 -05:00
scheibelp
79669ac647
llvm: replace @when with internal check in @run_before (#8092) 
Fixes #8088

#7012 added a @when condition for a @run_before check to constrain
that check to only run on Darwin. @when is intended to be used to
choose one of several different implementations of a given function
and cannot be used to conditionally deactivate a check altogether.

This replaces the external decorator with a check that executes at
the beginning of the function.
 2018-05-11 12:32:26 -07:00
Mayeul d'Avezac
5bc970f9b6 adds new version to swiftsim (#8093) 2018-05-11 10:32:30 -05:00
Denis Davydov
28bebe13a8 dealii: disable tpetra when +cuda; check for '' in cuda_arch (#7958) 
* dealii: disable tpetra when +cuda; check for '' in cuda_arch

* trilinos: fix Kokkos CUDA

* Revert "trilinos: fix Kokkos CUDA"

This reverts commit 6aae894bc7d49c9e736c06f65b81b8c219443920.

* update according to @aprokop comments

* minor

* fix flake8
 2018-05-11 08:50:35 -05:00
Denis Davydov
206e61bafd gmsh: add netgen and tetgen (#8060) 
* gmsh: add netgen and tetgen
dealii: require gmsh+netgen+tetgen
netgen: use http instead of https

* dealii: add oce requirement to gmsh
 2018-05-11 14:22:12 +02:00
Yifan Zhu
55473dd321 r-mmwrweek: new pacakge (#8086) 2018-05-10 17:32:58 -05:00
David Wootton
9c4522ecbd petsc: specify number of processors used for test case (#8015) 
For Spectrum MPI, if -np is omitted, the default behavior is to
assign one process per process slot, where the default process slot
allocation is one per core. On systems with many cores, the number
of processes can exceed the size of the grid specified when the
testcase is run and the test case fails. This specifies a small
number of processes when running the test case to prevent failure.
 2018-05-10 10:49:18 -07:00
healther
f4a46f4fc3 wireshark: stop cmake from picking up /usr paths (#8053) 
* stop cmake from picking up /usr paths if spack has corresponding packages

Change-Id: I7217122562697c7a642cded2b4bfb606d2e35ffb

* add libpcap dependency

Change-Id: If0d5c2c94b2c2d1cbb9b19e31e44f870b71ba88b

* make cmake actually pick up pcap

Change-Id: I67b87fd9282c26f5ff4e0a5aedd8bbbae39a5960

* add libtool build dependency

Change-Id: I5c6d14dca7ccbe457318903dd170bb19d004e952

* use .libs for pcap

Change-Id: Ibe78f8765524385f9da4a8f9963f2c61632cc9f7

* explicitly add bison build dependency

Change-Id: I47112778abdf4c0de81789685a7eca4dddb20f77

* add lua explicitly

Change-Id: I8e306e1e4cfa0e16138f3a5109ddcfe912120946

* fix libs usage

Change-Id: I8c1e03f10df69e3ef74326a13cacaf0e5498e6aa

* add minimal version requirement

Change-Id: I4dd181389f9a63067df541b982bc0727f974d4ce
 2018-05-10 06:58:43 -05:00
David Gardner
1f8fc574d9 Add new Sundials versions (#8075) 
* Add new Sundials versions, update minimum cmake version required

* specify which versions require a newer cmake

* revise cmake dependency

* remove develop, add 4.0.0-dev version
 2018-05-09 20:53:25 -05:00
mcneish1
cadf9242ba Add 3.5.2; Add optional cpp implementation enable for py-protobuf (#8069) 
* Add 3.5.2; Add optional cpp implementation enable for py-protobuf

* Make flake8 happy

* Give all required install_args
 2018-05-09 20:52:39 -05:00
Eric
ef731cc511 perl-extutils-pkgconfig: Add pkg-config dependency (#8045) 
* perl-extutils-pkgconfig: Add pkg-config dependency

* perl-extutils-pkgconfig: fix build dependency

* perl-extutils-pkgconfig: fix build dependency
 2018-05-09 13:10:36 -05:00
Geoffrey Oxberry
7dfc0278e7 llvm+lldb plaform=darwin: check for lldb_codesign certificate (#7012) 
* llvm+lldb plaform=darwin: check for lldb_codesign

Building LLVM with LLDB requires that the "lldb_codesign" code
certificate be created (see
https://llvm.org/svn/llvm-project/lldb/trunk/docs/code-signing.txt for
details). This commit checks for this certificate on Darwin if LLDB is
to be built, and returns an informative error message if this
certificate is unavailable.
 2018-05-09 15:04:06 +02:00