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11511 commits

Author SHA1 Message Date
Axel Huebl
42e6cb769e
Geant4 +Python: fix module load (#17046) 
Adding `extends('python')` makes sure that a

```
spack load -r geant4 +python
python -c "import Geant4"
```

find the module.
 2020-06-12 11:28:05 -07:00
Axel Huebl
34fb4b30dc
libffi 3.3: float128 ppc patch (#17043) 
Apply a patch to fix builds on Power7 and 8, wrongly requesting
float128 support.

Upstream patch: libffi/libffi#561
 2020-06-12 11:25:06 -07:00
Adam J. Stewart
4e39dc7174 readline: fix linking to ncurses 2020-06-12 11:05:28 -07:00
Robert Blake
50aba2729b
New package: antimony (#17061) 2020-06-12 10:42:59 -07:00
Brian Van Essen
dcd22517c7
hydrogen: add version 1.3.4 (#17066) 2020-06-12 09:53:50 -07:00
Tom Payerle
e1e455ef3f
magics: add version 4.2.4 (#17054) 
* Add version 4.2.4
* Update checksum for 4.1.0
* Version @4: requires python and py-jinja2 to build
 2020-06-12 09:53:08 -07:00
Michael Kuhn
f2ae9ffdf5 gcc: Add 7.5.0 2020-06-12 09:37:53 -07:00
Sinan
b50b930d6a
New package: py-uncertainties (#16997) 2020-06-11 08:26:43 -07:00
codeandkey
9820a23abd py-gpy: new package at 1.9.9 2020-06-11 08:25:14 -07:00
Justin S
19dba603ad
py-paramz: new package at 0.9.5 (#17026) 2020-06-10 18:57:08 -07:00
Axel Huebl
2827dca905
ADIOS 2.6.0: New Options (#17025) 
Control new options/dependencies in ADIOS2 to avoid pick-up of system
packages.
 2020-06-10 10:19:41 -04:00
Toyohisa Kameyama
f6020d259a
adios2: fix to build on Fujitsu MPI and Fujitsu compiler (#17034) 2020-06-10 14:53:09 +02:00
asmaahassan90
0de12be52a
add gaussian-view (#16890) 2020-06-09 16:58:34 -07:00
Rob Latham
31791f269b
teach spack how to build pmix from git (#16973) 
* teach spack how to build pmix from git

* add variant for new REST feature

* reorder package to match guidance
 2020-06-09 16:16:38 -05:00
Robert Blake
872ab21103
Add new package: wcs (#16958) 
* Adding a package for wcs.

* Turning on sbml for wcs.

* The cpp flag needs to be available for wcs.

* Wcs needs SBML to properly define the namespace.

* Flake8 fixes.

* Fixing the help string with the description.

* Changing cpp to use the new variant syntax.

* Fixing flake8 errors.

* Forgot to delete one last fixme comment.

* Spack "develop" needs to link to repo "devel"

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

Co-authored-by: Robert Blake <rob.c.blake.3@gmail.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
 2020-06-09 16:13:54 -05:00
Joseph Ciurej
806a19c6b6
libffi: add patch for building with clang on power (#16855) 
* libffi: add patch for building with '%clang target=power*'

* libffi: fix version of clang/power patch
 2020-06-09 13:52:01 -07:00
darmac
8b1ffebe00 Add new package: py-workload-automation 2020-06-09 12:02:49 -07:00
victorusu
a52945613d
New package: py-pygelf (#17004) 2020-06-09 11:54:59 -07:00
Rob Latham
07e97e3ebc
jansson: add versions 2.10 to 2.13.1 (#17011) 2020-06-09 11:53:20 -07:00
Jen Herting
11b5fa7170
[util-linux] disabling systemd (#17008) 
If systemd support is enabled, install will attempt to modify files in
system systemd directories.
 2020-06-09 17:23:29 +02:00
Nathan
f70b72edc5
Set the BOOST_ROOT environment variable when library is loaded (#16818) 
* Adding BOOST_ROOT env variable

* Update var/spack/repos/builtin/packages/boost/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
 2020-06-09 08:01:55 -05:00
Massimiliano Culpo
2e20ee8ea2
suite-sparse: build libraries without running demos (#17007) 
fixes #16638
 2020-06-09 06:54:50 +02:00
oracleLee
9cda38c03d
Update miniconda3@4.8.2 (#17003) 
* Update package.py

* Update package.py

* Update package.py

* Update package.py

* Update package.py

* Update package.py
 2020-06-08 22:48:59 -05:00
Adam J. Stewart
bcf8ebff4f
Cray: fix Blue Waters support and user-built MPIs on Cray (#16593) 
* Cray: fix Blue Waters support

* pkg-config env vars needed on Blue Waters

* cray platform: fix support for user-build MPI on cray machines

* reintroduce cray environment cleaning behind cnl version guard

* cray platform: fix support for user-build MPI on cray machines

Co-authored-by: Gregory <becker33@llnl.gov>
 2020-06-08 16:44:07 -07:00
Ryan Mast
6f9bfec32e
HELICS: add version 2.5.1 (#17014) 2020-06-08 14:37:49 -07:00
darmac
4d064fd56c
rt-tests: fix build error (#16998) 
This is a makefile package and needs to invoke make.
 2020-06-08 10:51:59 -07:00
darmac
f8b5e413b4
Add new package: py-devlib (#16982) 
* Add new package: py-devlib

* Update var/spack/repos/builtin/packages/py-devlib/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* add depends

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
 2020-06-08 08:33:40 -05:00
vvolkl
8995b3ad3a
Add Package HSF-CMakeTools (#16951) 
* [hsf-cmaketools] add package

* fix formatting

* Apply suggestions from code review

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* [hsf-cmaketools] remove cmake_prefix_path which is set already by spack

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
 2020-06-08 08:30:23 -05:00
Amjad Kotobi
c76ab4d8fe
R: url-version custom, release 4 (#16962) 
* R: url-version custom, release 4

* r: pcre condition
 2020-06-08 08:28:21 -05:00
iarspider
3ea65818e1
Add py-storm@0.23 and update URL (#16991) 
* Add py-storm@0.23 and update URL

* Update package.py
 2020-06-08 14:09:48 +02:00
Justin S
d9738f569d
ltr-retriever: new package at v2.8.7 (#16832) 
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
 2020-06-08 08:07:34 +02:00
Greg Becker
bd1a0a9ad4
view remove: directly check whether specs own files before removing from view (#16955) 
Bugfix for hardlinks and copies
 2020-06-08 06:43:52 +02:00
Mark W. Krentel
763760cfe0
hpcviewer, ibm-java: updates versions (#16987) 
hpcviewer: added v2020.05.
ibm-java:  added v8.0.6.10.
 2020-06-08 06:15:37 +02:00
iarspider
664c32efb4
py-ipykernel: added v5.1.1 (#16988) 2020-06-08 06:11:24 +02:00
Toyohisa Kameyama
b00f97f7cc
boost: Don't use pre-compiled headers for Fujitsu compiler (#16914) 
* boost: Dopn't use pre compile header.

* move %fj.
 2020-06-07 09:39:53 -05:00
John Jolly
33923320a8
rose: Add build dependencies for flex and bison (#16981) 2020-06-07 09:36:14 -05:00
Sinan
a2c6f6a703
py-gast: add version 0.3.3 (#16945) 
* py-gast: add version 0.3.3

* add python version constraints

Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
 2020-06-07 09:33:03 -05:00
iarspider
6498b752d1
Add rpy2@3.0.4 (#16924) 
* Add rpy2@3.0.4

* Style fixes

* Update package.py

* Proper Python version requirement
 2020-06-06 16:33:34 -05:00
Toyohisa Kameyama
7bc44fa165
ffr: fix mpi programs to use mpi compiler wrapper. (#16948) 2020-06-06 16:30:43 -05:00
vvolkl
8f291c7e95
[prmon] add package (#16949) 2020-06-06 16:29:42 -05:00
Michael Kuhn
ad2dd4be01
mongo-c-driver: Add 1.16.2 (#16956) 
This also updates libbson to the corresponding version and adds a few
missing older versions.
 2020-06-06 16:18:48 -05:00
Matthieu Dorier
543f9f91d4
added CTRE package (#16964) 2020-06-06 16:14:40 -05:00
John Jolly
46a751081d
gcc: Fix error 'size of array is negative' (#16969) 
gcc 9.3.0 and glibc 2.31 (found in the base install of Ubuntu 20.04)
cause the gcc package to error during build with the error:

    "size of array 'assertion_failed__####' is negative"

Previous to this fix, the error was resolved for v8.1.0 <= gcc <= v9.2.0
via two patches.

This fix backports those patches for v5.3.0 <= gcc <= v7.4.0

Potentially these patches need to be backported to versions of gcc
before v5.3.0, but other compile issues need to be resolved for earlier
versions of gcc first.

Fixes #16968
 2020-06-06 16:14:11 -05:00
Tom Payerle
885808cc13
intel-tbb: Fix for #16938 add custom libs method (#16972) 
* intel-tbb: Fix for #16938 add custom libs method

Override the libs method to look for libraries of form libtbb*
(instead of inherited which looks for libintel-tbb*)

* Fixing pre-existing flake8 issues
 2020-06-06 16:12:46 -05:00
darmac
c835b93109
Add new package: py-louie (#16983) 2020-06-06 16:02:15 -05:00
darmac
77fbdff8a2
Add new package: lxc (#16984) 2020-06-06 16:00:59 -05:00
Sinan
36f9550178
py-mysqlclient: relax dependency constraint, add new versions (#16985) 
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
 2020-06-06 16:00:29 -05:00
Sinan
73d13461b1
ensure xla is turned off (#16974) 
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
 2020-06-06 15:51:19 -05:00
Sinan
7b6e1ae9d3
py-astunparse: add version 1.6.3 (#16946) 
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
 2020-06-06 15:50:16 -05:00
darmac
c5ac168f31
protobuf: support aarch64 @2.5.0 (#16862) 
* protobuf: support aarch64 @2.5.0

* refine cmake args

* fix patch name
 2020-06-06 15:47:30 -05:00