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Author SHA1 Message Date
George Hartzell
1b2638c9b1
primer3: move to github, add 2.5.0, fix 2.3.7 (#15958) 
* primer3: move to github, add 2.5.0, fix 2.3.7

- The Primer3 project moved to GitHub.

  - update the URL
  - compare the tarballs 2.3.7 from Sourceforge and github, no
    significant differences (e.g. the Sourceforge tarball contained a
    couple of "tmp" files).
  - update the signature for the 2.3.7 tarball.

- @2.3.7 doesn't build with gcc@8.4.0, there's a dubious pointer/int
  comparison that causes an error.  It was fixed upstream in newer
  versions, apply simple patch to this version so that it continues to
  be build-able with newer compilers.  See:

  - https://github.com/primer3-org/primer3/issues/2
  - https://github.com/primer3-org/primer3/issues/3

- Add info for @2.5.0, which builds cleanly.

* Flake8 cleanup
 2020-04-09 11:53:34 -05:00
Sergey Kosukhin
05a80523c8
NetCDF packages: switch to the official FTP server. (#15641) 2020-04-09 09:57:07 -05:00
Jennifer Herting
b75ba93589
New package: gtk-doc (#15768) 
* [gtk-doc] created template

* [gtk-doc] using custom url to standardize on dotted version

* [gtk-doc] added description and homepage

* [gtk-doc] added dependencies and added pdf variant

* [gtk-doc] commented out pdf variant

* [gtk-doc] cleaned up leftover fixmes

* [gtk-doc] flake8

* [gtk-doc] readded url

* [gtk-doc] python packages are build and run dependencies
 2020-04-09 09:56:33 -05:00
Massimiliano Culpo
e53a98cb4f
papi: check existence of a fortran compiler (#15968) 
fixes #5029
 2020-04-09 15:33:24 +02:00
vvolkl
5320268033
[podio] add recipe for podio (#15726) 2020-04-09 10:29:19 +01:00
Andrew W Elble
ee0cbd7a17
py-torch: Fix v1.4.0 by adding v1.4.1 (#15761) 
* py-torch: Fix v1.4.0 by adding v1.4.1

version/tag hack so that 1.4.0 is still workable.
see pytorch/pytorch#35149

* delete/disable fbgemm support in 1.4.0

* moved conflict
 2020-04-09 10:50:08 +02:00
darmac
6d8a59be5b
uchardet: added package at v0.6.0 (#15937) 2020-04-09 09:19:52 +02:00
G-Ragghianti
f9c833e078
Papi packge: refactored to inherit from AutotoolsPackage (#15962) 2020-04-09 09:13:35 +02:00
darmac
93a53f1faf
elasticsearch: change depends on from jdk to java (#15964) 2020-04-08 22:35:46 -05:00
Michael Kuhn
3c8bd21dae
glib: Add new stable versions (#15947) 
Newer versions of glib require Meson, so this PR adds support for that
using a hybrid approach. glib@5.28: will be built using Meson, older
versions still make use of Autotools.
 2020-04-08 22:32:08 -05:00
T.Tian
e96750472e
py-gpaw: Add libvdwxc as variant (#15948) 
* Add libvdwxc as variant

* py-gpaw: add missing line for libvdwxc conditions
 2020-04-08 22:22:19 -05:00
Aniruddha Marathe
9035dc6b3d
- Fixes build issues. (#15951) 
- Updates Kripke URL to its Github repository.
- Adds previous Kripke versions.
- Adds 'caliper' variant.
 2020-04-08 22:13:13 -05:00
Andrew W Elble
8abffd4189
py-tensorflow-estimator: fix build (#15953) 
Change the build to work again, and be more in line with the other
tensorflow packages. Add version 2.1.
 2020-04-08 22:10:37 -05:00
Paul Ferrell
d05f25a4d0
Fixed bad expand option for openjdk versions. (#15956) 
The most recent change to the openjdk package set expand=False for all versions
of the package. This means only the unexpanded archive will be installed, which is not correct.
 2020-04-08 22:07:00 -05:00
Justin S
4886a2d5ef
py-awesome-slugify: new package at 1.6.5 (#15907) 
* py-awesome-slugify: new package at 1.6.5

* py-awesome-slugify: fix typo in version range

* py-awesome-slugify: update dependencies
 2020-04-08 21:45:33 -05:00
Nichols A. Romero
bf4eec94ca
F18 update April 2020 (#15930) 
* Update dependencies and support variant for Fortran Intermediate Representation.

* Add Cmake flags that toggle Fortran Intermediate Representation on/off. Exclude Flang tests for now.

* f18+fir variant needs next release of llvm or master.

* Only build tests if you are pass in --test to spack install
 2020-04-08 20:32:56 -05:00
Andrew W Elble
c5b625ca90
New package: py-tensorboard (#15829) 
* New package: py-tensorboard

* some basic dependencies based on requirements.txt
remove the older version that doesn't build

* requested changes

* add additional dependencies

* more dependency changes
 2020-04-08 12:46:36 -05:00
Andrew W Elble
c6c53df916
py-onnx: only use py-typing if python < 3.5 (#15931) 
* py-onnx: only use py-typing if python < 3.5

avoids a 'Callable has no attribute __abc_registry' error. See
onnx/onnx#2199 and python/typing#573

* add version 1.6.0 while we're here.
 2020-04-08 12:46:16 -05:00
iarspider
8ed8bb0a76
MariaDB: added v10.4.12 (#15943) 2020-04-08 14:34:56 +02:00
iarspider
fcf0c6cb68
pytest: added v4.6.9 (#15944) 2020-04-08 14:34:09 +02:00
darmac
62cc8158de
http-parser: added package at v2.9.4 (#15936) 2020-04-08 09:04:01 +02:00
Xavier Delaruelle
4031e9a2a7
environment-modules: add version 4.5.0 (#15938) 
Add new version 4.5.0 and update quarantine variable list to also
include LD_PRELOAD in addition to LD_LIBRARY_PATH (to avoid side-effect
when the first depends on the latter).
 2020-04-08 09:01:22 +02:00
George Hartzell
66cec5a151
Update hugo version and add extended variant (#15933) 
- Add info for version 0.68.3
- Add variant to package that enables the "extended" features.  It
  works with both of the existing versions (not sure how far back it
  goes, but confirmed that it's valid fro 0.53).

Tested on OS X with go@1.14.1.
 2020-04-07 22:27:23 -05:00
darmac
e16593e551
Add new package: open-isns (#15914) 
* Add new package: open-isns

* refine args
 2020-04-07 22:27:04 -05:00
Justin S
998dc7a121
py-cyvcf2: new package at 0.11.7 (#15908) 
* py-cyvcf2: new package at 0.11.7

* py-cyvcf2: update dependencies
 2020-04-07 20:41:18 -05:00
Justin S
7927394fb3
py-yahmm: new package at 1.1.3 (#15909) 
* py-yahmm: new package at 1.1.3

* py-yahmm: update dependencies
 2020-04-07 20:41:01 -05:00
Justin S
233fc5ff23
py-unidecode: new package at 1.1.1 (#15906) 
* py-unidecode: new package at 1.1.1

* py-unidecode: update py-setuptools dep type

* py-unidecode: add python version
 2020-04-07 20:40:33 -05:00
Justin S
9b33788573
py-utils: new package at 1.0.1 (#15904) 
* py-utils: new package at 1.0.1

* py-utils: update py-setuptools dep type

* py-utils: fix dependency condition
 2020-04-07 20:39:39 -05:00
Justin S
cc4bf086b9
py-args: new package at 0.1.0 (#15903) 
* py-args: new package at 0.1.0

* py-args: update dependencies
 2020-04-07 20:39:03 -05:00
Massimiliano Culpo
fb0bcf4127
openfoam: modified flex to be a build + link dependency (#15917) 
fixes #15863

Since openfoam-org needs FlexInclude.h "flex" needs to
be also a link dependency.
 2020-04-07 17:04:54 -05:00
ktsai7
0ac77b815f
update gasnet spackage cmake args (#15920) 
* update gasnet spackage cmake args

* fix style errors

* trailing whitespace
 2020-04-07 17:03:32 -05:00
Benjamin Tovar
0074995ecf
updates CCTools to version 7.1.2 (#15923) 2020-04-07 17:03:18 -05:00
Nichols A. Romero
46bcbac719
Make use of Spack's builtin CUDA build system. (#15924) 2020-04-07 17:02:38 -05:00
Robert Pavel
36f7def307
Addded Draco@7.5.0:7.6.0 (#15926) 
Updated version hashes for draco spackage to specify 7.5 and 7.6
 2020-04-07 17:01:06 -05:00
George Hartzell
153c888432
Fix lua build, missing deref of self for spec (#15927) 
Looks like something changed and a case was missed.

Function doesn't have a spec arg, need to dereference it off of
self.

Builds on OS X.
 2020-04-07 17:00:53 -05:00
Satish Balay
45fe9add2e
update versions: petsc4py@3.13.0 and slepc4py@3.13.0 (#15928) 2020-04-07 17:00:34 -05:00
Hadrien G
b405278c43
[acts-core] Add version 0.21 (#15922) 
* Add ACTS v0.21

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
 2020-04-07 17:00:01 -05:00
Carson Woods
fc19f7de6c
ucx: add additional variants (#15925) 
* Add more variants to ucx

* Fix flake8 issue
 2020-04-07 15:18:40 -05:00
Jose E. Roman
fb841877c5
slepc 3.13 develop updates (#15897) 
* slepc: updates for @devel

-  +arpack now works with int64
-  +blopex add conflict with int64
-  switch to using --with-arpack-lib [from --with-arpack-lib] with current slepc
-  use updated blopex with current slepc

* slepc: conflict with blopex should be in all versions

* slepc: add new downloads

* slepc: add whitespace around operator

Co-authored-by: Satish Balay <balay@mcs.anl.gov>
 2020-04-07 15:13:32 -05:00
Andrew W Elble
dd463272e6
New package(s): py-pydeps and py-stdlib-list (#15828) 
* New package(s): py-pydeps and py-stdlib-list

* requested changes

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
 2020-04-07 13:59:24 -05:00
darmac
cb9c86e526
Add new package: shark (#15913) 2020-04-07 11:57:21 -05:00
Mark Olesen
8b275080ea
update OpenFOAM patch versions (#15916) 
Co-authored-by: Mark Olesen <Mark.Olesen@esi-group.com>
 2020-04-07 11:57:07 -05:00
Massimiliano Culpo
2dece3aee8
cryptsetup: restrict the version of automake if @2.2.1 (#15918) 
* cryptsetup: restrict the version of automake if @2.2.1

fixes #15706

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
 2020-04-07 11:56:54 -05:00
Themos Tsikas
375e1c62c7
NAG Compiler 7.0 (Build 7014) download checksum (#15899) 
* NAG Compiler 7.0 (Build 7009) download checksum

* NAG Compiler 7.0 (Build 7014) download checksum
 2020-04-07 11:38:11 -05:00
Jennifer Herting
e34ea80d52
New package: boinc-client (#15770) 
* [boinc-client] Created template

* [boinc-client] removed non-client version

* [boinc-client] added description and homepage

* [boinc-client] specifically specify this as a client release

* [boinc-client] added dependencies

* [boinc-client] added variant: manager

* [boinc-client] added graphics variant

* [boinc-client] added dependency version specificity

* [boinc-client] systemd install path fix

* [boinc-client] added sqlite dependency

* [boinc-client] flake8

* [boinc-client] cleaned up left over fixme
 2020-04-07 11:21:49 -05:00
Massimiliano Culpo
f83d46bb79
intel: fixed version number (update4 is 18.0.5) (#15915) 
fixes #15811

See https://software.intel.com/en-us/articles/intel-compiler-and-composer-update-version-numbers-to-compiler-version-number-mapping
 2020-04-07 15:47:22 +02:00
Toyohisa Kameyama
ae94c52f1c
ppOpen-APPL/FEM: New package. (#15911) 
* ppOpen-APPL/FEM: New package.

* typo fix.
Update patch.
 2020-04-07 08:43:46 -05:00
Adam J. Stewart
783793426d
Package rename: DNNL -> oneDNN (#15910) 2020-04-06 19:27:34 -05:00
Matthias Diener
e7a529322f
fish: add version 3.1.0 and switch to cmake (#15812) 
Versions < 3 do not support building with CMake.
 2020-04-06 19:25:39 -05:00
Diego Magdaleno
2542d80e10
Update nano and fix coreutils on Darwin (#15883) 
* Fixed building coreutils on Darwin

* Bump nano version to 4.9

* Coreutils: Add program prefix g so we don't conflict with Apple utilities

* Fix intendation

* Make format more spack like

* Removed unnecesary changes

* Merge branch 'develop' of github.com:DiegoMagdaleno/spack into develop

Fix linking libgit2 on Darwin

* Revert "Merge pull request #3 from spack/develop"

This reverts commit 58dbbdb82bfa4aa689758971eb423ae2b9d2c293, reversing
changes made to dd7a413f4870fc2778f801c882a50cfade18fe97.

* Revert "Revert "Merge pull request #3 from spack/develop""

This reverts commit f956aa7b135c39ea0eb4ba6b9329714067098a7c.

* Revert "Merge branch 'develop' of github.com:DiegoMagdaleno/spack into develop"

This reverts commit 50321f798674ec30d5c62fe696b4f8bccef6ab3d.
 2020-04-06 19:23:05 -05:00
Andrew W Elble
6ad0ca27c2
new package: nccl-tests (#15890) 
* new package: nccl-tests

* fix dependency types
 2020-04-06 19:21:36 -05:00
Andrew W Elble
26a754c023
new package: py-tensorboard-plugin-wit (#15898) 
* new package: py-tensorboard-plugin-wit

dependency for py-tensorboard >= 2.2.0

* incorporate feedback
 2020-04-06 19:21:16 -05:00
Carson Woods
379319ee2d
pdt: add PIC support as variant (#15851) 
* Add fPIC support as variant

* Fix variant to use compiler agnostic fPIC option
 2020-04-06 16:20:21 -05:00
Andrew W Elble
9d906658b3
nccl: supports infiniband/RoCE since 2.3.5-5 (#15889) 
loads libibverbs via dlopen(), add dependency on rdma-core
 2020-04-06 16:19:55 -05:00
Andrew W Elble
ebd0b14ad1
new package: py-google-auth-oauthlib (#15900) 2020-04-06 16:10:43 -05:00
Adam J. Stewart
18a9a265fd
py-smart-open: fix url/checksum, add deps (#15892) 2020-04-06 11:16:20 -05:00
Dr. Christian Tacke
b1bea70df1
nanomsg: add new Package (#15894) 2020-04-06 11:15:57 -05:00
François Trahay
55d15fc07e
new packages: libbacktrace, libpfm, numap, numamma (#15868) 
* new packages: libbacktrace, libpfm, numap, numamma

* numap: use the existing libpfm4 package

* formatting
 2020-04-06 08:01:58 -05:00
Christoph Junghans
268c2a19da
boost: boost-python in 1.72.0 broken with cxxstd=98 (#15885) 
* boost: boost-python in 1.72.0 broken with cxxstd=98

* py-espressopp: depend on boost with cxxstd=11
 2020-04-05 18:42:27 -05:00
Adam J. Stewart
1249d73630
py-spatialist: add maintainer and new version, fix url and deps (#15878) 2020-04-05 17:31:09 -05:00
Adam J. Stewart
a08d5fed0a
py-flake8-polyfill: fix url and deps (#15872) 2020-04-05 15:45:29 -05:00
Adam J. Stewart
2a074ce445
py-gensim: fix url and deps, add maintainer (#15870) 2020-04-05 15:45:17 -05:00
Adam J. Stewart
638e6d0f9e
py-humanfriendly: add new version, fix url and deps (#15873) 2020-04-05 15:45:04 -05:00
Adam J. Stewart
e359bb91e9
py-pep8-naming: add new version, fix url and deps (#15874) 2020-04-05 15:44:50 -05:00
Adam J. Stewart
4dc034a8e5
py-progressbar2: add new version, fix url (#15875) 2020-04-05 15:44:36 -05:00
Adam J. Stewart
f5fde735b6
py-python-utils: add new version, fix url and deps (#15876) 2020-04-05 15:44:23 -05:00
Adam J. Stewart
d87f44e987
py-scoop: fix url and deps (#15877) 2020-04-05 15:44:10 -05:00
Adam J. Stewart
cf68193ebe
py-tblib: add new version, fix url and deps (#15879) 2020-04-05 15:43:20 -05:00
Adam J. Stewart
a3b9dbcbfb
package urls: pypi.org -> pypi.io (#15880) 2020-04-05 15:43:09 -05:00
Adam J. Stewart
68b4beb725
py-sphinx: add 3.0.0 (#15881) 2020-04-05 15:42:57 -05:00
Adam J. Stewart
05532f9e27
py-ecdsa: add new version, fix download url (#15871) 2020-04-05 15:42:44 -05:00
健美猞猁
34627fcbe5
py-pywcs: a new package. (#15826) 
* py-pywcs: a new package.

* Fix a flake8 issue.

* Add missing dependencies.

* run -> build.

* Add version specifications.
 2020-04-05 11:21:54 -05:00
François Trahay
c99a88128a
Version bump: eztrace-1.1-10 (#15866) 
* version bump: eztrace-1.1-10

* 'trahay' is the maintainer for package 'eztrace'
 2020-04-05 09:39:57 -05:00
Christoph Junghans
b4271d1a26
py-espressopp: pin py-numpy to py2 version (#15865) 2020-04-04 13:00:04 -05:00
darmac
7f8102d6d0
openjdk: support aarch64 platform (#15840) 2020-04-04 11:35:46 -05:00
Adam J. Stewart
9b9b46c0a9
Package rename: intel-mkl-dnn -> dnnl (#15852) 2020-04-04 11:35:23 -05:00
Nichols A. Romero
4ee9fd46bc
LLVM support for mlir (#15859) 2020-04-04 11:12:21 -05:00
Simon Pintarelli
4bb1392d7d
SIRIUS add version 6.5.1 and 6.5.2 (#15860) 2020-04-04 11:11:17 -05:00
健美猞猁
a7f418e0b2
Check if CPU family is x86_64. (#15862) 
* Check if CPU family is x86_64.

* Remove the leading space.
 2020-04-04 11:10:48 -05:00
Jennifer Herting
0891c5d854
New package: py-gluoncv (#15856) 
* [py-gluoncv] created template

* [py-gluoncv] added description and homepage

* [py-gluoncv] added dependencies

* [py-gluoncv] unicode in readme is causing build to fail

* [py-gluoncv] cleaned up fixmes

* [py-gluoncv] removed unnecessary python dependency listing

* [py-gluoncv] added cython
 2020-04-03 15:49:21 -05:00
G-Ragghianti
bf8fea1d53
Added support for new config process for papi@6:+lmsensors (#15858) 
* Added support for new configuration process of lmsensors component for papi@6:

* Removed extraneous blank lines
 2020-04-03 15:48:44 -05:00
Matthieu Dorier
4173c27868
unqlite: restricted patch to version 1.1.9 (#15857) 
* restricted unqlite patch to version 1.1.9

* putting back the URL of the PR corresponding to the patch
 2020-04-03 15:48:29 -05:00
Jennifer Herting
0a9d4f6720
New package: py-portalocker (#15854) 
* [py-portalocker] Create template

* [py-portalocker] added homepage and description

* [py-portalocker] specified dependencies

* [py-portalocker] cleaned up fixmes

* [py-portalocker] removed unnecessary python dependency listing
 2020-04-03 13:58:02 -05:00
G-Ragghianti
5e5b68c063
Papi package: updating with new bugfix version and variant (#15849) 
* Added new variant "sde" to papi

* Updated papi with new version and new variant "sde"
 2020-04-03 11:39:29 -05:00
Frédéric Simonis
be57c0f6e7
precice: Add version 2.0.2 (#15846) 2020-04-03 11:33:47 -05:00
Jennifer Herting
1461332e97
New package: libnotify (#15769) 
* [libnotify] created template

* [libnotify] added homepage and description

* [libnotify] added dependencies

* [libnotify] patch location to docbook

* [libnotify] more dependency work

* [libnotify] reorder dependencies

* [libnotify] added variant docbook

* [libnotify] more accurate dependency version

* [libnotify] xsltproc still needed

* [libnotify] created test variant

* [libnotify] added gtkdoc varient

* [libnotify] cleaned up leftover fixme

* [libnotify] flake8

* [libnotify] test variant became self.run_tests

* [libnotify] pkgconfig is build dependency

* [libnotify] commented out broken variants

* [libnotify] flake8
 2020-04-03 11:07:25 -05:00
健美猞猁
c0d2f70d02
py-stsci-distutils: new package at v0.3.8 (#15845) 2020-04-03 11:12:59 +02:00
Toyohisa Kameyama
87444aef7e
ppOpen-APPL/BEM-AT: added new package at v0.1.0 (#15841) 2020-04-03 11:11:46 +02:00
健美猞猁
e227a684b9
py-d2to1: added v0.2.12 (#15844) 2020-04-03 10:29:25 +02:00
Carson Woods
1662c3581b
pmix: add option for toggling pmi backwards compatibility (#15838) 
* Add option for toggling pmi backwards compatibility

* Remove trailing whitespace
 2020-04-02 21:09:33 -05:00
Jennifer Herting
1d14f74d19
New Package: py-astropy-helpers (#15658) 
* [py-astropy-helpers] created template

* [py-astropy-helpers] - removed boilerplate - added homepage - added depends_on('py-astropy')

* [py-astropy-helpers] Setuptools versioning

* [py-astropy-helpers] cleaned up unused build_args method

* [py-astropy-helpers] py-astropy is a runtime dependency

* [py-astropy-helpers] requires python@3.6:

* [py-astropy-helpers] cleaned up unnecessary older versions

* [py-astropy-helpers] turns out py-astropy isn't actually a dependency
 2020-04-02 20:11:48 -05:00
Shintaro Iwasaki
73ac853c3d
argobots: new version 1.0 (#15786) 2020-04-02 20:11:06 -05:00
Robert Mijakovic
37e9e450c9
Updates versions of Intel packages (#15839) 
* update version: intel packages daal, ipp, mkl-dnn, mkl, mpi, parallel-studio, pin, tbb and makes url parameter consistent and always use single quote.

* Fixes a typo with one of the sha256 checksum..

* Adds version entries for new versions of Intel packages.

Co-authored-by: Robert Mijakovic <robert.mijakovic@lrz.de>
 2020-04-02 19:39:44 -05:00
Carson Woods
0083c87c26
mpip: add demangling and setjmp variants (#15837) 
* Add demangling to mpip

* Add setjmp support to mpip

* Flake8 fixes
 2020-04-02 19:37:35 -05:00
Adam J. Stewart
4d2de863ef intel-mkl-dnn: add 1.3 2020-04-02 15:20:18 -07:00
Michael Kuhn
06ebb94f37 go: Add 1.14.1 and 1.13.9 2020-04-02 15:17:00 -07:00
Matthieu Dorier
8b52f9f37d
unqlite: Patching unqlite to be able to build a shared library (#15830) 
* Patching unqlite to be able to build a shared library

* Correcting a whitespace for flake8 to pass

* added comment about PR on unqlite

* extra commit to force github to merge
 2020-04-02 17:15:45 -05:00
iarspider
144557e945
c-blosc: Add variants to disable building tests and benchmarks (#15789) 
* Add variants to disable building tests and benchmarks

* Flake8

* Update package.py

* Update package.py

* Update package.py
 2020-04-02 08:52:37 -05:00
Toyohisa Kameyama
1f6f395337
ppOpen-APPL/BEM: added new package at v0.5.0 (#15819) 2020-04-02 12:08:09 +02:00
健美猞猁
d2b6ef98f1
py-pyfits: added new package at v3.5 (#15825) 2020-04-02 12:07:22 +02:00