Commit graph

10497 commits

Author SHA1 Message Date
Hector
6d8cd446c5
Add valgrind variant to petsc (#15427)
* Add PETSc valgrind dependency

* Remove +debug on valgrind dependency

* enh variant description
2020-03-10 20:41:00 -05:00
Seth R. Johnson
8ac06ece3d
Fix OpenBLAS 0.2 build, 0.38+ Intel builds, and variant name (#15419)
* Remove ARCH argument in OpenBLAS < 0.3.0

* Fix Intel OpenBLAS that uses lapack 0.3.9

* Improve variant name consistency

see https://github.com/spack/spack/issues/15239
2020-03-10 16:40:03 -05:00
Mathias Anselmann
fc78456547
gcc: backporting fix for glibc 2.31 (#15403)
* backporting fix for building gcc >= 8.1.0 and gcc <= 9.2.0 with binutils 2.31

* removed trailing whitespace
2020-03-10 16:27:07 -05:00
Nisarg Patel
4ef0442a01
fix static mumps build error - Added a space at the end of ar vr for the static build to run successfully (#15407) 2020-03-10 16:23:41 -05:00
Toyohisa Kameyama
9fba110372
libxpresent: Add some dependencies. (#15417)
* libxpresent: Add some dependencies.

* Change *proto dependency type from build to link.
2020-03-10 16:22:04 -05:00
Tomoki, Karatsu
03c684954e
r: Lower optimization level when using Fujitsu compiler@4.1.0. (#15418) 2020-03-10 16:21:14 -05:00
Dr. Christian Tacke
6993a82cb4
cryptsetup: Add pkgconfig dependency (#15422) 2020-03-10 16:18:59 -05:00
Elsa Gonsiorowski, PhD
9debb7e1b6
SCR: build with components (#14931)
* scr: add develop, legacy branches; version 2.0.0

squash! scr: add develop and legacy versions

* filo: package for SCR component

* spath: package for SCR component

* axl: update for versions 0.3 and 0.2

* scr: build with components

* spath: structure of +mpi if/else

* 👌 capitalization of ecp-veloc

* scr: branches are always greater than any version
2020-03-10 15:27:41 -05:00
broderickpt
c4c6accace
contrib-spiral: submit SPIRAL package recipe and HCOL package recipe … (#15188)
* contrib-spiral: submit SPIRAL package recipe and HCOL package recipe (extension package for SPIRAL) to spack

* contrib-spiral: fix flake8 complaints for spiral & hcol

* contrib-spiral: Revisions to package recipes to address comments

* contrib-spiral: remove unecessary 'test' function

* contrib-spiral: update hcol package to install in <prefix>/namespaces/packages/hcol

* contrib-spiral: don't import os to hcol

* contrib-spiral: tweak hcol package recipe
2020-03-10 13:07:53 -05:00
Sergey Kosukhin
7118e24664
Parallel-netcdf: update package. (#15359)
* Parallel-netcdf: update package.

* Add a temporary patch for version 'develop'.

* Rename version 'develop' to 'master'.

* Drop the patch for 'master'.
2020-03-10 11:29:57 -05:00
Seth R. Johnson
21634e805e
libfabric: added v1.9.1 (#15405) 2020-03-10 17:09:46 +01:00
Christoph Junghans
7744070787
gromacs: remove simd variants (#13636) 2020-03-10 09:08:10 -06:00
TZ
48f8f0ec58
likwid: added v5.0.1 (#15421)
includes fixes for likwid-mpirun, better support for ARM and POWER, 
other bugfixes.

For full support of ARM and POWER, #14183 has to be merged, too.

Added TomTheBear as maintainer. He is the current main developer of
LIKWID.
2020-03-10 16:03:14 +01:00
Melven Roehrig-Zoellner
ebe7590310
bazel: add missing dependency on zip (#15402) 2020-03-10 10:18:29 +01:00
Mathias Anselmann
da677b3cb8
update binutils to 2.34 (#15401) 2020-03-10 10:15:31 +01:00
Justin S
b86aa4ec18
eagle: new package at v1.1.2 (#15409) 2020-03-10 10:05:34 +01:00
Howard Pritchard
f87dfb9828
openmpi: add version 4.0.3 (#15414)
Signed-off-by: Howard Pritchard <howardp@lanl.gov>
2020-03-10 09:01:02 +01:00
ktsai7
fd69994c68
added cmake_args (#15411) 2020-03-09 14:07:11 -06:00
TZ
3f69cc9ec8
Gromacs: new version 2020.1 (#15399) 2020-03-09 11:35:54 -06:00
Toyohisa Kameyama
c919a7e302
exiv2: add zlib and expat dependency. (#15396) 2020-03-09 10:31:20 +01:00
Toyohisa Kameyama
c783493ace
fast-global-file-status: add openssl dependency. (#15398) 2020-03-09 10:29:02 +01:00
Stephen McDowell
2beefc6bfe
eigen variants have been removed (#15392)
* eigen variants have been removed

ref: https://github.com/spack/spack/pull/15357

* opencv ^eigen is ('build', 'run') dependency
2020-03-09 09:35:31 +01:00
Adam J. Stewart
6f8d1b41d0
gnupg: add 2.2.19, add missing pinentry dep (#15390) 2020-03-07 17:00:14 -06:00
Adam J. Stewart
cd4530ca1f
libgcrypt: fix macOS tests (#15389) 2020-03-07 16:43:38 -06:00
Adam J. Stewart
b385ba0aa9
libgpg-error: add 1.37 (#15388) 2020-03-07 16:43:23 -06:00
Adam J. Stewart
a1e4b72794
pinentry: add new package (#15387) 2020-03-07 16:26:56 -06:00
Sinan
4e10eb08a9
new package: GunRock (#15383)
* new package: GunRock

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

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

* improve

Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Sinan81 <Sinan81@github>
2020-03-07 13:31:29 -06:00
Peter Scheibel
697719c181
Only use stable versions for public mirror (#15100)
* add --skip-unstable-versions option to 'spack mirror create' which skips sources/resource for packages if their version is not stable (i.e. if they are the head of a git branch rather than a fixed commit)

* '--skip-unstable-versions' should skip all VCS sources/resources, not just those which are not cachable
2020-03-07 13:38:08 +01:00
Simon Pintarelli
9fd3b2be89
sirius: add versions 6.4.4, 6.5.0 (#15374)
- new versions 6.4.4, 6.5.0
2020-03-06 18:32:23 -06:00
George Hartzell
5965a91880
New package: bat (#15345)
* New package: bat

Add package for bat:

     A cat(1) clone with wings.

* Update copyright date

* Embiggen comment re build env settings

Provide a bit more explanatory text about why setup_build_environment
needs to set LLVM_CONFIG_PATH and LIBCLANG_PATH.

Co-authored-by: George Hartzell <ghartzell@audentestx.com>
2020-03-06 18:12:31 -06:00
Dr. Christian Tacke
ce287bccf8
flatbuffers: Allow building shared libraries (#15375)
Added a shared variant, that switches between shared and
static library building, like with most cmake packages.
2020-03-06 12:16:30 -06:00
iarspider
6412b9e71a
Add extra version of py-widgetsnbextension (#15372) 2020-03-06 11:21:33 -06:00
Robert Blake
cd38e87eef
New package: gengetopt, tool for C command line parsers. (#15367)
* New package: gengetopt, tool for C command line parsers.

* Adding url for `spack version` and `spack checksum`
2020-03-06 10:59:08 -06:00
Massimiliano Culpo
58e57a6986
eigen: updated url to point to gitlab (#15357)
* eigen: updated url to point to gitlab

fixes #13890

Eigen migrated from bitbucket to gitlab

* eigen: simplified package (no dependencies other than stdlib)

* Added TODO list for future improvements
2020-03-06 15:53:24 +01:00
Mark W. Krentel
441340771d
libunwind: remove version 2018.10.12, add stable branch (#15316)
* libunwind: remove version 2018.10.12, add stable branch

Finish cleaning up the libunwind version numbers.  The 2018.10.12
snapshot number didn't fit well with spack's ordering (my bad), and
1.4-rc1 is a near identical replacement.

Add a version for the 1.4-stable branch.

Add a variant for zlib compressed symbol tables (develop branch only).

Adjust packages caliper and hpctoolkit to adapt to the changes.

Add myself as maintainer.

* Flake

* Settle on renaming 'develop' to 'master' (to match the branch name)
and name the 'v1.4-stable' branch as '1.4-head'.  'stable' or
'1.4-stable' is a better name, but '1.4-head' (an infinity version)
sorts better.
2020-03-06 08:49:46 -06:00
Mathias Anselmann
8687ace8f9
Cscope: fix linking and update to v15.9 (#15358)
* explicitly link against libtinfo

* Update to v15.9

* fixed indentation

* fixed url definition

* added url vor current version again

* fixed indentation

* moving url_version to the bottom
2020-03-06 08:47:35 -06:00
Dr. Christian Tacke
83778f009e
munge: new version, local state path, misc (#15307)
* Add version 0.5.14
* Add variant to allow setting the localstatedir: See below
* Add bzip2 dependency
* Add myself to maintainers (I just think, I can care for
  this package)

About localstatedir:

munge has a server and a client.
They communicate via unix domain sockets.
This socket is in PREFIX/var.
This package provides the client, the server, and
development part (headers, libraries).

Let's assume one has the server part installed as a system
package.  This generally is a good idea, so that the server
gets started during boot. This means, that the socket is in
the system's /var.

If one now wants to use the client part (library!) via
spack, one has a problem: spack's munge looks in
SPACK-PACKAGE-PREFIX/var for the socket.

There needs to be a way to let the spack installed package
use the system's socket.

So add a variant to override the path during build:
localstatedir=/var.
2020-03-06 08:03:20 -06:00
iarspider
4391bb5f23
Update pycairo to 1.18.1 and fix dependencies (#15352)
* Update pycairo to 1.18.1 and fix dependencies

* Typo
2020-03-06 08:01:45 -06:00
Axel Huebl
c40915db05
openPMD-api: 0.11.0 (#15371)
Add the latest release of openPMD-api.
2020-03-06 11:20:31 +01:00
Adam J. Stewart
dd8afca9d8
Add Checksum for 1.4.1.4 Release (#15363)
* Add Checksum for 1.4.1.4 Release

Add checksum for 1.4.1.4 release.  Mark myself as maintainer.  List develop version.

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

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

* Update package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-03-05 17:28:42 -06:00
Adam J. Stewart
aa0ab13a73
Python: add 3.8.2 (#15365) 2020-03-05 17:02:13 -06:00
Adam J. Stewart
656d1ac5ab
Update legion versions (#15364) 2020-03-05 16:28:35 -06:00
eugeneswalker
8cce884078
unifyfs: add patch to fix #15292 (#15315)
It was reported that UnifyFS had a bug with the --enable-mpi-mount
config option, which corresponds to the auto-mount variant. This bug
was fixed in the UnifyFS dev branch, however remains broken for the
0.9.0 version.

This adds a patch to the unifyfs package to fix the auto-mount
variant when installing with version 0.9.0.

This also removes the openssl dependency as unifyfs does not directly
depend on it. This was said to be a non-explicit dependency in #15258.
However, if it is needed, it is likely a non-explicit dependency of
one of unifyfs's dependencies and should be added there.

Fixes: #15292
2020-03-05 13:54:25 -08:00
Adam J. Stewart
da853a5daa
lammps: add most recent stable release (#15335)
* lammps: add most recent stable release

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

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

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-03-05 15:19:18 -06:00
Adam J. Stewart
28a75a4c35
lastz: declare ch as type int (#15350) 2020-03-05 15:06:20 -06:00
Adam J. Stewart
fde1b2088a
update maintainers for bmi, darshan, and margo (#15356)
Signed-off-by: Phil Carns <carns@mcs.anl.gov>
2020-03-05 15:00:52 -06:00
Axel Huebl
24e6155bac
New package: fd-find (#15344)
* New package: fd-find

Add package for fd-find:

    A simple, fast and user-friendly alternative to 'find'.

* Update copyright date
2020-03-05 10:14:40 -08:00
Axel Huebl
3a8800b6b4
New package: ripgrep (#15343)
Add package for ripgrep:

    ripgrep is a line-oriented search tool that recursively searches
    your current directory for a regex pattern.  ripgrep is similar to
    other popular search tools like The Silver Searcher, ack and grep.
2020-03-05 10:14:18 -08:00
Adam J. Stewart
9940392c2b
New package: opensubdiv (#15310)
* [opensubdiv] created stub for opensubdiv

* [opensubdiv] added homepage and description

* [opensubdiv] removed boilerplate

* [opensubdiv] working on dependencies and variants

* [opensubdiv] fixed syntax error

* [opensubdiv] defined spec

* [opensubdiv] added dev version

* [opensubdiv] building on CudaPackage

* [opensubdiv] always build with open gl and depends_on('gl')

* [opensubdiv] applying cuda flags

* [opensubdiv] worked on doc variant

* [opensubdiv] added some x11 libraries

* [opensubdiv] depends on glfw

* [opensubdiv] locating glew

* [opensubdiv] added openmp variant

* [opensubdiv] flake8 fixing

* [opensubdiv] fixed develop version name

* [opensubdiv] fixed description to not need @
2020-03-05 10:52:20 -06:00
Adam J. Stewart
9edf812745
py-matplotlib: add 3.2.0 (#15349) 2020-03-04 21:56:00 -06:00
Peter Scheibel
c5dc4a722e
xgboost: add version 0.90 (#15321) 2020-03-04 18:19:03 -08:00
Axel Huebl
1757ec9eae
New version of simplejson (#15325) 2020-03-04 20:34:06 -05:00
Adam J. Stewart
b813887585
ADIOS2: Cleanup, Development Branch Name (#15334)
* ADIOS2: Version `master`

Rename branch version to supported, real development branch `master`.
The old name is legacy Spack when alternative development branch
names were not yet supported.

* ADIOS: Simplify via spec Variable

use the already defined local variable `spec` to shorten
lines
2020-03-04 19:24:16 -06:00
Adam J. Stewart
136a4897b7
ADIOS2: Testing Depends on Python (#15336)
Add the python dependency and CMake hints when build with tests.
`spack install --tests=root adios2`
2020-03-04 19:23:12 -06:00
Adam J. Stewart
d7f84c738e
Fixed the sha has for 1.3.3. (#15331) 2020-03-04 19:19:16 -06:00
Adam J. Stewart
1973d1c53e
libfabric: default 1.8.1 (#15337)
Since 1.9.0 is broken for Darwin, which impacts many developers, and
the fix is still a RC, let's keep the previous release as default.

This avoids distruption for OSX developers and CI.
2020-03-04 19:11:54 -06:00
Adam J. Stewart
8eda1db50f
precice: Add version 2.0.1 (#15318) 2020-03-04 13:19:41 -06:00
Adam J. Stewart
60439a5040
pgi-19.10 update version (#15330) 2020-03-04 13:18:46 -06:00
Adam J. Stewart
3be3b2d0e3
gcc: Add 8.4.0 (#15323) 2020-03-04 13:18:02 -06:00
Adam J. Stewart
1ade506f54
Add extra version of py-contextlib2 (#15322) 2020-03-04 13:17:09 -06:00
Adam J. Stewart
5cfd862f47
suite-sparse: fix installation for v5.X (#15326)
fixes #15184

GraphBLAS depends on m4 according to CMake error message
Do not use INSTALL= when compiling the library
2020-03-04 13:16:42 -06:00
Christoph Junghans
32a0f3274f
ecp-proxy-apps: version bump (#14680) 2020-03-04 10:45:23 -07:00
sknigh
370e7c211d
intel-xed does not support python>3.7 (#15308) 2020-03-03 13:38:55 -06:00
sknigh
cec341594d
Added UQTk package (#14801)
* added UQTk package

* Add missing expat dependency to uqtk
2020-03-03 12:50:20 -06:00
Mark W. Krentel
fddb3f291c
elfutils: increase connect timeout (#15262)
Increase the connect timeout for elfutils to 60 sec.  Elfutils (and
bzip2) tar files are on sourceware.org which is often slow to respond.
2020-03-03 11:27:57 -06:00
Brian Van Essen
f83d98a62d
Protobuf's cmake environment does not properly handle being exported (#15293)
and found when using the RelWithDebInfo build type.  Change protobuf
to only support Release and Debug build types.
2020-03-03 11:27:01 -06:00
Mathias Anselmann
d6b0cf75ed
cherry-picking global ordinal type variant from https://github.com/spack/spack/pull/14215 and setting dealii to GO int, to make it compile again (#15288)
Co-authored-by: Andrey Prokopenko <andrey.prok@gmail.com>
2020-03-03 11:26:20 -06:00
Dr. Christian Tacke
c4237e4a10
fairlogger: add version, other improvements (#15300)
* @develop needs the full git repo to use "git describe"
  properly

* If not specifying the cxxstd variant, let cmake use its
  default

* Improve fmt dependencies: fairlogger < 1.6.2 does not
  work with fmt >= 6.

* Small other stuff
2020-03-03 11:24:37 -06:00
Patrick Schratz
71855707ef
Update package.py (#15299) 2020-03-03 11:02:02 -06:00
Jennifer Herting
a237781c48
Created package glfw (#15296)
* Created stub

* added description and homepage

* added dependencies

* removed extra boilerplae

* switched to the pkgconfig provider
2020-03-03 11:01:29 -06:00
Sergey Kosukhin
2d1592cca7
OpenMPI: patch for NAG. (#15301) 2020-03-03 11:00:27 -06:00
Mathias Anselmann
518d1439c7
Suite sparse compilation fix for 5.7.0 and 5.7.1 (#15289)
Suite-sparse 5.7.0 and 5.7.1 need separate make and make install run to be able to compile, too
2020-03-03 12:06:58 +01:00
George Hartzell
dc4e43682c
Tmux should look for tinfo in -ltinfo (#15282)
Just `depend_on('ncurses')`, pkgconfig seems to cause the right thing
to happen if the package is built +termlib or ~termlib (tested both
ways on a CentOS 7 system).

Additional details in: https://github.com/spack/spack/issues/15281

Tested by building all of the releases of tmux on a CentOS 7 box.
2020-03-03 09:12:06 +01:00
Dr. Christian Tacke
b43812c7c4
boost: Add "container" library (#14878)
"container" is partly a misnomer, as it's realy
the extended allocators part of container.

But every part calls it container, so we do too.
2020-03-02 19:48:07 -06:00
Erik Schnetter
059203b2fd
amrex: New version 20.03 (#15294) 2020-03-02 16:09:50 -06:00
Kai Torben Ohlhus
1db1ae6887
openblas: Add version 0.3.9. (#15287)
[OpenBLAS 0.3.9](https://github.com/xianyi/OpenBLAS/releases/tag/v0.3.9) was released.
2020-03-02 11:58:54 -06:00
Cody Melton
7df761564a
Qmcpack: new variant +afqmc (#14882)
* add preliminary afqmc support in qmcpack

* afqmc updates

* fix spack typos

* edit AFQMC to only allow up 3.7 or above

* added NCCL library support for AFQMC build

* add CMAKE args for BUILD_AFQMC_WITH_NCCL

* update for just AFQMC support. No AFQMC+GPU support

* remove nccl for afqmc

* flake8 whitespace fix
2020-03-02 11:58:33 -06:00
Gregory Lee
8a4f02fb2d
stat: new version 4.0.2 (#15290) 2020-03-02 09:51:28 -08:00
Sergey Kosukhin
e3b357ad87
Update flag_handler for 'netcdf-fortran'. (#14789)
* Update flag_handler for 'netcdf-fortran'.

* Refactoring.

* Enable old versions of netcdf-fortran for NAG.

* Disable parallel 'make check' for versions before 4.5.0.

* Fix shared libraries built with NAG instead of conflicting it.

* Add 'skosukhin' as a maintainer of 'netcdf-fortran'.
2020-03-02 08:40:37 -06:00
noguchi-k
aae59f4866
lastz: set compile commands for each compiler (#15284) 2020-03-02 08:05:31 -06:00
Glenn Johnson
c0032a3660
Update tcsh package (#15283)
This PR adds some fixes for the tcsh package.

- Adds new version
- adds list_url so fetching works for current and old tarballs
- sets ncurses dependency explicitly to `ncurses+termlib`

If `+termlib` is not set then it will link against the system libtinfo.
2020-03-01 22:00:57 -06:00
noguchi-k
27de7a2726
lastz: cast from char to signed char (#15263) 2020-03-01 19:58:27 -06:00
TZ
ac4d0c3af7
Quantum-Espresso: qe-6.5 fails to detect MKL for FFT (#15276)
* Quantum-Espresso: qe-6.5 fails to detect MKL for FFT

qe-6.5 fails to detect MKL for FFT if BLAS_LIBS is set due to
an unfortunate upsteam change in their autoconf/configure:
- qe-6.5/install/m4/x_ac_qe_blas.m4 only sets 'have_blas'
  but no 'have_mkl' if BLAS_LIBS is set (which seems to be o.k.)
- however, qe-6.5/install/m4/x_ac_qe_fft.m4 in 6.5 unfortunately
  relies on x_ac_qe_blas.m4 to detect MKL and set 'have_mkl'
- qe-5.4 up to 6.4.1 had a different logic and worked fine with
  BLAS_LIBS being set
However, MKL is correctly picked up by qe-6.5 for BLAS and FFT if
MKLROOT is set (which SPACK does automatically for ^intel-mkl).
Thus, do not set BLAS_LIBS when compiling qe-6.5 with intel-mkl.

* replace all '^intel-mkl' by '^mkl' to match other packages which also provide MKL

e.g. intel-parallel-studio+mkl as mentioned by @adamjstewart in #15276
2020-03-01 10:08:33 -06:00
George Hartzell
501fdc75b6
Update kallisto (with hackery on std_cmake_args) (#15278)
* Filter problematic flag from std_cmake_args

Including '-DCMAKE_VERBOSE_MAKEFILE:BOOL=ON' in the cmake args causes
bits of cmake's output to end up in the autoconf-generated configure
script.  See https://github.com/spack/spack/issues/15274 and

* Don't build in parallel (sigh)

* Constrain hackery for newer versions...

... to newer versions.
2020-02-29 22:58:13 -06:00
Sinan
5fc43b3b0e
QGIS: fix typos (#15279)
* fix typos

* minor improvement

* add version 3.4.15
2020-02-29 22:56:41 -06:00
Sinan
7150bd6224
New package: QGIS (#12388)
* [WIP] new package: qgis

* add maintainer

* further improvements

* reflect improvements to qscintilla installation paths

* comment out qtkeychain dependency as the package is created

* uncomment qtkeychaing dependency, since this package is now created

* a comment on webkit

* specify versions of dependencies, add variant

* fix variant description

* fix proj dependency logic

* adjust conflicts and dependencies so that one can compile qgis@2 with qt4, python2.7

* minor improvement

* fix some build errors, improve dependency specs

* qsci python bindings will be build by py-pyqt

* cmake variable QSCINTILLA_LIBRARY should point to library itself not the parent folder

* turn grass off explicitly, fix typo, turn qspatialite off explicitly

* fix typo

* specify more cmake options that doesn"t seem to be set properly, and use spack provided pkg-config

* fix libzip

* fix build issue with sqlite variant, add runtime dependencies

* add more runtime python package dependencies

* reflect variant name change in sqlite

* add maintainer, correct typo

* add TODO's

* add more versions

* improve style

* add latest versions

* netcdf -> netcdf-c

* add variants as shown in cmake config

* add conflict: v3.8.1 won't build if qt@5.13:

* change preferred version to latest long term release, 3.10.3

* add a zillion of build options

* improve style

* add descriptions for variants

* remove and already implemented compilation tip

* add "when" statements for optional dependencies

* make flake8 happy

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

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

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

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

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

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

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

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

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

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

* convert conflicts to depends_on

* undo str conversion for path objects

* fix flake8 E131

* fix flake8 E128, E124

* improve style

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-02-29 18:52:43 -06:00
Mark W. Krentel
4c506c88f0
hpctoolkit: add version 2020.03.01 (#15277)
Add version 2020.03.01, deprecate Blue Gene to 2019.12.28 and earlier,
tighten a few dependencies.
2020-02-29 18:30:42 -06:00
Richard Berg
d105807a48
Add kraken2 (#15053) 2020-02-29 15:44:42 -06:00
Robert Blake
7562d4e934
Caliper depends on python3. (#15260)
* Caliper depends on python3.

The package needs to be told where to find it.

* More flake8 formatting edits.

* Change explicit python3 to spec['python'].command.path

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

* Removing defunct import for flake8

* Flake8 trailing whitespace warning.

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-02-29 15:32:51 -06:00
Anthony Scemama
ece5ec8ade
opam: added versions up to v2.0.6 (#15178) 2020-02-29 14:47:44 +01:00
rtohid
ecc7afdad6
HPX: added v1.4.1 and "stable" branch (#15198) 2020-02-29 14:44:09 +01:00
Roberto Di Remigio
4dbeb3563b
MRCPP: New package. (#15201) 2020-02-29 14:41:02 +01:00
plamborn
0187807621
libhio: specify use of external json (#15209)
libhio has been building it's own json.  With this change, libhio will rely on the json installed by spack.
2020-02-29 14:25:21 +01:00
Glenn Johnson
94c2e7e7b4
Set http:// in homepage for a few packages (#15275)
This PR adds 'http://' to the homepage setting of a few packages that do
not have it set. Not having that set can cause problems with some wiki
apps when embedding the homepage value into markdown syntax.

- bowtie2
- exuberant-ctags
- perl-want
- samtools
2020-02-29 13:47:56 +01:00
George Hartzell
53f4db938f
Update tree for v1.8.0 (#15272)
- add version info for v1.8.0

- v1.8.0 adds a new source file, `file.c`, which need to be included
  in our hardcoded list of objects to link.

  I discovered this while demonstrating "how easy it is to add a new
  package to Spack", only to scratch my head when it failed `spack
  install` but worked when I ran `make` in the stage dir.  Finally
  looked at tree/package.py and it All Became Clear.

  Perhaps someone should rewrite this to use MakefilePackage, but the
  Makefile starts off with a bunch of twisty turny "uncomment these
  lines to run on this platform", so it might not be worth it.
2020-02-28 17:52:41 -06:00
Anthony Scemama
c10fb2a974
Added package py-versioneer (#15130)
* Added package py-versioneer

* Update python version

* Added python2 to versioneer

* Added python2 to versioneer

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

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

* Cleaning comments

* Removed temporarily @warner as a maintainer, waiting for answer

* Removed line

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-02-28 15:14:06 -06:00
George Hartzell
d3a2234af9
Add version info for the-silver-searcher@2.2.0 (#15270) 2020-02-28 15:13:05 -06:00
Rémi Lacroix
7ecee48c83
OpenMPI nolegacylaunchers: avoid a fork bomb (#15268)
Due to the use of backquotes, the replacement script for mpirun/mpiexec commands would recursively call itself, effectively causing a fork bomb.
2020-02-28 14:59:49 -06:00
Christoph Junghans
5329308b83
gromacs: add v2019.6 (#15267)
* gromacs: add v2019.6

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

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

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-02-28 14:58:31 -06:00
iarspider
97e909ef0c
Fix expect on linux (#15230) (#15269)
* Fix expect on linux

* Flake8
2020-02-28 14:57:45 -06:00