Matthias Diener
ff67009161
libarchive: remove lzma dependency ( #10517 )
...
lzma was last updated in 2008 and has compilation
issues on some platforms. The format has been superceded
by xz (see e.g. https://tukaani.org/xz/ ).
2019-02-08 16:33:13 +01:00
Denis Davydov
5623ac3d6b
CudaPackage: fix wrong version range ( #10551 )
2019-02-08 16:32:43 +01:00
Robert Blake
a55fc5b963
Adding a package for cardioid. ( #10448 )
...
* Adding a package for cardioid.
* Changing package to pass flake8
* Removing template leftovers per @ax3l 's advice
* Adding a homepage so tests pass.
* Removing whitespace for flake8
* Changing the name of master branch to match spack standards.
2019-02-08 11:17:26 +01:00
Michael Kuhn
84bc2a4215
meson: add 0.49.1 and disable rpath stripping ( #10463 )
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rpath stripping breaks (at least) the gtkplus build because at-spi2-atk's
dependencies can not be found.
2019-02-08 11:15:49 +01:00
Peter Scheibel
d8746d596e
bug report template: suggest --stacktrace instead of -s ( #10548 )
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1137b18
2019-02-07 21:06:57 -06:00
Piotr Luszczek
f093515002
netlib-scalapack package: add CMake test patch ( #10452 )
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Add patch to fix Fortran mangling in CMake test
This is a fix for builds with GCC 6/7/8 and CMake 2/3. It includes
a link to the issue where this is reported. For now, the Spack
package applies the patch to all releases >= 2.0.2
2019-02-07 20:58:27 -06:00
Justin Stanley
ec6de8326e
repeatmasker package: add variant for cross_match engine ( #10534 )
2019-02-07 16:53:30 -06:00
wspear
76feb0205d
New package: py-jupyterhub ( #10461 )
...
This package depends on both python 3.5+ and node-js which depends on
python 2.7/2.8 to build. Currently it can only be installed if the
node-js package's python dependency is manually removed, so node-js
will build with python found on the system rather than provided by
spack. Upcoming commits may allow spack to reconcile this
automatically.
2019-02-07 16:47:46 -06:00
Justin Stanley
ef89ae03bc
mirdeep2 package: make sure bins are executable ( #10515 )
2019-02-07 13:05:19 -06:00
mathsen
570af0c313
Trilinos package: update superlu-dist dependency ( #10511 )
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Trilinos master branch gets the latest superlu-dist (currently 6.1.0)
2019-02-07 12:58:45 -06:00
Massimiliano Culpo
58f1dc037a
log-parse: fix error message when no error lines are found ( #10543 )
2019-02-07 12:19:19 -06:00
Satish Balay
b8684b318c
petsc: petscvariables is used from user makefiles - so it should not have spack compilers listed ( #10365 )
2019-02-07 09:09:23 -06:00
Satish Balay
1d71a5ea57
petsc4py and libensemble: add @develop dependencies ( #10539 )
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* py-petsc4py: add @develop
* py-libensemble: add @develop dependency on py-petsc4py@develop
2019-02-07 09:06:31 -06:00
Satish Balay
0ad1b2a2c8
petsc@xsdk-0.2.0: fix sowing dependency ( #10535 )
2019-02-07 09:05:43 -06:00
Satish Balay
753fec39ae
xsdk@develop fixes ( #10521 )
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* xsdk@develop: switch trilinos from @master to @develop
* xsdk@develop: dtk - fix trilinos dependency on dtk.
- dkt-3.0 should be used with trilinos-12.4*
- dtk/master should be used with trilinos@develop
2019-02-07 09:05:14 -06:00
Justin Stanley
09a884322f
orthofiller: new package at 1.1.4 ( #10373 )
2019-02-07 10:22:36 +01:00
Gregory Lee
f0cb4580d1
fixed checksum ( #10393 )
2019-02-07 10:20:45 +01:00
Levi Baber
af7f1bb3ca
new package: perl logger simple ( #10509 )
2019-02-07 10:19:07 +01:00
Levi Baber
07b5a6a512
perl-file-homedir: new package ( #10533 )
2019-02-07 10:09:20 +01:00
Levi Baber
4679c11098
py-biopython: new version ( #10532 )
2019-02-07 10:08:45 +01:00
Matthias Diener
d4d402586c
cmake: add version 3.13.4 ( #10538 )
2019-02-07 09:15:32 +01:00
Justin Stanley
401d305f4e
phrap-crossmatch-swat: new package at 1.090518 ( #10529 )
2019-02-06 19:13:44 -06:00
Mario Melara
5bc71f07dd
Add x86_64 as target to cray platform ( #10369 )
...
Add x86_64 as a target for the Cray platform, and also designate it
as the default front_end target.
2019-02-06 17:49:00 -06:00
Owen Solberg
cdbaf8dfc5
mafft package: add version 7.407 ( #10488 )
2019-02-06 13:55:16 -06:00
Matthias Diener
6dbc1afe45
jdk package: add version 1.8.0_202 ( #10536 )
2019-02-06 13:54:02 -06:00
Levi Baber
0cf0fd47c8
New package: perl-object-insideout ( #10508 )
2019-02-06 13:53:33 -06:00
Matthias Wolf
5281403fb2
fmt package: fix cmake arguments ( #10500 )
2019-02-06 13:52:49 -06:00
Stephen Herbein
b028e99cac
py-black: add new package
2019-02-06 13:50:04 -06:00
Stephen Herbein
4e92974ed1
py-toml: add latest version and update checksums to sha256
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A version >= 0.9.4 required for py-black. Added latest, which is
0.10.0. Manually verified that the .tar.gz for v0.9.3 used to generate
the sha256 matched the previous md5.
2019-02-06 13:50:04 -06:00
Matthias Diener
bdabdb85ed
curl package: add version 7.63.0 ( #10516 )
2019-02-06 13:48:36 -06:00
Douglas Duckworth
d053eac538
py-multiqc: add version 1.7 ( #10520 )
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Added sha256 for py-multiqc as well as require py-matplotlib < v 3.0
2019-02-06 13:47:59 -06:00
Levi Baber
1a34bebe79
genemark et package: add version 4.38 ( #10519 )
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Also add heu_dir to bin/
2019-02-06 13:46:35 -06:00
Jon Rood
11c52c3bf7
Paraview package: update PYTHONPATH for dependents ( #10501 )
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Add vtkmodules directory to PYTHONPATH in Paraview for Trilinos
2019-02-06 12:45:14 -06:00
Daniel Topa
d9d75635c7
Add Python 3.7.2 updated ( #10531 )
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Also add versions 3.7.1, 3.6.8, 3.6.7, 3.6.6. Does NOT alter preferred version (2.7.15).
Supplants PR 10491 "Add Python 3.7.2" (https://github.com/spack/spack/pull/10491 ).
Verification builds on LANL Darwin:
**Intel Xeon**
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/general/opt/spack/linux-centos7-x86_64/gcc-4.8.5/python-3.7.2-d3p7vg6w2r563cpmwsmbgjbsiqc4j4fq
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/general/opt/spack/linux-centos7-x86_64/gcc-4.8.5/python-3.7.1-ibom6qj2z64egyaqz5htkwp5tr362il6
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/general/opt/spack/linux-centos7-x86_64/gcc-4.8.5/python-3.6.8-rkifc3c7mjgdglw27upiap767ut4wpkz
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/general/opt/spack/linux-centos7-x86_64/gcc-4.8.5/python-3.6.7-meuesn43twttt756exyzqgdhohjgipjq
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/general/opt/spack/linux-centos7-x86_64/gcc-4.8.5/python-3.6.6-qwnwme7otyuoqqudcglfmfy75t5npywl
**Arm**
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/arm/opt/spack/linux-rhel7-aarch64/gcc-4.8.5/python-3.7.2-qj27kzs4ttdqudm3hsi3pt57kv7lshco
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/arm/opt/spack/linux-rhel7-aarch64/gcc-4.8.5/python-3.7.1-io5eneirgvpegy3tosvp6wq5ndf7yjis
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/arm/opt/spack/linux-rhel7-aarch64/gcc-4.8.5/python-3.6.8-ej3vnvta2hbtrh7p5hokfqkuewxeqgsa
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/arm/opt/spack/linux-rhel7-aarch64/gcc-4.8.5/python-3.6.7-l3qnue72ewppn2wxza3w6l62l7ijlque
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/arm/opt/spack/linux-rhel7-aarch64/gcc-4.8.5/python-3.6.6-b55pdoqsr5bie4k5djd4vokm3nywhm45
**Power9**
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/power9/opt/spack/linux-rhel7-ppc64le/gcc-4.8.5/python-3.7.2-cicayvl7ki4tswoqlljsmcetwqcnoh3x
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/power9/opt/spack/linux-rhel7-ppc64le/gcc-4.8.5/python-3.7.1-7vej3zvnvyj2jvz5lnxhnts3ok2fcxbp
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/power9/opt/spack/linux-rhel7-ppc64le/gcc-4.8.5/python-3.6.8-xijljmdanyrybcx2rv65qshycmbrfv6c
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/power9/opt/spack/linux-rhel7-ppc64le/gcc-4.8.5/python-3.6.7-vqdhzg7c3xxxregqmzxsqqfzxt2hajvq
[+] /scratch/users/dantopa/new-spack/pr.new.python-3.7.2/power9/opt/spack/linux-rhel7-ppc64le/gcc-4.8.5/python-3.6.6-jf4bnsdwk3qjhtmvjjhblnrcz5dztfdq
2019-02-05
Signed-off-by: Daniel Topa <dantopa@lanl.gov>
Signed-off-by: Daniel Topa <dantopa@lanl.gov>
2019-02-06 12:03:25 -06:00
Nichols A. Romero
5394f0016a
CUDA compiler conflicts for Linux ( #10460 )
...
* CUDA compiler conflicts for Linux.
* Add Volta and Turing GPUs.
* Add mandatory conflict for Volta and Turing GPUs.
* Revert "CUDA compiler conflicts for Linux."
This reverts commit 7d4ff654ac53aad272c59e9f7f8bb3fbb32bcec4.
* Compiler conflicts introduced from previous commit into CUDA packaged moved and integrated into CUDA build system.
* More conversative with compiler conflicts for cuda 10.0.130, since I don't know what will happen with future cuda 10.x releases.
* Correct off-by-one errors in clang conflicts for x86_64 Linux.
* No restrictions on Apple Clang compiler until we are able to distinguish Xcode clang from github clang more easily. Note to fix this in the future.
* Change comment to clarify that github clang refers to LLVM clang.
* Fix and simplify index range.
* Fix overlapping conflicts for CUDA 10.0.130
* Removed extra ^cuda from conflict.
2019-02-06 17:09:52 +01:00
Valentin Clement (バレンタイン クレメン)
548e6736c4
Update CLAW package with version 1.2.1 ( #10528 )
2019-02-06 15:51:52 +01:00
Levi Baber
881ce3a5c2
perl-yaml: new package ( #10514 )
2019-02-06 15:47:54 +01:00
simo-tuomisto
1be258a587
wordnet: new package ( #10526 )
2019-02-06 15:38:48 +01:00
Denis Davydov
871e7f525c
xsdk: enable slepc in deal.ii (used to be a concretization error) ( #10218 )
2019-02-06 07:59:36 -06:00
Phil Carns
0b4a7dd04a
New package: PMDK ( #10453 )
2019-02-05 16:53:16 -06:00
Justin Stanley
003ebf8bab
r-wgcna: new package at 1.64-1 ( #10392 )
2019-02-05 09:00:25 -06:00
Axel Huebl
293e5c0781
MPark: Variant v1.4.0 ( #10512 )
...
Add the latest release of Michael Park's C++ Variant lib.
2019-02-05 15:18:19 +01:00
Phil Carns
de91d0badc
mercury package: add 'udreg' variant ( #10415 )
...
Faster and/or more robust in some cases on Cray platforms
2019-02-04 19:51:04 -06:00
Levi Baber
c7ecb66a2f
New package: perl-hash-merge ( #10506 )
2019-02-04 18:05:36 -06:00
Levi Baber
736a317e0c
New package: perl-clone-choose ( #10507 )
2019-02-04 18:04:55 -06:00
Christoph Junghans
514cf0c1f4
votca*: add v1.5 ( #10495 )
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* votca-tools: add v1.5
* votca-csg: add v1.5
* votca-xtp: add v1.5
* votca-ctp: add v1.5
2019-02-04 12:57:19 -07:00
Justin Stanley
478c3f5e8b
augustus: fix bam2wig auxprog build ( #10362 )
...
* augustus: fix bam2wig auxprog build
* augustus: few more changes to make new versions work
2019-02-04 10:36:10 -06:00
Matthias Diener
bca72036a8
tar: add version 1.31 ( #10485 )
2019-02-04 11:02:13 +01:00
Axel Huebl
17cc4f208f
Catch2: v2.6.0 ( #10490 )
...
Add the latest Catch2 release.
2019-02-04 10:52:47 +01:00
wspear
43fae5b807
New package: py-alembic ( #10436 )
2019-02-01 16:24:44 -06:00
