zhangyiss/spack
1
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases Wiki Activity
11,944 Commits 246 Branches 186 Tags
18e41f9959180ad32f18021f127c7884dda636ec
Commit Graph

11944 Commits

This Branch
This Branch
All Branches
Author SHA1 Message Date
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) 
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) 
1137b18 removed the -s option from spack such that to see a stack
trace you must pass the --stacktrace option. The bug report templates
were not updated accordingly.
 2019-02-07 21:06:57 -06:00
Piotr Luszczek
f093515002 netlib-scalapack package: add CMake test patch (#10452) 
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) 
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) 
* 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) 
* 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 
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) 
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) 
Also add heu_dir to bin/
 2019-02-06 13:46:35 -06:00
Jon Rood
11c52c3bf7 Paraview package: update PYTHONPATH for dependents (#10501) 
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) 
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 7d4ff654ac.

* 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) 
* 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
wspear
ec7c7332c0 New package: py-prometheus-client (#10440) 2019-02-01 16:23:59 -06:00
Nicholas Labello
8c87a937e1 plumed package: add versions 2.4.4 and 2.5.0 (#10496) 2019-02-01 16:21:55 -06:00