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2019-10-04llvm: update link to the document explaining codesign (#13047)Andreas Baumbach1-2/+2
Change-Id: I01242cbb43b0c62a659739a5d7e9d998dd27e794
2019-10-04Update the VTK-m package with better defaults and cuda corrections (#12850)Robert Maynard1-6/+16
2019-10-04superlu-dist: add openmp variant (#13052)Cody Balos1-0/+6
2019-10-04migrate: add zlib dependency. (#13039)Toyohisa Kameyama1-4/+8
* migrate: add zlib dependency. * flake8. * autotools related tools change to build.
2019-10-04LLVM 9.0.0 (#13050)Felix Thaler1-0/+16
2019-10-03fftw: simplify the recipe and make use of specific targets (#12889)Massimiliano Culpo1-123/+68
* fftw: grouped precisions in a single variant * fftw: simd options are now based on target features and not on variants * fftw: simplified computing the selected precisions
2019-10-03boost: Use gcc toolset for bootstrap with Fujitsu compiler. (#12876)t-karatsu1-1/+1
2019-10-03graphmap: add zlib dependency. (#13031)Toyohisa Kameyama1-0/+2
2019-10-03fastqvalidator: add zlib dependency and Removes erroneous deletes in ↵Toyohisa Kameyama2-0/+29
Chromosome (#13030)
2019-10-03hapcut2: add zlib dependency. (#13032)Toyohisa Kameyama1-0/+2
2019-10-03liblbxutil: Add zlib dependency. (#13033)Toyohisa Kameyama1-0/+1
2019-10-03metabat: Add zlib and ncurses dependency. (#13034)Toyohisa Kameyama1-0/+2
2019-10-03muse: add zlib dependency. (#13040)Toyohisa Kameyama1-0/+2
2019-10-03ngmlr: add zlib dependency. (#13041)Toyohisa Kameyama1-0/+2
2019-10-03fix ipykernel dependency, newer versions are python3-only (#13019)Andreas Baumbach1-2/+3
* fix ipykernel dependency, newer versions are python3-only * Update var/spack/repos/builtin/packages/py-ipykernel/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-ipykernel/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-10-03Update cctools to v7.0.18 (#13037)George Hartzell1-1/+2
- add version/checksum info for v7.0.18 - update checksum for v6.1.1 to use sha256, while I have the editor open...
2019-10-03updated manta checksum (#13038)Owen Solberg1-0/+1
2019-10-03Add py-flye 2.6 (#13025)Adam J. Stewart1-2/+13
2019-10-03Add EasyBuild 4.0.0 (#13024)Adam J. Stewart4-18/+41
* Add EasyBuild 4.0.0 * Update homepage, remove no longer required deps * Replace version ranges with fixed versions
2019-10-03Update ECP Data & Vis SDK packages (#13027)Chuck Atkins2-23/+22
* ecp-io-sdk: Add faodel and sort variants * ecp-viz-sdk: Re-enable catalyst, sort variants, turn on by default * ecp-io-sdk and ecp-viz-sdk: Fix dependency variants
2019-10-02Remove support for generating dotkit files (#11986)Massimiliano Culpo2-2/+1
Dotkit is being used only at a few sites and has been deprecated on new machines. This commit removes all the code that provide support for the generation of dotkit module files. A new validator named "deprecatedProperties" has been added to the jsonschema validators. It permits to prompt a warning message or exit with an error if a property that has been marked as deprecated is encountered. * Removed references to dotkit in the docs * Removed references to dotkit in setup-env-test.sh * Added a unit test for the 'deprecatedProperties' schema validator
2019-10-02added tasmanian version 7.0 to spack (#13003)Miroslav Stoyanov3-4/+52
2019-10-02New package: mapnik (#12708)Sinan1-0/+54
2019-10-02libint + cp2k: 2-stage build with 'tune' and 'fortran' variants (#12475)Tiziano Müller2-20/+128
* libint: switch to 2-stage build for 2.6.0+ * libint: add tune and fortran variants * cp2k: add support for libint >= 2.0 * cp2k: use pkg-config for linking libxc
2019-10-02cdhit: add zlib dependency. (#13015)Toyohisa Kameyama1-3/+7
* cdhit: add zlib dependency. * Add zlib variant.
2019-10-02denovogear: Add missing zlib depenbdency and fix open handling error. (#13017)Toyohisa Kameyama2-0/+15
2019-10-02cnpy: add zlib dependency. (#13016)Toyohisa Kameyama1-0/+2
2019-10-02Add cuda to paraview build. (#12996)Dan Lipsa1-1/+11
2019-10-02Singularity 3.4.1 still needs the makefile patch (#13008)George Hartzell1-1/+1
* Singularity 3.4.1 still needs the makefile patch * Constrain build patch to 3.4.0:3.4.1
2019-10-02new package: openldap (#12748)Sinan1-0/+92
* new package: openldap * fix mistake * remove template text * fix build error involving perl * flake8 * improvements * introduce multi valued variant for tls support * improve tls variant * overwrite build phase as opposed install * improve style
2019-10-02ants: missing zlib dependency and fix working directory in install. (#13010)Toyohisa Kameyama1-1/+6
2019-10-02breakdancer: missing ncurses dependency. (#13011)Toyohisa Kameyama1-0/+2
2019-10-02breseq: fix dependency and limit compiler version. (#13013)Toyohisa Kameyama1-1/+4
2019-10-02update py-jupyter-notebook to use the real releases (#13020)Andreas Baumbach1-13/+9
* github releases are not released versions, but from-source releases * they lack the mimification of the JS/CSS components and as such require node-js and npm, this conflicts with python@3: * this commit * drops the from-source dependencies on node-js and npm and * updates the checksums to the correct sha256 hashes of the pypi releases. The pypi-tarballs are different
2019-10-01ZFP: CMake Package (#12999)Axel Huebl4-38/+65
* ZFP: CMake Package ZFP is primarily build via CMake, which will have all install logic and configuration files generated. The 0.5.0 release did not support this yet, so we toss it. * Patch ADIOS1: ZFP 0.5.1+ support * ZFP: Expose all CMake variants
2019-10-01direnv: add info for version 2.20.0 (#13007)George Hartzell1-0/+1
2019-10-01new package: py-python-ldap (#12599)Sinan1-0/+24
* new package: py-python-ldap * fix dependency types * improvements * Update var/spack/repos/builtin/packages/py-python-ldap/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-python-ldap/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * add openldap dependency
2019-10-01New package: py-python-mapnik (#12786)Sinan1-0/+29
2019-10-01picard: add 2.20.8codeandkey1-0/+1
2019-10-01go-md2man: disable module-mode (#12985)Daryl W. Grunau1-0/+1
* go-md2man: disable module-mode * Update var/spack/repos/builtin/packages/go-md2man/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-10-01add singularity 3.4.1 (#12995)Eduardo Arango1-1/+3
* add singularity 3.4.1 Signed-off-by: ArangoGutierrez <eduardo@sylabs.io> * revert some changes Signed-off-by: ArangoGutierrez <eduardo@sylabs.io> * add maintainers list to pkg singularity Add @alalazo and me to the Singularity maintainers list * Update var/spack/repos/builtin/packages/singularity/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/singularity/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/singularity/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-10-01Dataspaces: Fix Fetch URL, Savanna Spec (#13001)Axel Huebl2-2/+2
2019-10-01GCC package: don't set CC etc. based on bin dir if it doesn't exist (#13000)Peter Scheibel1-0/+4
7bcb306 updated setup_environment in the GCC package to examine the bin/ directory to find alternatively-named instances of CC, but this failed to account for when GCC was being installed and failed when it attempted to list the not-yet-existing installation prefix. This commit updates the logic to skip this search if the bin/ directory doesn't exist.
2019-10-01libaio: fixed a condition that checks whether we are running on OS X (#12976)Massimiliano Culpo4-37/+52
* libaio: fixed a condition that checks whether we are running on OS X * libaio: simplified package by adding an explicit conflict for darwin * libaio: added information to the docstring * fio: added version 3.16, added conflict when using libaio, docstring * lvm2: conflict due to libaio dep, improved docstring, simpler install * mariadb: conflict due to libaio dep, improved docstring, version 10.4.7 * mariadb: the dependency on libaio is now conditional, removed conflict * mariadb: fixed a typo in previous commit Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * libaio: turned into a MakefilePackage
2019-10-01Kaldi package: add version 7637de7 and egs (#12911)Jimmy Tang1-0/+8
2019-10-01add new mercurial versions (#12997)Jeffrey Salmond1-1/+3
2019-10-01Update chapel to current (1.19 -> 1.20) (#12991)Christopher Edsall1-1/+2
2019-10-01ADIOS2: 2.5.0 (#12987)Axel Huebl1-0/+1
Add the latest ADIOS2 release, v2.5.0 .
2019-10-01hypre: add version 2.18.0 (#12992)Satish Balay1-0/+1
2019-10-01add adios2 dependency and configuration for newest OpenFOAM (#12993)Mark Olesen1-4/+11
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