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2019-02-26Add libhio v1.4.1.3, 1.4.1.1 (#10699)Daniel Topa1-2/+4
- Switch all libhio tarball listings to sha256 checksums - Correct typo in alert message in /lib/spack/spack/util/module_cmd.py: fucntion -> function https://github.com/hpc/libhio/releases Released 2019-02-01 Verification builds on LANL Darwin: **Intel Xeon** Architecture: x86_64 CPU op-mode(s): 32-bit, 64-bit Byte Order: Little Endian CPU(s): 40 On-line CPU(s) list: 0-39 Thread(s) per core: 2 Core(s) per socket: 10 Socket(s): 2 NUMA node(s): 2 Vendor ID: GenuineIntel CPU family: 6 Model: 63 Model name: Intel(R) Xeon(R) CPU E5-2660 v3 @ 2.60GHz Stepping: 2 CPU MHz: 1198.779 CPU max MHz: 3300.0000 CPU min MHz: 1200.0000 BogoMIPS: 5193.70 Virtualization: VT-x L1d cache: 32K L1i cache: 32K L2 cache: 256K L3 cache: 25600K NUMA node0 CPU(s): 0-9,20-29 NUMA node1 CPU(s): 10-19,30-39 Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt aes xsave avx f16c rdrand lahf_lm abm cpuid_fault epb invpcid_single pti intel_ppin tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 avx2 smep bmi2 erms invpcid cqm xsaveopt cqm_llc cqm_occup_llc dtherm ida arat pln pts ` [+] /scratch/users/dantopa/new-spack/strawman.pr.libhio/opt/spack/linux-centos7-x86_64/gcc-4.8.5/libhio-1.4.1.3-s4fnmesfp65trhks5qi3it5p73ssfpsp [+] /scratch/users/dantopa/new-spack/strawman.pr.libhio/opt/spack/linux-centos7-x86_64/gcc-4.8.5/libhio-1.4.1.2-fkgh5vqpijvwqywffmokgmsglqxwfrtl ` **Arm** Architecture: aarch64 Byte Order: Little Endian CPU(s): 256 On-line CPU(s) list: 0-255 Thread(s) per core: 4 Core(s) per socket: 32 Socket(s): 2 NUMA node(s): 2 Model: 0 BogoMIPS: 400.00 L1d cache: 32K L1i cache: 32K L2 cache: 256K L3 cache: 32768K NUMA node0 CPU(s): 0-127 NUMA node1 CPU(s): 128-255 Flags: fp asimd evtstrm aes pmull sha1 sha2 crc32 atomics cpuid asimdrdm ` [+] /scratch/users/dantopa/new-spack/strawman.pr.libhio/opt/spack/linux-rhel7-aarch64/gcc-4.8.5/libhio-1.4.1.3-q6nnwiy6bi7ktnghdsngwamom23zpmgy [+] /scratch/users/dantopa/new-spack/strawman.pr.libhio/opt/spack/linux-rhel7-aarch64/gcc-4.8.5/libhio-1.4.1.2-y6nwovff3qbdy242zc4x2toloz6xpcvm ` 2019-02-25 Signed-off-by: Daniel Topa <dantopa@lanl.gov>
2019-02-25libEnsemble package: add v0.4.1 (#10688)Stephen Hudson1-2/+4
Also add v0.4.0 and remove version lower bound on petsc4py
2019-02-25slurm: Add PMI support (#10683)Michael Kuhn1-0/+11
- Add support for pmix (optional) - Install pmi2 header and library
2019-02-25mpiFileUtils v0.9 (#10676)Elsa Gonsiorowski, PhD1-5/+65
* working on updating to cmake * generic package, any ver of cmake * install for autotools or cmake
2019-02-25ACTS: new package (#10600)Hadrien G1-0/+81
2019-02-25py-unicycler: new package (#7727)Sinan1-0/+35
2019-02-24dealii: fix default of cuda_arch (#10690)Denis Davydov1-1/+1
2019-02-23Python: optional dependencies and post-installation tests (#10335)Adam J. Stewart15-88/+336
* Add post-installation tests to Python package * libbsd does not build on macOS * Make Python dependencies optional * Add readline dep, remove ncurses patch, fix autoreconf
2019-02-22beast-tracer: new package at 1.7.1 (#10652)Justin Stanley2-0/+32
2019-02-22stacks package: add version 2.3b (#10653)Levi Baber1-0/+3
2019-02-22cdo package: add version 1.9.6 (#10654)Brian Spilner1-0/+1
2019-02-22automake package: add version 1.13.4 (#10662)Geoffrey Oxberry1-5/+6
Also replace MD5 hashes with SHA256 hashes for older versions
2019-02-22gmap-gsnap package: Add version 2019-02-15 (#10677)Eric Martin1-0/+1
2019-02-22ADIOS package: add version 2.3.1 (#10666)Axel Huebl1-11/+5
Update older md5 checksums to sha256. Require CMake >= 3.6.0 (updated from 3.5.0). Remove some third-party depends_on statements (which were commented out before).
2019-02-21Gaudi package: new version + xenv bugfix (#10668)Hadrien G3-15/+23
Extract implicit xenv dependency into a new package and add it as an explicit dependency. Update Gaudi to explicitly depend on older versions of xenv rather than the latest develop because that conflicts with Spack's compiler wrappers.
2019-02-21mono package: add new versions (#10670)cedricchevalier191-0/+5
2019-02-21UCX package: add version 1.5.0 (#10678)Daniel Topa1-0/+1
2019-02-21gcc package: skip nvptx_install for gcc~nvptx (#10672)Daryl W. Grunau1-1/+3
The nvptx installation support phase (added in 040b658) was always running for gcc regardless of whether +nvptx was enabled. This removes the "@when" syntax (which apparently is not working) and adds a check inside of the "nvptx_install" function to bail out if +nvptx is not enabled.
2019-02-21add charliecloud 0.9.7 (#10661)Jordan Ogas1-0/+1
2019-02-20gcc: add nvptx offload capability (#9406)Levi Baber1-0/+101
Add optional support for Nvidia PTX
2019-02-20Download GNU packages from mirrors (Part 2) (#10555)Adam J. Stewart4-4/+4
2019-02-20uvw: new package (#10645)Massimiliano Culpo1-0/+36
2019-02-20xxhash: edit prefix in Makefile for macOS (#10606)Ben Morgan1-2/+3
On macOS, the build of libxxhash is performed by a bare `make` launched by `MakePackage`s default `build` phase. As `prefix` is not set at this point, the library gets compiled with a hard-coded install name of `/usr/local/libxxhash.dylib`. Downstream clients, in the tested case Root, will then fail to build as the install name is incorrect. Move setting of `prefix` from `install` to `edit` so that it propagates to subsequent `build` and `install` phases.
2019-02-19new package: libyaml (#10634)Isaac Whitfield1-0/+39
2019-02-19Quantum ESPRESSO: HDF5 update (#10607)Nichols A. Romero1-11/+26
* QE hdf5 is now a multi-valued variant. Update conflicts accordingly. * Update dependencies for hdf5 multi-valued variant. Bug fix: high-level hdf5 library needs to be a hard dependecy. * Support for HDF5 serial interface. Note that this is not supported in QE autoconf, but will be fixed in the next official release.
2019-02-19nix: new package added (#9171)Tristan Carel3-0/+115
2019-02-19update IOR package (#10595)Rob Latham1-2/+3
- new GitHub home - new 3.2 release
2019-02-19cquery: new package (#10636)Andreas Baumbach1-0/+24
2019-02-19connect-proxy: new package (#10635)Andreas Baumbach1-0/+20
2019-02-19mvapich2: Improve package (#10642)Michael Kuhn1-1/+7
- Add support for nemesis:ofi netmod - Add missing pkg-config and libxml2 dependencies
2019-02-18Add comments and version (#10592)Elizabeth Fischer1-1/+4
2019-02-18git-lfs: add version 2.7.0 (#10631)Matthias Diener1-0/+1
2019-02-18openPMD-api: mpi4py support (#10616)Axel Huebl1-4/+5
Refactor dependencies, increase new min versions, add mpi4py variant.
2019-02-18NLohmann-JSON: v3.5.0 (#10615)Axel Huebl1-0/+1
Add the latest bugfix release.
2019-02-18Catch2: v2.6.1 (#10613)Axel Huebl1-0/+1
add the lastest bugfix release of Catch2
2019-02-17Update CUDA support in QMCPACK (#10587)Nichols A. Romero1-3/+6
* Support in QMCPACK for CUDA_ARCH flag. * No need to have explicit CUDA variant anymore. * Internal QMCPACK CMake assumes a minimum GPU architecture if none is provided.
2019-02-16Fix plural typo in ROOT package (#10614)Hadrien G1-1/+1
2019-02-14new variant: simmodsuite for pumi (#8775)Cameron Smith1-1/+25
2019-02-14cp2k is now a MakefilePackage (#10570)Massimiliano Culpo4-251/+269
* cp2k: archive the Makefile after a successful installation * cp2k: all checksums are now sha256 * libint: all checksums are now sha256 + added versions 2.4.X * libxc: all checksums are now sha256 + added version 4.3.2 * cp2k: os.path.join instead of join_path + simplified openmp flags * cp2k: turned into a MakefilePackage * cp2k: refactored edit method so that Makefile writing happens last
2019-02-13pythia6: fix input verification issue and example data checksum. (#10563)Chris Green1-3/+2
* pythia6: fix issue validating integer input. * pythia6: account for apparent update of example data file.
2019-02-13xrootd: allow specification of C++ standard. (#10577)Chris Green1-1/+39
* xrootd: add cxxstd variant. * xrootd: support for recent and upcoming versions.
2019-02-13icu4c: Add cxxstd variant (#10552)Ben Morgan1-0/+15
* icu4c: Add cxxstd variant For versions supported in Spack, ICU4C defaults to the C++11. Provide a variant to default to this, plus options for C++14 and 17 if dependees require for ABI compatibility. * icu4c: cxxstd variant cannot be multi
2019-02-13Add Gaudi and RELAX packages (#9194)Hadrien G3-0/+118
* Add a RELAX package * Add a Gaudi package
2019-02-13Add a DD4hep package (#9208)Hadrien G1-0/+43
2019-02-13Add new ROOT release, move to SHA-256 checksums (#10583)Hadrien G1-13/+15
2019-02-13Updated Geant4 and dependencies clhep and vecgeom to use cxxstd= variant ↵Patrick Gartung17-50/+509
(#10518) * Updated Geant4 and dependencies clhep and vecgeom to use cxxstd= variant so that it is applied consistently. * Make standalone geant4 data packages that are used when data is not installed with geant4. This allows installing the data files are externals that can be common to many compiler version. * move geant4 data package dependencies to umbrella package geant4-data
2019-02-13Dynamic library/include paths (#8136)Peter Scheibel1-4/+0
Fixes #7855 Closes #8070 Closes #2645 When searching for library directories (e.g. to add "-L" arguments to the compiler wrapper) Spack was only trying the "lib/" and "lib64/" directories for each dependency install prefix; this missed cases where packages would install libraries to subdirectories and also was not customizable. This PR makes use of the ".headers" and ".libs" properties for more-advanced location of header/library directories. Since packages can override the default behavior of ".headers" and ".libs", it also allows package writers to customize. The following environment variables which used to be set by Spack for a package build have been removed: * Remove SPACK_PREFIX and SPACK_DEPENDENCIES environment variables as they are no-longer used * Remove SPACK_INSTALL environment variable: it was not used before this PR
2019-02-13add latest version of pixman (#10580)Peter Doak1-2/+3
2019-02-13Eigen package: deactivate some dependencies (#10572)Hadrien G1-7/+10
Set defaults in eigen package to omit typically-unused dependencies
2019-02-13Update lbann sw stack dependencies (#10579)Brian Van Essen3-8/+5
* Added a package for the MDAnalysis toolkit. * Updated LBANN, Hydrogen, and Aluminum to not require CUDA-aware MPI even when using CUDA. Fixed small bugs within both LBANN and Hydrogen packages. Added requirements for breathe and cereal to LBANN. * Update use case for doc dependencies. * Cleaning up some of the LBANN software stack dependencies.