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2019-07-23added relion 3.0.7 - removed deprecated versions (#12101)Douglas Duckworth1-7/+2
* relion - added v 3.0.7 and removed deprecated versions that have inferior performance * relion 3.0.7 does require cuda 9 or above
2019-07-23isaac-server: Don't add -march=native on ARM and gcc 5.x or before. (#12042)Toyohisa Kameyama2-0/+19
2019-07-23nanoflann: Don't add -mtune=native on ARM and gcc 5.x (#12093)Toyohisa Kameyama1-0/+4
2019-07-23Quantum Espresso Update 2019 (#12098)Nichols A. Romero1-3/+3
* Add support for QE 6.4.1 * QE 6.3. backports branch no longer relevant. * List QE develop first.
2019-07-23Add EFA fabric to libfabricJimmie Lin1-1/+2
2019-07-23ioapi: add version 3.2 (#12088)Pariksheet Nanda1-0/+44
* ioapi: add version 3.2 * ioapi: unwrap version checksum; it's exempt from line length QA * ioapi: drop overridden build(); it's the same as the default
2019-07-23ncurses: remove TERMINFO from build env (#12086)Greg Becker1-0/+3
2019-07-23font-util: add missing autoconf automake dependencies (#12053)Marco Comparato1-0/+3
2019-07-22Add UCX 1.6.0 (#12089)Daniel Topa1-0/+1
https://github.com/openucx/ucx/releases/tag/v1.6.0 Released 2019-07-17 Verification builds on LANL Darwin x86_64 and Power9: dantopa@cn2037:pr-update-ucx.spack $ date Mon Jul 22 17:04:14 MDT 2019 dantopa@cn2037:pr-update-ucx.spack $ pwd /scratch/users/dantopa/repos/spack/pr-update-ucx.spack dantopa@cn2037:pr-update-ucx.spack $ spack find -ldf ucx ==> 2 installed packages -- linux-centos7-x86_64 / gcc@4.8.5 ----------------------------- w7fp4n6 ucx@1.6.0%gcc tt2hkol ^numactl@2.0.12%gcc srhy7ry ^rdma-core@20%gcc kvgvhpv ^libnl@3.3.0%gcc -- linux-rhel7-ppc64le / gcc@4.8.5 ------------------------------ cji3ce7 ucx@1.6.0%gcc pmgndwh ^numactl@2.0.12%gcc qymrwx6 ^rdma-core@20%gcc 2263pm5 ^libnl@3.3.0%gcc Signed-off-by: Daniel Topa <dantopa@lanl.gov>
2019-07-22scons: add version 3.1.0 (#12084)Matthias Diener1-0/+1
2019-07-22cmake: Move cxx11 flags for fujitsu into the flag_handler method (#12056)Chuck Atkins1-5/+10
* cmake: Move cxx11 flags for fujitsu into the flag_handler method * cmake: sanitization and error checking in flag_handler * cmake: Fix fujitsu flag check from 'fc' to 'fj'
2019-07-22gcc: support without command line tools (#11040)Denis Davydov1-1/+7
2019-07-22openjdk (#10446)zschulte1-2/+18
* openjdk * Removing preferred from latest and adding a few lines for readability. * Remove bad whitesapce * removing formatting changes * stable url for openjdk 1.8 * remove extra blank line * actual binary
2019-07-22tealeaf: Don't add -march=native on ARM and gcc 5.x or before. (#12080)Toyohisa Kameyama1-0/+6
2019-07-22jdk: Add JDK 12.0.2_10 (#12081)Hironori-Yamaji1-0/+2
2019-07-21hpctoolkit: add version gpu and variant cuda (#12068)Mark W. Krentel1-6/+30
Add version for 'gpu' and variant for 'cuda'. These are currently available from the 'master-gpu' branch. * hpctoolkit: add version gpu and variant cuda * The gcc >= 4.8.x requirement only applies for dyninst >= 10.x.
2019-07-21libsharp: Don't add -march=native on ARM (#12064)Toyohisa Kameyama3-1/+32
* libsharp: Don't add -march=native on ARM * Add preferred=True to version 1.0.0.
2019-07-20hpcviewer: add version 2019.07 (#12067)Mark W. Krentel2-2/+8
ibm-java: fix the URL to only use a machine type that ibm-java supports so that 'spack info' doesn't report a non-existent URL on platforms that it doesn't support.
2019-07-19Package inheritance: Find patch files defined in parent classes using MRO ↵Greg Becker1-0/+11
(#12051) Fixes #8908, 11844 Use Python MRO to find patch files from parent classes.
2019-07-19font-util package: add autoconf/automake build deps (#12071)Peter Scheibel1-0/+3
Fixes #12026 These are required on some systems
2019-07-19leveldb: add 1.22 (#12044)Michael Kuhn1-9/+56
2019-07-19libxpm: cope with system gettext if configured. (#10881)Chris Green1-2/+6
* If gettext is installed in the system it won't be in the spec tree.
2019-07-18stacks: update view management for multiple/combinatorial viewsGregory Becker2-2/+2
This adds notion of a default view, other views in environments
2019-07-18cmake: add version 3.15.0 (#12058)Matthias Diener1-0/+1
2019-07-18Add master version to sklearn (#12057)Adam J. Stewart1-3/+16
2019-07-18pkg PRRTE: added version 1.0.0 (#12054)Matthieu Dorier1-1/+2
2019-07-18added version 3.1.3 of PMIx (#12055)Matthieu Dorier1-1/+2
2019-07-18Workaround for #9149 (#12050)Adam J. Stewart1-9/+12
2019-07-18py-mlxtend: new package at 0.16.0 (#12039)Justin S1-0/+23
* py-mlxtend: new package at 0.16.0 * py-mlxtend: fix dependencies
2019-07-17update web site and git url for BMI package (#12036)Phil Carns1-2/+2
2019-07-17add charliecloud v0.10 (#12046)Jordan Ogas1-0/+1
2019-07-17Fix scikit-learn build with Apple clang (#11496)Adam J. Stewart4-14/+111
* Fix scikit-learn build with Apple clang * Update compiler unit tests * Fix unit tests * Fix OpenMP dep * recursive=True no longer necessary * Add myself as a maintainer * Specify which versions require OpenMP * Typo fixes * LLVM-OpenMP is the correct dependency, no OMPT * Flake8 fix * Undo Apple Clang OpenMP flag change, split into a separate PR
2019-07-17libjpeg-turbo: set compiler flags with CMake args (#11938)t-karatsu1-0/+18
Later versions of libjpeg-turbo build with CMake; to build with user-specified cflags, the user must supply these to CMake as -DCMAKE_C_FLAGS (Spack's typical approach of injecting these flags into the compiler wrapper invocation is insufficient in this case). Currently libjpeg-turbo cannot be implemented as a CMakePackage (and thereby take advantage of the flag_handler implementation it provides) because not all versions of libjpeg-turbo use CMake, so this adds a custom implementation of flag_handler and flags_to_build_system_args to libjpeg-turbo.
2019-07-17Add support for .txz and .tbz2 file extensions (#12048)Adam J. Stewart2-8/+4
2019-07-17kim-api 2.1.0 (#12041)Ryan S. Elliott1-1/+2
2019-07-17package opencoarrays: add new version: 2.7.1 (#12043)brietzke1-0/+1
2019-07-17Cmake/add option for fujitsu compiler (#11839)t-karatsu1-0/+6
* cmake: change c++ spec when building with Fujitsu compiler. * cmake: define cxxflags using a Fujitsu compiler's method. * cmake: Add condition of whether to add cxx11 option.
2019-07-16Added url_for_version to python/package.py (#12040)Shane R. Spencer1-0/+4
2019-07-16py-pandas: add 0.24.2 (#12038)Justin S1-0/+1
2019-07-16r: set FPICFLAGS for compilers except 'gcc' (#12033)Hironori-Yamaji1-0/+4
2019-07-16package mutationpp: add new version: 1.0.0 (#12035)brietzke1-0/+1
2019-07-15qt: fix patch checksum (#12024)Michael Kuhn1-1/+1
It seems that GitHub's output changed slightly for this patch (one more letter for both short hashes on the index line), probably due to the number of objects in the repository.
2019-07-15binutils: Adding Clang to narrowing conversion error workaround (#12029)Brian Homerding1-1/+2
2019-07-15Add JUBE package definition (#12023)Marc-Andre Hermanns1-0/+41
* Add JUBE package definition * Fixing flake8 errors
2019-07-15Added HPX version 1.3.0. (#12025)Severin Strobl1-0/+1
2019-07-15boost: use clang toolset when building with Fujitsu compiler. (#11827)t-karatsu1-1/+2
2019-07-15Add auto-dispatch specification to Intel packages (#11697)Glenn Johnson2-0/+26
This PR adds the ability to specify the auto-dispatch targets that can be used by the Intel compilers. The `-ax` flag will be written to the respective compiler configuration files. This ability is very handy when wanting to build optimized builds for various architectures. This PR does not set any optimization flags, however.
2019-07-15binutils: added '-Wno-narrowing' to CXXFLAGS when using fj compiler via ↵Hironori-Yamaji1-0/+8
flag_handler (#11922) FJ compiler fails for older versions w/o '-Wno-narrowing' flag.
2019-07-15packages: computation.llnl.gov is now computing.llnl.gov (#12013)Todd Gamblin14-23/+23
2019-07-15py-basemap: install without egg (#11961)Milton Woods1-1/+2
* py-basemap: avoid creating egg during build, for compatibility with mpl_toolkits * py-basemap: not ready for py-pyproj@2 onwards
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