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2019-10-12checksums: fix packages that needed new download locationsTodd Gamblin41-99/+83
Some packages had incorrect checksums because they needed to be downloaded from a new place or the package needed tweaking somehow. These packages to sha256 and the new checksums have been verified by fetching over https.
2019-10-12packages: remove packages that are no longer fetchableTodd Gamblin10-425/+0
These packages have either been retired or are no longer retrievable from any site we can find. They also aren't needed by other packages, so we're removing them from Spack. - allinea-reports: is now arm performance reports - globus-toolkit: retired, globus is now a paid service. - uberftp: used globus-toolkit, github site is retired. - mpiblast: site is dead; no longer fetchable. - py-mxnet: site and github are gone - soap2, soapindel, soapsnp: site is gone, unfetchable - arlecore: could not verify md5 securely
2019-10-12checksums: Remove or fix up unfetchable or unverifiable md5 versionsTodd Gamblin94-211/+37
This commit either removes remaining md5 checksums, or it replaces them with sha256 checksums verified by fetching over https.
2019-10-12checksums: use sha256 checksums everywhereTodd Gamblin2344-5768/+5742
We'd like to use a consistent checksum scheme everywhere so that we can: a) incorporate archive checksums into our specs and have a consistent hashing algorithm across all specs. b) index mirrors with a consistent type of checksum, and not one that is dependent on how spack packages are written. - [x] convert existing md5, sha224, sha512, sha1 checksums to sha256
2019-10-11Add adiak package, version 0.1.1Matthew LeGendre1-0/+38
2019-10-11Autotools build system to patch config.guess based on a range checkMassimiliano Culpo1-2/+3
2019-10-11Fixed options to compile generic code on ppc64 and ppc64leMassimiliano Culpo1-0/+2
2019-10-11Fix python3 errors from string and byte concatenation (#13141)Patrick Gartung2-32/+47
2019-10-11Fixed constraints in recipes for packages that depends on fftw (#13125)Massimiliano Culpo4-5/+6
2019-10-10Fix f18 install method (#13123)Nichols A. Romero1-6/+2
* Install method is broken and not needed. Built-in install method works fine. Just delete. * Change version to master.
2019-10-10tests: cleanup config:build_stage handling (fixes #12651, #12798)Tamara Dahlgren5-190/+119
2019-10-10Add support for nested "overrides" scopes.Tamara Dahlgren2-2/+72
2019-10-10Added NEON to the list of features required for the aarch64 familyMassimiliano Culpo2-0/+7
Both floating-point and NEON are required in all standard ARMv8 implementations. Theoretically though specialized markets can support no NEON or floating-point at all. Source: https://developer.arm.com/docs/den0024/latest/aarch64-floating-point-and-neon On the other hand the base procedure call standard for Aarch64 "assumes the availability of the vector registers for passing floating-point and SIMD arguments". Further "the Arm 64-bit architecture defines two mandatory register banks: a general-purpose register bank which can be used for scalar integer processing and pointer arithmetic; and a SIMD and Floating-Point register bank". Source: https://developer.arm.com/docs/ihi0055/latest/procedure-call-standard-for-the-arm-64-bit-architecture This makes customization of Aarch64 with no NEON instruction set available so unlikely that we can consider them a feature of the generic family.
2019-10-10ArchSpec: fix constraint satisfaction for targetsMassimiliano Culpo2-0/+9
fixes #13111 Due to a missing case we were treating a single target that was not equal to the one we were comparing to as a range open on the right.
2019-10-10Add patches and missing dependency to bash (#13084)Adam J. Stewart1-1/+22
2019-10-10Add mpfr 4.0.2 (#13091)Adam J. Stewart1-5/+8
2019-10-10Add tar 1.32 (#13099)Adam J. Stewart1-3/+11
2019-10-10sublime-text: New version, adapt install process (#13074)Jannek Squar1-6/+8
* Added new version, reworked installation process * Removed explicit addition to PATH
2019-10-10Add expat 2.2.9 (#13085)Adam J. Stewart1-5/+7
2019-10-10Add gettext 0.20.1 (#13086)Adam J. Stewart1-1/+2
2019-10-10Add isl 0.21 (#13087)Adam J. Stewart1-1/+3
2019-10-10Add libiconv 1.16 (#13088)Adam J. Stewart1-1/+2
2019-10-10Add libsigsegv 2.12 (#13089)Adam J. Stewart1-3/+4
2019-10-10Add latest openssl releases (#13092)Adam J. Stewart1-2/+5
2019-10-10Add latest Perl releases (#13093)Adam J. Stewart1-4/+5
2019-10-10Add pkgconf 1.6.3 (#13094)Adam J. Stewart1-4/+6
2019-10-10Add readline 8.0 (#13095)Adam J. Stewart1-1/+3
2019-10-10gdbm: https -> http (#13096)Adam J. Stewart1-1/+2
2019-10-10ncurses: https -> http (#13097)Adam J. Stewart1-1/+2
2019-10-10Add sqlite 3.30.0 (#13098)Adam J. Stewart1-0/+1
2019-10-10hypre: add compatibility patch for petsc/mfem build failures (#13116)Satish Balay2-0/+13
2019-10-10Added new versions to py-tornado (#13080)wspear1-1/+3
* Added new versions to py-tornado * Removed all but the latest new version
2019-10-10py-line-profiler: add 2.1.2, re-run cython if needed (#13102)Matthias Wolf1-1/+14
* py-line-profiler: add 2.1.2, re-run cython if needed See rkern/line_profiler#166. * Update var/spack/repos/builtin/packages/py-line-profiler/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-10-09libfabric: new upstream release 1.8.1 (#13053)Rob Latham1-0/+2
2019-10-09Added latest versions of SQLAlchemy 1.3.X, 1.2.X and 1.1.X (#13078)wspear1-1/+10
* Added latest versions of SQLAlchemy 1.3.X, 1.2.X and 1.1.X * Added missing dependencies
2019-10-09Added latest versions to py-traitlets (#13079)wspear1-1/+4
* Added latest versions to py-traitlets * Added missing dependencies
2019-10-09Add new versions of py-maestrowf (#13081)Francesco Di Natale1-2/+7
* Addition of 1.1.3 and 1.1.4 * Addition of conditional enum-34 installation. * Update var/spack/repos/builtin/packages/py-maestrowf/package.py Addition of versioning for pyyaml. Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Addition of enum34 back to older versions 1.1.3 and below.
2019-10-09qt: Add 5.13.1 and missing zlib flags (#13109)Michael Kuhn1-1/+5
2019-10-09Buildcache: pass string.encode('utf-8') for old_dir and new_dir to ↵Patrick Gartung1-1/+2
replace_prefix_bin. (#13114) This should fix a Python3 error from concatenating strings and bytes.
2019-10-09mysql: Add missing dependencies (#12717)Michael Kuhn1-2/+5
This also changes the default for cxxstd from 98 to 14 because (at least) newer versions of mysql do not compile with 98 (tested with gcc@9).
2019-10-09"No Spack mirror configured": demoted the warning to a debug message (#13082)Massimiliano Culpo1-1/+1
fixes #12010
2019-10-08perl-perlio-gzip: add zlib dependency. (#13060)Toyohisa Kameyama1-0/+6
2019-10-08psmc: add zlib dependency. (#13061)Toyohisa Kameyama1-0/+2
2019-10-08seqprep: add zlib dependency. (#13062)Toyohisa Kameyama1-0/+2
2019-10-08tabix: add zlib dependency. (#13064)Toyohisa Kameyama1-0/+1
2019-10-08Added py-certipy package. Dependency of py-jupyterhub. (#13068)wspear1-0/+19
* Added py-certipy package. Dependency of py-jupyterhub. * Changed url to pypi
2019-10-08QMCPACK Oct2019 fix buglets (#13069)Nichols A. Romero1-5/+11
* Support different CMake build types correctly. * LIBXML2 variables no longer used. * Fix E501 as part of https://github.com/spack/spack/pull/13069
2019-10-08Fixed hash of version .0.5 and added latest version (.0.7.1) (#13077)wspear1-2/+3
2019-10-08Build older openfoam (#13071)Mark Olesen2-19/+18
* adjust building of OpenFOAM 1806 and earlier - spack now unpacks into spack-src, but earlier OpenFOAM versions still expect particular directory names (eg, OpenFOAM-v1806). Resolve by creating a symlink during patching. * replace openfoam 1806 patch with URL version
2019-10-08Added py-pamela package. Dependency of py-jupyterhub. (#13075)wspear1-0/+17
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