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2020-06-24quantum-espresso: fix for scalapack with openmpi (#17179)Nichols A. Romero1-1/+7
2020-06-24gromacs: fix fftw and update cmake dependencies (#17226)Gilles Gouaillardet1-1/+4
* gromacs: fix fftw dependency Only depend on fftw+mpi when gromacs is built with mpi, and depend on fftw~mpi otherwise. * gromacs: fix cmake dependency master branch depends on cmake 3.11 (as specified in CMakeLists.txt cmake dependency is also bumped to 3.11 when fj compilers are used in order to fix OpenMP detection.
2020-06-24perl: added v5.30.3 and v5.32.0 (#17220)Michael Kuhn1-1/+5
perl.org still recommends 5.30.3, so keep it as the preferred version.
2020-06-24quantum-espresso: correctly cross-compile code for Cray and BG/Q (#17180)Nichols A. Romero1-0/+13
2020-06-23Enable mysql for macos (#17177)victorusu1-1/+7
I get the following error message, if I do not use editline from the system. ``` >> 3090 Undefined symbols for architecture x86_64: 3091 "_tgetent", referenced from: 3092 _terminal_set in libedit.a(terminal.c.o) 3093 "_tgetflag", referenced from: 3094 _terminal_set in libedit.a(terminal.c.o) 3095 "_tgetnum", referenced from: 3096 _terminal_set in libedit.a(terminal.c.o) ... 3110 _terminal_insertwrite in libedit.a(terminal.c.o) 3111 _terminal_clear_EOL in libedit.a(terminal.c.o) 3112 _terminal_clear_screen in libedit.a(terminal.c.o) 3113 _terminal_beep in libedit.a(terminal.c.o) 3114 ... 3115 ld: symbol(s) not found for architecture x86_64 ```
2020-06-23revocap-refiner: updated package (#17192)Michio Ogawa1-22/+17
2020-06-23dock: new package at 6.9 (#17138)Justin S1-0/+59
2020-06-23strace: added v5.3 to v5.7 (#17193)darmac1-0/+5
2020-06-23r-spatialEco: added v1.3-2 (#17194)Amjad Kotobi1-0/+1
2020-06-23parallel-netcdf: add missing perl dependency (#17156)Michael Kuhn1-0/+2
parallel-netcdf's buildiface script needs perl during build.
2020-06-23swfft: Add patch to make it build (#17196)Mosè Giordano2-0/+15
2020-06-23py-gsd: new package at v1.9.3 (#17200)Jen Herting1-0/+25
Co-authored-by: Andrew Elble <aweits@rit.edu>
2020-06-23OpenMPI: added v4.0.4 (#17202)Howard Pritchard1-1/+2
Bug fix release: 4.0.4 -- June, 2020 ----------------------- - Fix a memory patcher issue intercepting shmat and shmdt. This was observed on RHEL 8.x ppc64le (see README for more info). - Fix an illegal access issue caught using gcc's address sanitizer. Thanks to Georg Geiser for reporting. - Add checks to avoid conflicts with a libevent library shipped with LSF. - Switch to linking against libevent_core rather than libevent, if present. - Add improved support for UCX 1.9 and later. - Fix an ABI compatibility issue with the Fortran 2008 bindings. Thanks to Alastair McKinstry for reporting. - Fix an issue with rpath of /usr/lib64 when building OMPI on systems with Lustre. Thanks to David Shrader for reporting. - Fix a memory leak occurring with certain MPI RMA operations. - Fix an issue with ORTE's mapping of MPI processes to resources. Thanks to Alex Margolin for reporting and providing a fix. - Correct a problem with incorrect error codes being returned by OMPI MPI_T functions. - Fix an issue with debugger tools not being able to attach to mpirun more than once. Thanks to Gregory Lee for reporting. - Fix an issue with the Fortran compiler wrappers when using NAG compilers. Thanks to Peter Brady for reporting. - Fix an issue with the ORTE ssh based process launcher at scale. Thanks to Benjamín Hernández for reporting. - Address an issue when using shared MPI I/O operations. OMPIO will now successfully return from the file open statement but will raise an error if the file system does not supported shared I/O operations. Thanks to Romain Hild for reporting. - Fix an issue with MPI_WIN_DETACH. Thanks to Thomas Naughton for reporting. Signed-off-by: Howard Pritchard <howardp@lanl.gov>
2020-06-23py-torchvision: added v0.6.1 (#17203)Adam J. Stewart1-1/+2
2020-06-23[hepmc3] gcc@9.3.0 patch for @3.1.2:3.2.1, conflicts for earlier @:3.1.1 ↵Wouter Deconinck2-0/+16
(#17182) See https://gitlab.cern.ch/hepmc/HepMC3/-/commit/ba38f14d8f56c16cc4105d98f6d4540c928c6150, which is included in master and released as of hepmc3@3.2.2
2020-06-23whizard: added zlib as a dependency (#17205)vvolkl1-0/+1
2020-06-23caffe: use MPI compiler when using hdf5+mpi (#17125)Tomoki, Karatsu1-0/+6
2020-06-23lua: fix linking to ncurses (#17206)Michael Kuhn1-1/+1
PR #17108 broke the build. Spack's ncurses package does not provide a libtermcap, so we need to use libtinfow.
2020-06-22HEP generator update: evtgen, tauola, photos, pythia8, lhapdf, whizard (#16880)vvolkl7-0/+279
* add package evtgen fix formatting add evtgen dependencies and update pythia8 fix formatting * [evtgen] update versions * [pythia8] add 'without-PACKAGE' args * fix formatting * Add LHAPDF Co-authored-by: iarspider * Add package whizard fix formatting * [pyhtia8, evtgen] add conflict msg re: circular dependencies * [pyhtia8, evtgen] fix conflicts * [pyhtia8, evtgen] fix msg string * Set pythia8 default to ~evtgen
2020-06-22[py-macs2] new version and dependency (#16817)Jen Herting1-0/+2
* [py-macs2] Combined commit - Added version 2.1.3.3 - added dependency py-cython Author: Jen Herting <jen@herting.cc> Date: Tue May 26 16:41:28 2020 -0400 [py-macs2] added sha256= Author: Andrew Elble <aweits@rit.edu> Date: Tue Oct 29 10:34:33 2019 -0400 migrated repos * [py-macs2] fixed copyright * [py-macs2] py-cython is build dependency
2020-06-22swig: fix older builds on newer platforms by updating config files (#16854)Joseph Ciurej1-0/+3
* swig: revise 'autotools' automated 'config.*' update mechanism to support 'config.sub' and adapt 'swig' accordingly
2020-06-22Added 8.0 RC to the versions (#17176)Brian Van Essen1-0/+10
2020-06-22blaspp: moved to new git repo (#17184)G-Ragghianti1-5/+6
Extended the list of maintainers
2020-06-22dos2unix: add build dependency on gettext (#17191)darmac1-0/+2
2020-06-22Minor cleanup for conduit and hydrogen (#17136)Brian Van Essen2-4/+1
* Fix how the Conduit detects that the MPI compiler is the same as the CC compiler and is more careful when it sets the MPI compilers to be the Cray PE system compilers. * Remove unnecessary push of the MPI compilers to the C compilers for Hydrogen.
2020-06-22delphes: better specify the dependency on root (#17175)Wouter Deconinck1-1/+2
Compiling delphes with default root cxxstd=11 fails, see e.g. https://sft.its.cern.ch/jira/si/jira.issueviews:issue-html/ROOT-9492/ROOT-9492.html
2020-06-22py-pyheadtail: added new package at v1.14.1 (#17159)iarspider1-0/+24
Co-authored-by: iarspider <iarpsider@gmail.com>
2020-06-22libxsmm: added v1.16 (#17185)Hans Pabst1-1/+2
2020-06-22votca-*: added v1.6.1 (#17186)Christoph Junghans5-4/+13
2020-06-22meson: added v0.54.3 (#17190)Michael Kuhn1-0/+1
2020-06-22SciPy: add v1.5.0 (#17189)Adam J. Stewart1-2/+6
2020-06-20NumPy: add v1.19.0 (#17183)Adam J. Stewart1-1/+4
2020-06-19Axom/Conduit: Fix error when fortran is not defined (#17171)Chris White2-4/+8
* Fix error when fortran is not defined * Guard more ~fortran cases
2020-06-19Updated slate package to use new git repo. Added maintainer. (#17165)G-Ragghianti1-4/+3
* Updated slate package to use new git repo. Added maintainer.
2020-06-19Update to swipl package (#17173)Alexander Knieps1-0/+7
* Added version 8.2.0, added dependency for documentation build, added variants for documentations * Renamed variant '+man' to '+html' Co-authored-by: Alexander Knieps <a.knieps@fz-juelich.de>
2020-06-18PyTorch: add v1.5.1 (#17167)Adam J. Stewart1-1/+2
2020-06-18py-pandas: add v1.0.5 (#17161)Adam J. Stewart1-1/+2
2020-06-18py-matplotlib: add v3.2.2 (#17160)Adam J. Stewart1-2/+6
2020-06-18libjpeg-turbo: fixed sha256 (#17154)Massimiliano Culpo1-5/+7
2020-06-18arpack-ng: fix build with gcc@10: (#17131)lorddavidiii1-0/+6
2020-06-18atop: fix ld error (#17150)darmac1-0/+3
2020-06-18arrayfire: added cudnn as a dependency when +cuda (#17146)Sinan1-0/+1
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
2020-06-18argobots, bolt: updates to package.py (#17117)Shintaro Iwasaki2-12/+7
2020-06-18cube and libjpeg-turbo: added cube v4.5 and libjpeg-turbo v2.0.4 (#17132)Itaru Kitayama2-0/+2
2020-06-18minimap2: fix a typo in the recipe (#17148)Toyohisa Kameyama1-1/+1
2020-06-17glib: fix 2.56 build with python@2 (#17144)Seth R. Johnson1-3/+11
* glib: fix 2.56 build with python@2 * flake8
2020-06-17python: fix patch issue for 2.7.X, 3.7.X (#17140)Joseph Ciurej6-3/+539
* python: fixing patch issue for 2.7.X, 3.7.X versions (#17128) * python: fixing the C/C++ 'distutils' patching for @3.7.0:3.7.1
2020-06-17oneDNN: add v1.5.0 (#17137)Adam J. Stewart1-1/+2
2020-06-17slurm: Fix build with gcc@10:Michael Kuhn1-0/+9
gcc@10: defaults to -fno-common, which breaks slurm up to version 20-02-1. For more details, see https://gcc.gnu.org/gcc-10/porting_to.html
2020-06-17openmpi: options for local transport (#16831)Sergey Kosukhin5-30/+309
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