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* Separate Apple Clang from LLVM Clang
Apple Clang is a compiler of its own. All places
referring to "-apple" suffix have been updated.
* Hack to use a dash in 'apple-clang'
To be able to use autodoc from Sphinx we need
a valid Python name for the module that contains
Apple's Clang code.
* Updated packages to account for the existence of apple-clang
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Added unit test for XCode related functions
Co-authored-by: Gregory Becker <becker33@llnl.gov>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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The rose library uses the `strtoflt128` and `quadmath_snprintf`
functions. In order to successfully link the rose library, chill must
also link the GCC libquadmath library to resolve the two functions. This
patch changes the chill build to include this library.
Chill will also not compile unless headers from the gmp and isl
libraries are found in the includes path. Two patches - one each for gmp
and isl - modify the chill build process to add options to specify those
paths. These options follow the similar pattern as seen with BOOSTHOME
and ROSEHOME options which already exist in the chill build process.
Because of the addition of GMPHOME and ISLHOME options, build
requirements for gmp and isl are also added.
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* mdanalysis
* [py-mmtf-python] fixed copyright
Co-authored-by: Andrew Elble <aweits@rit.edu>
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* Update package.py
* edit confliction when add package 'meam'
The USER-MEAMC fully replaces the MEAM package, which has been removed from LAMMPS after the 12 December 2018 version.
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* Add missing dependency on Python for Mono.
At build time
* Adding version 6.8.0.123 for mono
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The lapack-0.3.9-xerbl patch is not needed for versions 0.3.10 and
above.
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* Updated nearly all options to default to OFF
* Fixed imported but unused module flake error
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* Updated MUMPS-5.3.3
* fixed E741 error(l -> ltr)
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Signed-off-by: Adam Moody <moody20@llnl.gov>
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* 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.
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perl.org still recommends 5.30.3, so keep it as the preferred version.
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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
```
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parallel-netcdf's buildiface script needs perl during build.
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Co-authored-by: Andrew Elble <aweits@rit.edu>
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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>
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(#17182)
See https://gitlab.cern.ch/hepmc/HepMC3/-/commit/ba38f14d8f56c16cc4105d98f6d4540c928c6150, which is included in master and released as of hepmc3@3.2.2
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PR #17108 broke the build. Spack's ncurses package does not provide a
libtermcap, so we need to use libtinfow.
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* 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
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* [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
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* swig: revise 'autotools' automated 'config.*' update mechanism to support 'config.sub' and adapt 'swig' accordingly
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Extended the list of maintainers
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* 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.
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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
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Co-authored-by: iarspider <iarpsider@gmail.com>
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