ELBA-2021-14796

ELBA-2021-14796 - gromacs Bug Fix update

Type:	BUG
Severity:	NA
Release Date:	2021-06-11

Description

[2019.6-2]
- Rebuild for hwloc 2 (RHEL 8.4)

[2019.6-1]
- Version bump to 2019.6

[2019.5-3]
- fix build with gcc10

[2019.5-2.1]
- Rebuilt for https://fedoraproject.org/wiki/Fedora_32_Mass_Rebuild

[2019.5-1.1]
- Rebuild for koji

[2019.5-1]
- Version bump to 2019.5 (bug #1786201)

[2019.4-1]
- Version bump to 2019.4 (bug #1757694)
- drop cmake-3.11.4.patch to merged upstream

[2019.3-1.2]
- Rebuilt for hwloc-2.0

[2019.3-1.1]
- Rebuilt for https://fedoraproject.org/wiki/Fedora_31_Mass_Rebuild

[2019.3-1]
- Version bump to 2019.3 (bug #1720697)

[2019.2-1]
- Version bump to 2019.2 (bug #1677678)

[2019.1-1]
- Version bump to 2019.1 (bug #1677678)

[2018.5-2]
- Rebuild for openmpi 3.1.3

[2018.5-1]
- Version bump to 2018.5

[2018.4-1.1]
- Rebuilt for https://fedoraproject.org/wiki/Fedora_30_Mass_Rebuild

[2018.4-1]
- Version bump to 2018.4
- Re-added gromacs-issue-2366.patch for f28 and lower

[2018.3-2]
- Enable OpenCL for some archs on epel7
- Drop gromacs-issue-2366.patch (bug #1558206) - seems to be fixed

[2018.3-1]
- Version bump to 2018.3
- Major spec files clean up

[2018.2-1]
- Version bump to 2018.2 (bug #1591052)
- Add support for lmfit-7 (patch will be part of v2019)
- Switch to OpenBlas (bug #1602822)
- Disable brittle regressiontests

[2018.1-1.1]
- Rebuilt for https://fedoraproject.org/wiki/Fedora_29_Mass_Rebuild

[2018.1-1]
- Bump to version 2018.1 (bug #1559202)

[2018-1.2]
- add gcc-c++ as BuildRequires
- use bundled tinyml2 to build tests, system one is too new

[2018-1.1]
- Rebuilt for https://fedoraproject.org/wiki/Fedora_28_Mass_Rebuild

[2018-1]
- Update to 2018
- Drop 43a0002.diff, merged upstream

[2018-0.2rc1]
- Update to 2018-rc1 for testing
- Update b7713bf.diff to 43a0002.diff

[2018-0.1beta3]
- Update to 2018-beta3 for testing
- Disable HardwareTopologyTest.NumaCacheSelfconsistency test on aarch64
- Run regressiontests for serial build (don't work for mpi build)
- Clean up
- Drop execstack as everything is intristic now
- No la .files anymore, so drop find -delete
- OpenMPI was ported to s390, so enable it everywhere

[2016.4-1]
- Update to 2016.4

[2016.3-3]
- Rebuilt for https://fedoraproject.org/wiki/Fedora_27_Binutils_Mass_Rebuild

[2016.3-2]
- Rebuilt for https://fedoraproject.org/wiki/Fedora_27_Mass_Rebuild

[2016.3-1]
- Update to 2016.3

[2016.2-1]
- Update to 2016.2
- Drop boost dependency, not uses anymore
- Drop gromacs-tng.patch, made it upstream

[2016.1-3]
- Rebuilt for Boost 1.63

[2016.1-2]
- fixed wording description
- drop dangerous GMXRC* - not needed when installed in /usr
would prepent /usr/lib in LD_LIBRARY_PATH
-drop otherwise empty zsh/csh package as actual completion is done in 2016
nothing left in package after removing GMXRC.*
- fix location of bash-completion
- added GMX_USE_RDTSCP=OFF for docker, which has not support of rdtscp yet

[2016.1-1]
- Update to 2016.1
- Drop gromacs-use-system-lmfit.patch, made it upstream
- Update gromacs-tng.patch, https://gerrit.gromacs.org/#/c/6319/

* Fri Oct 21 2016 Orion Poplawski
- Rebuild for openmpi 2.0

[2016-1]
- update to 2016 release
- drop upstreamed patches
- fix build with system lmfit
- fix build with bundled tng removed
- drop pocl from BuildRequires, it's not required to build
- enable OpenCL on all arches (except ppc64le, where it's still failing)

[2016-0.5.20160510gitd44d7d6]
- unbundle tinyxml2

[2016-0.4.20160510gitd44d7d6]
- update from git master
- enable OpenCL on armv7hl and BR: pocl >= 0.13-4 (#1324438)
- drop libxml2 BR (upstream switched to bundled tinyxml2-3.0.0)
- add missing arches in arch-dependent sections

[2016-0.3.20160403gitd6e35c9]
- re-enable OpenCL (pocl was fixed recently)

[2016-0.2.20160403gitd6e35c9]
- update to git master branch
- drop obsolete patches
- enable NEON instructions on armv7hnl arch
- drop condition around execstack usage, it's available everywhere now

[2016-0.1.20160318gitbec9c87]
- update to git master branch
- disable OpenCL for now (due to pocl FTBFS #1307869)
- use BOOL with all boolean cmake options
- enable hwloc support
- don't install OpenCL kernels by default (but recommend them)
- unbundle lmfit (F24+), tng
- don't build shared libs for MPI builds
- drop -libs and -devel MPI subpackages
- disable failing tests on arm and i686

[5.1.1-2]
- Rebuilt for https://fedoraproject.org/wiki/Fedora_24_Mass_Rebuild

[5.1.1-1]
- update to 5.1.1

[5.1-6]
- don't remove -DNDEBUG from CFLAGS (makes HandlesPermuteModifier test fail
randomly)
- convert shell variables to rpm macros
- enable OpenCL support (x86 and single precision only)

[5.1-5]
- disable HandlesPermuteModifier test which fails randomly on i686

[5.1-4]

Updated Packages

Release/Architecture	Filename	MD5sum	Superseded By Advisory
Oracle Linux 8 (x86_64)	gromacs-2019.6-2.el8.src.rpm	6b552e91a526e75571c580dfdae4bd50	-
	gromacs-2019.6-2.el8.x86_64.rpm	12095f25bd78af5e1e9ed886969cc0fc	-
	gromacs-common-2019.6-2.el8.noarch.rpm	65d117075b43a1afa052d37253c30b78	-
	gromacs-devel-2019.6-2.el8.x86_64.rpm	773582e57cd0bc86c3817c94bf7cf2ba	-
	gromacs-doc-2019.6-2.el8.noarch.rpm	8850fbe0704dbc74dcf1607223892a6a	-
	gromacs-libs-2019.6-2.el8.x86_64.rpm	1431fa40c47ca05e704c5683488678bf	-
	gromacs-mpich-2019.6-2.el8.x86_64.rpm	3acfc733d8cd1923a86e18413f39b4ad	-
	gromacs-opencl-2019.6-2.el8.x86_64.rpm	c6da9ff771fb35a7e04e4e53af17c678	-
	gromacs-openmpi-2019.6-2.el8.x86_64.rpm	3a797085d7941f138c40ae6aa4384f25	-

This page is generated automatically and has not been checked for errors or omissions. For clarification or corrections please contact the Oracle Linux ULN team