ELBA-2021-14796

ELBA-2021-14796 - gromacs Bug Fix update

Type:	BUG
Impact:	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	sha256	Superseded By Advisory	Channel Label
Oracle Linux 8 (aarch64)	gromacs-2019.6-2.el8.src.rpm	777ba07b3a8db387b6ce2f5ac91d52da44442432365cc84da54c9b6a1f7f890e	-	ol8_aarch64_developer_EPEL
	gromacs-2019.6-2.el8.aarch64.rpm	df2ecce53d2d7f491508a2900a9bcf56d7ecf85ca02e3005585f40e52c66f49a	-	ol8_aarch64_developer_EPEL
	gromacs-common-2019.6-2.el8.noarch.rpm	506150d75d0879bcb515508f799ab16db9ccb023c73326384d46e60a76982719	-	ol8_aarch64_developer_EPEL
	gromacs-devel-2019.6-2.el8.aarch64.rpm	ed168ced1f73eb6f42a2d6e641984f5594cbe2d40b09be2c6accd744cd024e44	-	ol8_aarch64_developer_EPEL
	gromacs-doc-2019.6-2.el8.noarch.rpm	720e9221f5ba97fd713f5e3db8e34c1fb1a7ed8a88b325c1450afc60897584ce	-	ol8_aarch64_developer_EPEL
	gromacs-libs-2019.6-2.el8.aarch64.rpm	6f8cdd35eab8f58f1d296c8f033abec55dab091ee14af12666890e039b416d55	-	ol8_aarch64_developer_EPEL
	gromacs-mpich-2019.6-2.el8.aarch64.rpm	c60ca725d95096f143e761f07ce672ca28a8e5fa57319e83bbc5943cebe88dbe	-	ol8_aarch64_developer_EPEL
	gromacs-opencl-2019.6-2.el8.aarch64.rpm	7b00a5ff59741d5f7db71e2aa1aa0fdbe781423ea4c8b773e7bde37bd34edc6a	-	ol8_aarch64_developer_EPEL
	gromacs-openmpi-2019.6-2.el8.aarch64.rpm	ce41f358e250033a18ba1018122c5e748c785ba69aa82596c1b06987b382e07a	-	ol8_aarch64_developer_EPEL
Oracle Linux 8 (x86_64)	gromacs-2019.6-2.el8.src.rpm	777ba07b3a8db387b6ce2f5ac91d52da44442432365cc84da54c9b6a1f7f890e	-	ol8_x86_64_developer_EPEL
	gromacs-2019.6-2.el8.x86_64.rpm	c648dec02fce3a8300fbbde9520ed6b1cb4f79c2e6299543f1d96c4edbe64cba	-	ol8_x86_64_developer_EPEL
	gromacs-common-2019.6-2.el8.noarch.rpm	506150d75d0879bcb515508f799ab16db9ccb023c73326384d46e60a76982719	-	ol8_x86_64_developer_EPEL
	gromacs-devel-2019.6-2.el8.x86_64.rpm	0fd4ad157d951e42f6d1b012cf3b8729c994bb136d83fb67281ac2d1c867bee8	-	ol8_x86_64_developer_EPEL
	gromacs-doc-2019.6-2.el8.noarch.rpm	720e9221f5ba97fd713f5e3db8e34c1fb1a7ed8a88b325c1450afc60897584ce	-	ol8_x86_64_developer_EPEL
	gromacs-libs-2019.6-2.el8.x86_64.rpm	aab87ba04de775e3ff52101cb789cea86ab81d203d21b7f8a6877e230263330f	-	ol8_x86_64_developer_EPEL
	gromacs-mpich-2019.6-2.el8.x86_64.rpm	f9f8004fe2ff340cd8c3524fff806efd182c1cfb50be9bfe7d5b36fcc0147e82	-	ol8_x86_64_developer_EPEL
	gromacs-opencl-2019.6-2.el8.x86_64.rpm	01272e70ce723c804ba9a4fedf6f1b5f8b6ae09c74347090a7f8aa8236441c45	-	ol8_x86_64_developer_EPEL
	gromacs-openmpi-2019.6-2.el8.x86_64.rpm	d8f1f89730d14027e8f508c4a9da880ce3e63482d4ae12cf4caadf8d8c23920b	-	ol8_x86_64_developer_EPEL

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