mkdssp.cpp:(.text._ZN5boost6detail17sp_counted_impl_pINS_9iostreams16symmetric_filterINS2_6detail20zlib_compressor_implISaIcEEES6_E4implEE7disposeEv[_ZN5boost6detail17sp_counted_impl_pINS_9iostreams16symmetric_filterINS2_6detail20zlib_compressor_implISaIcEEES6_E4implEE7disposeEv]+0x27): undefined reference to `boost::iostreams::detail::zlib_base::reset(bool, bool)' /usr/lib/gcc/x86_64-pc-linux-gnu/11.1.0/../../../../x86_64-pc-linux-gnu/bin/ld: mkdssp.cpp:(.text._ZN5boost6detail17sp_counted_impl_pINS_9iostreams16symmetric_filterINS2_6detail20zlib_compressor_implISaIcEEES6_E4implEE7disposeEv[_ZN5boost6detail17sp_counted_impl_pINS_9iostreams16symmetric_filterINS2_6detail20zlib_compressor_implISaIcEEES6_E4implEE7disposeEv]+0x2f): undefined reference to `boost::iostreams::detail::zlib_base::~zlib_base()' ------------------------------------------------------------------- This is an unstable amd64 chroot image at a tinderbox (==build bot) name: 17.1_no_multilib_systemd-j3-20210715-181202 ------------------------------------------------------------------- gcc-config -l: [1] x86_64-pc-linux-gnu-11.1.0 * Python 3.9.6 Available Ruby profiles: [1] ruby26 (with Rubygems) [2] ruby30 (with Rubygems) * The following VMs are available for generation-2: *) AdoptOpenJDK 8.292_p10 [openjdk-bin-8] Available Java Virtual Machines: [1] openjdk-bin-8 system-vm The Glorious Glasgow Haskell Compilation System, version 8.10.4 HEAD of ::gentoo commit c1926b76a936dac4be2deae86c2cf91e520d486a Author: Repository mirror & CI <repomirrorci@gentoo.org> Date: Thu Jul 15 20:36:48 2021 +0000 2021-07-15 20:36:46 UTC emerge -qpvO sci-chemistry/dssp [ebuild N ] sci-chemistry/dssp-2.2.1-r2
Created attachment 724144 [details] emerge-info.txt
Created attachment 724147 [details] emerge-history.txt
Created attachment 724150 [details] environment
Created attachment 724153 [details] etc.portage.tar.bz2
Created attachment 724156 [details] sci-chemistry:dssp-2.2.1-r2:20210715-215141.log
Created attachment 724159 [details] temp.tar.bz2
The bug has been referenced in the following commit(s): https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=bd93b01be38831d1ef5a4d2518c351777c86d9a7 commit bd93b01be38831d1ef5a4d2518c351777c86d9a7 Author: David Seifert <soap@gentoo.org> AuthorDate: 2021-08-29 10:38:18 +0000 Commit: David Seifert <soap@gentoo.org> CommitDate: 2021-08-29 10:38:18 +0000 profiles: last-rite sci-chemistry/dssp Bug: https://bugs.gentoo.org/802417 Bug: https://bugs.gentoo.org/808669 Signed-off-by: David Seifert <soap@gentoo.org> profiles/package.mask | 7 +++++++ 1 file changed, 7 insertions(+)
The bug has been closed via the following commit(s): https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=4e4e045da2570733e3a7cf50ed1712945d44dc2f commit 4e4e045da2570733e3a7cf50ed1712945d44dc2f Author: Pacho Ramos <pacho@gentoo.org> AuthorDate: 2021-09-02 11:59:21 +0000 Commit: Pacho Ramos <pacho@gentoo.org> CommitDate: 2021-09-02 12:00:49 +0000 sci-chemistry/dssp: Bump to 3.0.11 It is the latest version that seems to work with gmx do_dssp from my tests, also the one packaged in Fedora currently Closes: https://bugs.gentoo.org/802417 Closes: https://bugs.gentoo.org/808669 Package-Manager: Portage-3.0.22, Repoman-3.0.3 Signed-off-by: Pacho Ramos <pacho@gentoo.org> sci-chemistry/dssp/Manifest | 1 + sci-chemistry/dssp/dssp-3.0.11.ebuild | 42 +++++++++++++++++++++++++++++++++++ 2 files changed, 43 insertions(+) https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=54a9ba7ce3518fd4974ddd7834584a0c3dad9980 commit 54a9ba7ce3518fd4974ddd7834584a0c3dad9980 Author: Pacho Ramos <pacho@gentoo.org> AuthorDate: 2021-09-02 11:50:57 +0000 Commit: Pacho Ramos <pacho@gentoo.org> CommitDate: 2021-09-02 12:00:48 +0000 sci-chemistry/dssp: Needs boost with zlib and bzip2 support Closes: https://bugs.gentoo.org/802417 Package-Manager: Portage-3.0.22, Repoman-3.0.3 Signed-off-by: Pacho Ramos <pacho@gentoo.org> sci-chemistry/dssp/dssp-4.0.1_p20210831.ebuild | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=86a55f2707b1daa78e8d7e0666756e95ef588d47 commit 86a55f2707b1daa78e8d7e0666756e95ef588d47 Author: Pacho Ramos <pacho@gentoo.org> AuthorDate: 2021-09-02 11:48:56 +0000 Commit: Pacho Ramos <pacho@gentoo.org> CommitDate: 2021-09-02 12:00:44 +0000 sci-chemistry/dssp: Fix boost compat for dssp-2 dssp-2 is still needed by gromacs, try to keep it whenever possible then Closes: https://bugs.gentoo.org/802417 Closes: https://bugs.gentoo.org/808669 Package-Manager: Portage-3.0.22, Repoman-3.0.3 Signed-off-by: Pacho Ramos <pacho@gentoo.org> sci-chemistry/dssp/dssp-2.2.1-r3.ebuild | 41 +++++++++++++++++++++++++++++++++ sci-chemistry/dssp/files/30-dssp | 1 + 2 files changed, 42 insertions(+) https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=73c30608dfed594378b78b10858023a7f0a19686 commit 73c30608dfed594378b78b10858023a7f0a19686 Author: Pacho Ramos <pacho@gentoo.org> AuthorDate: 2021-09-02 11:44:31 +0000 Commit: Pacho Ramos <pacho@gentoo.org> CommitDate: 2021-09-02 12:00:42 +0000 sci-chemistry/dssp: Bump to 4.0.1 Closes: https://bugs.gentoo.org/679142 Closes: https://bugs.gentoo.org/802417 Closes: https://bugs.gentoo.org/808669 Package-Manager: Portage-3.0.22, Repoman-3.0.3 Signed-off-by: Pacho Ramos <pacho@gentoo.org> sci-chemistry/dssp/Manifest | 1 + sci-chemistry/dssp/dssp-4.0.1_p20210831.ebuild | 33 ++++++++++++++++++++++++++ 2 files changed, 34 insertions(+)
