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Bug 810505 - sci-libs/avogadrolibs-1.93.0 - /.../hdf5dataformat.cpp: error: too few arguments to function herr_t H5Oget_info_by_name3(hid_t, co
Summary: sci-libs/avogadrolibs-1.93.0 - /.../hdf5dataformat.cpp: error: too few argume...
Status: RESOLVED FIXED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: Current packages (show other bugs)
Hardware: All Linux
: Normal normal
Assignee: Gentoo Chemistry-Related Packages
URL:
Whiteboard: Workaround applied
Keywords:
Depends on:
Blocks: hdf5-1.12
  Show dependency tree
 
Reported: 2021-08-26 17:18 UTC by Toralf Förster
Modified: 2022-03-01 12:12 UTC (History)
0 users

See Also:
Package list:
Runtime testing required: ---


Attachments
emerge-info.txt (emerge-info.txt,16.09 KB, text/plain)
2021-08-26 17:18 UTC, Toralf Förster
Details
emerge-history.txt (emerge-history.txt,185.03 KB, text/plain)
2021-08-26 17:18 UTC, Toralf Förster
Details
environment (environment,93.24 KB, text/plain)
2021-08-26 17:18 UTC, Toralf Förster
Details
etc.portage.tar.bz2 (etc.portage.tar.bz2,17.25 KB, application/x-bzip)
2021-08-26 17:18 UTC, Toralf Förster
Details
logs.tar.bz2 (logs.tar.bz2,5.03 KB, application/x-bzip)
2021-08-26 17:18 UTC, Toralf Förster
Details
sci-libs:avogadrolibs-1.93.0:20210826-170820.log (sci-libs:avogadrolibs-1.93.0:20210826-170820.log,49.09 KB, text/plain)
2021-08-26 17:18 UTC, Toralf Förster
Details
temp.tar.bz2 (temp.tar.bz2,26.54 KB, application/x-bzip)
2021-08-26 17:18 UTC, Toralf Förster
Details

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Description Toralf Förster gentoo-dev 2021-08-26 17:18:33 UTC
/var/tmp/portage/sci-libs/avogadrolibs-1.93.0/work/avogadrolibs-1.93.0/avogadro/io/hdf5dataformat.cpp: In member function ‘bool Avogadro::Io::Hdf5DataFormat::datasetExists(const string&) const’:
/var/tmp/portage/sci-libs/avogadrolibs-1.93.0/work/avogadrolibs-1.93.0/avogadro/io/hdf5dataformat.cpp:270:26: error: too few arguments to function ‘herr_t H5Oget_info_by_name3(hid_t, const char*, H5O_info2_t*, unsigned int, hid_t)’
  270 |   if (H5Oget_info_by_name(d->fileId, path.c_str(), &info, H5P_DEFAULT) < 0)
      |                          ^
In file included from /usr/include/H5Apublic.h:22,
                 from /usr/include/hdf5.h:23,

  -------------------------------------------------------------------

  This is an unstable amd64 chroot image at a tinderbox (==build bot)
  name: 17.1_desktop_plasma-j4-20210825-040007

  -------------------------------------------------------------------

gcc-config -l:
 [1] x86_64-pc-linux-gnu-11.2.0 *
clang version 12.0.1
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/lib/llvm/12/bin
/usr/lib/llvm/12
12.0.1
Python 3.9.6
Available Ruby profiles:
  [1]   ruby26 (with Rubygems)
  [2]   ruby30 (with Rubygems) *
Available Rust versions:
  [1]   rust-1.54.0 *
The Glorious Glasgow Haskell Compilation System, version 8.10.4

  HEAD of ::gentoo
commit ec0dd8e6564644f850378ba3bae142ae7fc33d3d
Author: Repository mirror & CI <repomirrorci@gentoo.org>
Date:   Thu Aug 26 16:21:32 2021 +0000

    2021-08-26 16:21:30 UTC

emerge -qpvO sci-libs/avogadrolibs
[ebuild  N    ] sci-libs/avogadrolibs-1.93.0  USE="hdf5 qt5 -archive -doc -test -vtk"
Comment 1 Toralf Förster gentoo-dev 2021-08-26 17:18:34 UTC
Created attachment 736135 [details]
emerge-info.txt
Comment 2 Toralf Förster gentoo-dev 2021-08-26 17:18:36 UTC
Created attachment 736138 [details]
emerge-history.txt
Comment 3 Toralf Förster gentoo-dev 2021-08-26 17:18:37 UTC
Created attachment 736141 [details]
environment
Comment 4 Toralf Förster gentoo-dev 2021-08-26 17:18:39 UTC
Created attachment 736144 [details]
etc.portage.tar.bz2
Comment 5 Toralf Förster gentoo-dev 2021-08-26 17:18:40 UTC
Created attachment 736147 [details]
logs.tar.bz2
Comment 6 Toralf Förster gentoo-dev 2021-08-26 17:18:41 UTC
Created attachment 736150 [details]
sci-libs:avogadrolibs-1.93.0:20210826-170820.log
Comment 7 Toralf Förster gentoo-dev 2021-08-26 17:18:42 UTC
Created attachment 736153 [details]
temp.tar.bz2
Comment 8 Larry the Git Cow gentoo-dev 2021-10-12 07:04:58 UTC
The bug has been referenced in the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=4ea14acad668034f2a333794fe63b773ac99fe1f

commit 4ea14acad668034f2a333794fe63b773ac99fe1f
Author:     Sam James <sam@gentoo.org>
AuthorDate: 2021-10-12 07:04:24 +0000
Commit:     Sam James <sam@gentoo.org>
CommitDate: 2021-10-12 07:04:49 +0000

    sci-libs/avogadrolibs: apply (upstream) workaround for older hdf5lib API
    
    Bug: https://bugs.gentoo.org/810505
    Signed-off-by: Sam James <sam@gentoo.org>

 sci-libs/avogadrolibs/avogadrolibs-1.93.0.ebuild | 7 ++++++-
 1 file changed, 6 insertions(+), 1 deletion(-)
Comment 9 Larry the Git Cow gentoo-dev 2022-03-01 12:12:37 UTC
The bug has been closed via the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=b9e6d8c7a9ee81fc5e72043d1b3ed399ae8273fd

commit b9e6d8c7a9ee81fc5e72043d1b3ed399ae8273fd
Author:     David Seifert <soap@gentoo.org>
AuthorDate: 2022-03-01 12:12:25 +0000
Commit:     David Seifert <soap@gentoo.org>
CommitDate: 2022-03-01 12:12:25 +0000

    sci-libs/avogadrolibs: drop 1.93.0
    
    Closes: https://bugs.gentoo.org/765811
    Closes: https://bugs.gentoo.org/810505
    Closes: https://bugs.gentoo.org/820767
    Closes: https://bugs.gentoo.org/834116
    Signed-off-by: David Seifert <soap@gentoo.org>

 sci-libs/avogadrolibs/Manifest                     |  2 -
 sci-libs/avogadrolibs/avogadrolibs-1.93.0.ebuild   | 95 ----------------------
 ...vogadrolibs-1.93.0-fix_AvogadroLibsConfig.patch | 11 ---
 3 files changed, 108 deletions(-)