Your message dated Mon, 07 Apr 2025 04:19:12 +0000
with message-id <e1u1dx2-00gz0f...@fasolo.debian.org>
and subject line Bug#1101251: fixed in r-bioc-lpsymphony 1.34.0+dfsg-3
has caused the Debian Bug report #1101251,
regarding r-bioc-ihw: FTBFS:
/usr/lib/R/site-library/lpsymphony/libs/lpsymphony.so: undefined symbol:
_Z17sym_set_dbl_paramP15SYM_ENVIRONMENTPKcd
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)
--
1101251: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1101251
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: src:r-bioc-ihw
Version: 1.34.0+dfsg-2
Severity: serious
Tags: ftbfs trixie sid
Dear maintainer:
During a rebuild of all packages in unstable, your package failed to build:
--------------------------------------------------------------------------------
[...]
debian/rules clean
dh clean --buildsystem R
dh_auto_clean -O--buildsystem=R
dh_autoreconf_clean -O--buildsystem=R
dh_clean -O--buildsystem=R
debian/rules binary
dh binary --buildsystem R
dh_update_autotools_config -O--buildsystem=R
dh_autoreconf -O--buildsystem=R
dh_auto_configure -O--buildsystem=R
dh_auto_build -O--buildsystem=R
dh_auto_test -O--buildsystem=R
create-stamp debian/debhelper-build-stamp
dh_testroot -O--buildsystem=R
dh_prep -O--buildsystem=R
dh_auto_install --destdir=debian/r-bioc-ihw/ -O--buildsystem=R
I: R Package: IHW Version: 1.34.0
I: Building using R version 4.4.3-1
I: R API version: r-api-4.0
I: Using built-time from d/changelog: Sat, 11 Jan 2025 22:03:36 +0100
mkdir -p
/<<BUILDDIR>>/r-bioc-ihw-1.34.0\+dfsg/debian/r-bioc-ihw/usr/lib/R/site-library
R CMD INSTALL -l
/<<BUILDDIR>>/r-bioc-ihw-1.34.0\+dfsg/debian/r-bioc-ihw/usr/lib/R/site-library
--clean . "--built-timestamp='Sat, 11 Jan 2025 22:03:36 +0100'"
* installing *source* package âIHWâ ...
file âinst/doc/introduction_to_ihw.htmlâ is missing
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object
'/usr/lib/R/site-library/lpsymphony/libs/lpsymphony.so':
/usr/lib/R/site-library/lpsymphony/libs/lpsymphony.so: undefined symbol:
_Z17sym_set_dbl_paramP15SYM_ENVIRONMENTPKcd
Calls: <Anonymous> ... asNamespace -> loadNamespace -> library.dynam -> dyn.load
Execution halted
ERROR: lazy loading failed for package âIHWâ
* removing â/<<PKGBUILDDIR>>/debian/r-bioc-ihw/usr/lib/R/site-library/IHWâ
dh_auto_install: error: R CMD INSTALL -l
/<<BUILDDIR>>/r-bioc-ihw-1.34.0\+dfsg/debian/r-bioc-ihw/usr/lib/R/site-library
--clean . "--built-timestamp='Sat, 11 Jan 2025 22:03:36 +0100'" returned exit
code 1
make: *** [debian/rules:4: binary] Error 25
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
--------------------------------------------------------------------------------
The above is just how the build ends and not necessarily the most relevant part.
If required, the full build log is available here:
https://people.debian.org/~sanvila/build-logs/202503/
About the archive rebuild: The build was made on virtual machines from AWS,
using sbuild and a reduced chroot with only build-essential packages.
If you could not reproduce the bug please contact me privately, as I
am willing to provide ssh access to a virtual machine where the bug is
fully reproducible.
If this is really a bug in one of the build-depends, please use
reassign and add an affects on src:r-bioc-ihw, so that this is still
visible in the BTS web page for this package.
Thanks.
--- End Message ---
--- Begin Message ---
Source: r-bioc-lpsymphony
Source-Version: 1.34.0+dfsg-3
Done: Charles Plessy <ple...@debian.org>
We believe that the bug you reported is fixed in the latest version of
r-bioc-lpsymphony, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to 1101...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Charles Plessy <ple...@debian.org> (supplier of updated r-bioc-lpsymphony
package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmas...@ftp-master.debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 1.8
Date: Mon, 07 Apr 2025 09:37:56 +0900
Source: r-bioc-lpsymphony
Architecture: source
Version: 1.34.0+dfsg-3
Distribution: unstable
Urgency: medium
Maintainer: Debian R Packages Maintainers <r-pkg-t...@alioth-lists.debian.net>
Changed-By: Charles Plessy <ple...@debian.org>
Closes: 1101251
Changes:
r-bioc-lpsymphony (1.34.0+dfsg-3) unstable; urgency=medium
.
* Team upload.
* Packaging update
* Standards-Version: 4.7.2 (routine-update)
* Build against coinor-symphony 5.7.2 or higher, closes: #1101251.
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