• Bug#1101251: r-bioc-ihw: FTBFS: /usr/lib/R/site-library/lpsymphony/libs

    From Santiago Vila@21:1/5 to All on Tue Mar 25 01:20:05 2025
    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 ‘IHW’ ...
    file ‘inst/doc/introduction_to_ihw.html’ 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 ‘IHW’
    * removing ‘/<<PKGBUILDDIR>>/debian/r-bioc-ihw/usr/lib/R/site-library/IHW’ 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.

    --- SoupGate-Win32 v1.05
    * Origin: fsxNet Usenet Gateway (21:1/5)