[R-pkg-team] Bug#1048496: r-cran-eaf: Fails to build source after successful build

[Lucas Nussbaum]

Source: r-cran-eaf
Version: 2.4.1-1
Severity: minor
Tags: trixie sid ftbfs
User: lucas at debian.org
Usertags: ftbfs-sab-20230813 ftbfs-source-after-build
User: debian-qa at lists.debian.org
Usertags: qa-doublebuild

Hi,

This package fails to build a source package after a successful build
(dpkg-buildpackage ; dpkg-buildpackage -S).

This is probably a clear violation of Debian Policy section 4.9 (clean target),
but this is filed as severity:minor for now, because a discussion on
debian-devel showed that we might want to revisit the requirement of a working
'clean' target.

More information about this class of issues, included common problems and
solutions, is available at
https://wiki.debian.org/qa.debian.org/FTBFS/SourceAfterBuild

Relevant part of the build log:
> cd /<<PKGBUILDDIR>> && runuser -u user42 -- dpkg-buildpackage --sanitize-env -us -uc -rfakeroot -S
> ---------------------------------------------------------------------------------------------------------------------------
> 
> dpkg-buildpackage: info: source package r-cran-eaf
> dpkg-buildpackage: info: source version 2.4.1-1
> dpkg-buildpackage: info: source distribution unstable
> dpkg-buildpackage: info: source changed by Andreas Tille <tille at debian.org>
>  dpkg-source --before-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
>  dpkg-source -b .
> dpkg-source: info: using source format '3.0 (quilt)'
> dpkg-source: info: building r-cran-eaf using existing ./r-cran-eaf_2.4.1.orig.tar.gz
> dpkg-source: info: using patch list from debian/patches/series
> dpkg-source: warning: ignoring deletion of file configure, use --include-removal to override
> dpkg-source: error: cannot represent change to src/eaf/eaf: binary file contents changed
> dpkg-source: error: add src/eaf/eaf in debian/source/include-binaries if you want to store the modified binary in the debian tarball
> dpkg-source: warning: executable mode 0755 of 'src/eaf/eaf' will not be represented in diff
> dpkg-source: error: cannot represent change to src/eaf/eaf_main.o: binary file contents changed
> dpkg-source: error: add src/eaf/eaf_main.o in debian/source/include-binaries if you want to store the modified binary in the debian tarball
> dpkg-source: error: cannot represent change to src/mo-tools/dominatedsets: binary file contents changed
> dpkg-source: error: add src/mo-tools/dominatedsets in debian/source/include-binaries if you want to store the modified binary in the debian tarball
> dpkg-source: warning: executable mode 0755 of 'src/mo-tools/dominatedsets' will not be represented in diff
> dpkg-source: error: cannot represent change to src/mo-tools/dominatedsets.o: binary file contents changed
> dpkg-source: error: add src/mo-tools/dominatedsets.o in debian/source/include-binaries if you want to store the modified binary in the debian tarball
> dpkg-source: error: cannot represent change to src/mo-tools/epsilon: binary file contents changed
> dpkg-source: error: add src/mo-tools/epsilon in debian/source/include-binaries if you want to store the modified binary in the debian tarball
> dpkg-source: warning: executable mode 0755 of 'src/mo-tools/epsilon' will not be represented in diff
> dpkg-source: error: cannot represent change to src/mo-tools/epsilon.o: binary file contents changed
> dpkg-source: error: add src/mo-tools/epsilon.o in debian/source/include-binaries if you want to store the modified binary in the debian tarball
> dpkg-source: error: cannot represent change to src/mo-tools/igd: binary file contents changed
> dpkg-source: error: add src/mo-tools/igd in debian/source/include-binaries if you want to store the modified binary in the debian tarball
> dpkg-source: warning: executable mode 0755 of 'src/mo-tools/igd' will not be represented in diff
> dpkg-source: error: cannot represent change to src/mo-tools/igd.o: binary file contents changed
> dpkg-source: error: add src/mo-tools/igd.o in debian/source/include-binaries if you want to store the modified binary in the debian tarball
> dpkg-source: error: cannot represent change to src/mo-tools/io.o: binary file contents changed
> dpkg-source: error: add src/mo-tools/io.o in debian/source/include-binaries if you want to store the modified binary in the debian tarball
> dpkg-source: error: cannot represent change to src/mo-tools/ndsort: binary file contents changed
> dpkg-source: error: add src/mo-tools/ndsort in debian/source/include-binaries if you want to store the modified binary in the debian tarball
> dpkg-source: warning: executable mode 0755 of 'src/mo-tools/ndsort' will not be represented in diff
> dpkg-source: error: cannot represent change to src/mo-tools/ndsort.o: binary file contents changed
> dpkg-source: error: add src/mo-tools/ndsort.o in debian/source/include-binaries if you want to store the modified binary in the debian tarball
> dpkg-source: error: cannot represent change to src/mo-tools/nondominated: binary file contents changed
> dpkg-source: error: add src/mo-tools/nondominated in debian/source/include-binaries if you want to store the modified binary in the debian tarball
> dpkg-source: warning: executable mode 0755 of 'src/mo-tools/nondominated' will not be represented in diff
> dpkg-source: error: cannot represent change to src/mo-tools/nondominated.o: binary file contents changed
> dpkg-source: error: add src/mo-tools/nondominated.o in debian/source/include-binaries if you want to store the modified binary in the debian tarball
> dpkg-source: error: unrepresentable changes to source
> dpkg-buildpackage: error: dpkg-source -b . subprocess returned exit status 1
> 
> E: Command 'cd /<<PKGBUILDDIR>> && runuser -u user42 -- dpkg-buildpackage --sanitize-env -us -uc -rfakeroot -S' failed to run.


The full build log is available from:
http://qa-logs.debian.net/2023/08/13/r-cran-eaf_2.4.1-1_unstable.log

If you reassign this bug to another package, please mark it as 'affects'-ing
this package. See https://www.debian.org/Bugs/server-control#affects

If you fail to reproduce this, please provide a build log and diff it with mine
so that we can identify if something relevant changed in the meantime.