Bug#1022354: cctbx: FTBFS: dpkg-source: error: aborting due to unexpected upstream changes, see /tmp/cctbx_2022.9+ds2+~3.11.2+ds1-3.diff.lOjzg7

[Lucas Nussbaum]

Source: cctbx
Version: 2022.9+ds2+~3.11.2+ds1-3
Severity: serious
Justification: FTBFS
Tags: bookworm sid ftbfs
User: lucas at debian.org
Usertags: ftbfs-20221023 ftbfs-bookworm

Hi,

During a rebuild of all packages in sid, your package failed to build
on amd64.


Relevant part (hopefully):
> make[1]: Entering directory '/<<PKGBUILDDIR>>'
> cp -f debian/setup.py setup.py
> cp -r debian/annlib_adaptbx annlib_adaptbx
> mkdir annlib
> cp -r debian/ccp4io_adaptbx ccp4io_adaptbx
> mkdir ccp4io
> cp -r debian/gui_resources gui_resources
> dh_auto_clean
> 	install -d /<<BUILDDIR>>/cctbx-2022.9\+ds2\+\~3.11.2\+ds1/debian/.debhelper/generated/_source/home
> 	pybuild --clean -i python{version} -p 3.10
> I: pybuild base:240: python3.10 setup.py clean 
> running clean
> removing '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.10/build' (and everything under it)
> 'build/bdist.linux-x86_64' does not exist -- can't clean it
> 'build/scripts-3.10' does not exist -- can't clean it
> 	rm -rf .pybuild/
> 	find . -name \*.pyc -exec rm {} \;
> find . -name __pycache__ -type d -exec rm -rf {} \;
> rm -f setup.py
> rm -rf annlib annlib_adaptbx
> rm -rf ccp4io ccp4io_adaptbx
> make[1]: Leaving directory '/<<PKGBUILDDIR>>'
>    dh_autoreconf_clean -O--buildsystem=pybuild
>    dh_clean -O--buildsystem=pybuild
> 	rm -f debian/debhelper-build-stamp
> 	rm -rf debian/.debhelper/
> 	rm -f -- debian/libcctbx0.substvars debian/libcctbx-dev.substvars debian/python3-cctbx.substvars debian/files
> 	rm -fr -- debian/libcctbx0/ debian/tmp/ debian/libcctbx-dev/ debian/python3-cctbx/
> 	find .  \( \( \
> 		\( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \
> 	        \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \
> 		 -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \
> 		 -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \
> 		 -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \
> 		\) -exec rm -f {} + \) -o \
> 		\( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \)
>  dpkg-source -b .
> dpkg-source: info: using source format '3.0 (quilt)'
> dpkg-source: info: building cctbx using existing ./cctbx_2022.9+ds2+~3.11.2+ds1.orig-dxtbx.tar.xz
> dpkg-source: info: building cctbx using existing ./cctbx_2022.9+ds2+~3.11.2+ds1.orig.tar.xz
> dpkg-source: info: using patch list from debian/patches/series
> dpkg-source: warning: ignoring deletion of file dox/Doxyfile.orig, use --include-removal to override
> dpkg-source: info: local changes detected, the modified files are:
>  cctbx-2022.9+ds2+~3.11.2+ds1/gui_resources/ucs-fonts/10x20.bdf
>  cctbx-2022.9+ds2+~3.11.2+ds1/gui_resources/ucs-fonts/8x13.bdf
>  cctbx-2022.9+ds2+~3.11.2+ds1/gui_resources/ucs-fonts/9x15.bdf
>  cctbx-2022.9+ds2+~3.11.2+ds1/gui_resources/ucs-fonts/README
> dpkg-source: error: aborting due to unexpected upstream changes, see /tmp/cctbx_2022.9+ds2+~3.11.2+ds1-3.diff.lOjzg7
> dpkg-source: info: Hint: make sure the version in debian/changelog matches the unpacked source tree
> dpkg-source: info: you can integrate the local changes with dpkg-source --commit
> dpkg-buildpackage: error: dpkg-source -b . subprocess returned exit status 2
> --------------------------------------------------------------------------------
> Build finished at 2022-10-23T07:34:02Z


The full build log is available from:
http://qa-logs.debian.net/2022/10/23/cctbx_2022.9+ds2+~3.11.2+ds1-3_unstable.log

All bugs filed during this archive rebuild are listed at:
https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20221023;users=lucas@debian.org
or:
https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20221023&fusertaguser=lucas@debian.org&allbugs=1&cseverity=1&ctags=1&caffected=1#results

A list of current common problems and possible solutions is available at
http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute!

If you reassign this bug to another package, please marking 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.