Package: openms-doc Version: 2.4.0-real-1 Severity: normal Dear Maintainer,
This package failed to build with doxygen 1.8.16-1~exp3 from experimental. It FTBFS with this error: [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}]pdfTeX warning (ext4): de stination with the same identifier (name{page.1}) has been already used, duplic ate ignored <to be read again> \relax l.58 [1] (./tutorial.tex Underfull \hbox (badness 10000) in paragraph at lines 3--4 ... ! ==> Fatal error occurred, no output PDF file produced! Transcript written on refman.log. make[4]: *** [doc/CMakeFiles/doc_tutorials.dir/build.make:65: doc/CMakeFiles/doc_tutorials] Error 1 make[4]: Leaving directory '/<<PKGBUILDDIR>>/debian/build' make[3]: *** [CMakeFiles/Makefile2:34194: doc/CMakeFiles/doc_tutorials.dir/all] Error 2 make[3]: Leaving directory '/<<PKGBUILDDIR>>/debian/build' make[2]: *** [CMakeFiles/Makefile2:34206: doc/CMakeFiles/doc_tutorials.dir/rule] Error 2 make[2]: Leaving directory '/<<PKGBUILDDIR>>/debian/build' make[1]: *** [Makefile:11056: doc_tutorials] Error 2 make[1]: Leaving directory '/<<PKGBUILDDIR>>/debian/build' make: *** [debian/rules:76: build-arch-stamp] Error 2 dpkg-buildpackage: error: debian/rules build subprocess returned exit status 2 More details can be found in the file debian/build/doc/OpenMS_tutorial/latex_output/refman.log at the end of the build. I attach it. Paolo -- System Information: Debian Release: 10.1 APT prefers stable-updates APT policy: (500, 'stable-updates'), (500, 'stable'), (1, 'experimental') Architecture: amd64 (x86_64) Kernel: Linux 4.19.0-6-amd64 (SMP w/12 CPU cores) Kernel taint flags: TAINT_PROPRIETARY_MODULE, TAINT_OOT_MODULE, TAINT_UNSIGNED_MODULE Locale: LANG=it_IT.UTF-8, LC_CTYPE=it_IT.UTF-8 (charmap=UTF-8), LANGUAGE= (charmap=UTF-8) Shell: /bin/sh linked to /bin/dash Init: systemd (via /run/systemd/system) LSM: AppArmor: enabled Versions of packages openms-doc depends on: ii libjs-jquery 3.3.1~dfsg-3 openms-doc recommends no packages. Versions of packages openms-doc suggests: pn libopenms2.4.0 <none> pn topp <none> -- no debconf information
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