[Debian-med-packaging] Bug#836230: genometools: FTBFS in testing (a2x: ERROR: "xsltproc" returned non-zero exit status 6)

[Santiago Vila]

Package: src:genometools
Version: 1.5.9+ds-2
Severity: serious

Dear maintainer:

I tried to build this package in stretch with "dpkg-buildpackage -A"
(which is what the "Arch: all" autobuilder would do to build it)
but it failed:

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[...]
 debian/rules build-indep
dh build-indep --with python2
   dh_testdir -i
   dh_update_autotools_config -i
   dh_auto_configure -i
   debian/rules override_dh_auto_build
make[1]: Entering directory '/<<BUILDDIR>>/genometools-1.5.9+ds'
faketime -f "`TZ=UTC date -d @1469271266 +'%Y-%m-%d %H:%M:%S'`" dh_auto_build -- useshared=yes x32=no 64bit=yes errorcheck=no all docs manuals
	make -j1 useshared=yes x32=no 64bit=yes errorcheck=no all docs manuals
make[2]: Entering directory '/<<BUILDDIR>>/genometools-1.5.9+ds'
[create obj/gt_config.h]
[compile alphabet.o]
[compile array.o]

[... snipped ...]

cp -r gtdata /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/bin
test -d /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools/core \
  || mkdir -p /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools/core
cp src/core/*_api.h /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools/core
test -d /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools/extended \
          || mkdir -p /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools/extended
cp src/extended/*_api.h /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools/extended
test -d /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools/annotationsketch \
          || mkdir -p /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools/annotationsketch
cp src/annotationsketch/*_api.h \
          /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools/annotationsketch
test -d /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools/ltr \
          || mkdir -p /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools/ltr
cp src/ltr/*_api.h /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools/ltr
cp obj/gt_config.h /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools
cp src/genometools.h /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include/genometools
test -d /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/lib || mkdir -p /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/lib
cp lib/libgenometools.a /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/lib
cp lib/libgenometools.so.0 /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/lib
ln -fs /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/lib/libgenometools.so.0 /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/lib/libgenometools.so
[build config script install]
sed -e 's!@CC@!cc!' -e 's!@CFLAGS@!-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/genometools-1.5.9+ds=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security!' \
  -e 's!@CPPFLAGS@!-I\\"/<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/include\\" -Wdate-time -D_FORTIFY_SOURCE=2 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DHAVE_MEMMOVE -D_LARGEFILE64_SOURCE=1 -DHAVE_HIDDEN -DLUA_DL_DLOPEN -DLUA_USE_MKSTEMP -DHAVE_SQLITE!' \
  -e 's!@CXX@!g++!' -e 's!@CXXFLAGS@!-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/genometools-1.5.9+ds=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security!' \
  -e 's!@LDFLAGS@!-L/<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/lib -fPIE -pie -Wl,-z,relro -Wl,-z,now -L/usr/local/lib!' \
  -e 's!@LIBS@! -lm -lbz2 -lz -lexpat -llua5.1 -llua5.1-lpeg -llua5.1 -llua5.1-md5 -llua5.1 -llua5.1-filesystem -llua5.1 -llua5.1-des56 -llua5.1 -lbam -ltre -Wl,-z,relro -lm -lpthread -ldl -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lcairo -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lcairo -lsqlite3!' -e "s!@VERSION@!`cat VERSION`!" \
  -e 's!@BUILDSTAMP@!"2016-08-31 16:47:11"!' \
  -e 's!@SYSTEM@!Linux!' <src/genometools-config.in \
  >/<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/bin/genometools-config
chmod 755 /<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr/bin/genometools-config
bin/gt -createman /tmp/gtmanpages
warning: skipping tool 'mgth' in iterator (not a GtTool object)
warning: skipping tool 'mkfmindex' in iterator (not a GtTool object)
warning: skipping tool 'suffixerator' in iterator (not a GtTool object)
warning: skipping tool 'chkintegrity' in iterator (not a GtTool object)
warning: skipping tool 'chksearch' in iterator (not a GtTool object)
warning: skipping tool 'mkctxmap' in iterator (not a GtTool object)
warning: skipping tool 'mkindex' in iterator (not a GtTool object)
warning: skipping tool 'trsuftab' in iterator (not a GtTool object)
test -d /<<BUILDDIR>>/genometools-1.5.9+ds/doc/manpages || mkdir -p /<<BUILDDIR>>/genometools-1.5.9+ds/doc/manpages
rm -f /<<BUILDDIR>>/genometools-1.5.9+ds/doc/manpages/*
scripts/create_manpages /tmp/gtmanpages /<<BUILDDIR>>/genometools-1.5.9+ds/doc/manpages
.a2x: WARNING: --destination-dir option is only applicable to HTML based outputs
a2x: ERROR: "xsltproc"  --stringparam callout.graphics 0 --stringparam navig.graphics 0 --stringparam admon.textlabel 1 --stringparam admon.graphics 0  "/etc/asciidoc/docbook-xsl/manpage.xsl" "/<<BUILDDIR>>/genometools-1.5.9+ds/doc/manpages/gt.xml" returned non-zero exit status 6
Makefile:948: recipe for target 'manpages' failed
make[2]: *** [manpages] Error 1
make[2]: Leaving directory '/<<BUILDDIR>>/genometools-1.5.9+ds'
dh_auto_install: make -j1 install DESTDIR=/<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp AM_UPDATE_INFO_DIR=no installmanpages useshared=yes x32=no 64bit=yes errorcheck=no prefix=/<<BUILDDIR>>/genometools-1.5.9+ds/debian/tmp/usr returned exit code 2
debian/rules:63: recipe for target 'override_dh_auto_install' failed
make[1]: *** [override_dh_auto_install] Error 2
make[1]: Leaving directory '/<<BUILDDIR>>/genometools-1.5.9+ds'
debian/rules:32: recipe for target 'binary-indep' failed
make: *** [binary-indep] Error 2
dpkg-buildpackage: error: fakeroot debian/rules binary-indep gave error exit status 2
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This used to work in the past, so I would look for build-dependencies
which may have changed their behaviour recently.

Thanks.