Glib complains about missing docbook xml dtd

Message

zixnub · Post by **zixnub** » Thu Jan 31, 2013 2:18 pm

I'm setting up a cross compilation environment for raspi, yet when I try to emerge glib, I get:

checking for xsltproc... /usr/bin/xsltproc
checking for XML catalog (/etc/xml/catalog)... found
checking for xmlcatalog... /usr/bin/xmlcatalog
checking for DocBook XML DTD V4.1.2 in XML catalog... not found
configure: error: DocBook DTD is required for --enable-man

emerging it manually

Code: Select all

armv6j-hardfloat-linux-gnueabi-emerge -av app-text/docbook-xml-dtd app-text/docbook-xml-simple-dtd docbook-sgml-dtd libxml2

does not solve it.

What's the exact reason for this error, can I work around it (I don't need any manuals)?

ch64-2 · Post by **ch64-2** » Tue Feb 12, 2013 3:13 am

I have the same issue.

Code: Select all

checking for broken poll... no
checking whether compiler understands -Wno-pointer-sign... yes
checking for EILSEQ... yes
checking for gtkdoc-check... no
checking for gtkdoc-rebase... /usr/bin/gtkdoc-rebase
checking for gtkdoc-mkpdf... no
checking whether to build gtk-doc documentation... no
checking for xsltproc... /usr/bin/xsltproc
checking for XML catalog (/etc/xml/catalog)... found
checking for xmlcatalog... /usr/bin/xmlcatalog
checking for DocBook XML DTD V4.1.2 in XML catalog... not found
configure: error: DocBook DTD is required for --enable-man

!!! Please attach the following file when seeking support:
!!! /var/tmp/portage/dev-libs/glib-2.34.3/work/glib-2.34.3/config.log
 * ERROR: dev-libs/glib-2.34.3 failed (configure phase):
 *   econf failed

I can't merge libxml2 and doing a system/world overall sync because of this glib error.

Code: Select all

# emerge -av app-text/docbook-xml-dtd app-text/docbook-xml-simple-dtd docbook-sgml-dtd libxml2


These are the packages that would be merged, in order:

Calculating dependencies... done!
[ebuild   R    ] app-text/docbook-sgml-dtd-4.5:4.5  0 kB
[ebuild   R    ] app-text/docbook-xml-simple-dtd-4.1.2.5-r2:4.1.2.5  0 kB
[ebuild     U  ] dev-libs/glib-2.34.3:2 [2.22.5:2] USE="-debug (-fam*) (-selinux) -static-libs% -systemtap% {-test%} -utils% -xattr (-doc%) (-hardened%)" 0 kB
[ebuild     U  ] dev-util/pkgconfig-0.28 [0.23] USE="-hardened -internal-glib%" 0 kB
[ebuild  N     ] virtual/pkgconfig-0  0 kB
[ebuild  NS    ] dev-lang/python-2.7.3-r3:2.7 [2.4.4-r13:2.4, 2.5.4-r3:2.5, 2.6.5-r2:2.6, 3.1.2-r3:3.1] USE="gdbm ipv6 ncurses readline ssl threads (wide-unicode) xml -berkdb -build -doc -examples -sqlite -tk -wininst" 0 kB
[ebuild     U  ] dev-libs/libxml2-2.9.0-r1:2 [2.7.7:2] USE="ipv6 python readline -debug -examples -icu% -lzma% -static-libs% {-test} (-doc%)" PYTHON_TARGETS="python2_7%* -python2_5% -python2_6%" 0 kB
[ebuild   R    ] app-text/docbook-xml-dtd-4.5-r1:4.5  0 kB

Total: 8 packages (3 upgrades, 1 new, 1 in new slot, 3 reinstalls), Size of downloads: 0 kB

Is there anything i can do, here?

I'm trying to update the whole system from an old image to a new state.

Code: Select all


# emerge --info
Portage 2.1.11.50 (default/linux/x86/13.0/desktop, gcc-4.4.3, glibc-2.16.0, 3.6.11 i686)
=================================================================
System uname: Linux-3.6.11-i686-Intel-R-_Celeron-R-_CPU_550_@_2.00GHz-with-gentoo-2.2
KiB Mem:     2060892 total,    342564 free
KiB Swap:    1545668 total,   1545668 free
Timestamp of tree: Mon, 11 Feb 2013 10:30:01 +0000
ld GNU ld (GNU Binutils) 2.20.1.20100303
distcc 3.1 i686-pc-linux-gnu [disabled]
app-shells/bash:          4.2_p42
dev-java/java-config:     2.1.11
dev-lang/python:          2.4.4-r13, 2.5.4-r3, 2.6.5-r2, 3.1.2-r3
dev-util/cmake:           2.6.4-r2
dev-util/pkgconfig:       0.23
sys-apps/baselayout:      2.2
sys-apps/openrc:          0.6.1-r1
sys-apps/sandbox:         2.6
sys-devel/autoconf:       2.13, 2.69
sys-devel/automake:       1.5, 1.7.9-r1, 1.9.6-r2, 1.10.2, 1.11.1
sys-devel/binutils:       2.20.1
sys-devel/gcc:            4.1.2, 4.3.3-r2, 4.4.3-r2
sys-devel/gcc-config:     1.8
sys-devel/libtool:        2.2.6b
sys-devel/make:           3.81-r2
sys-kernel/linux-headers: 3.7 (virtual/os-headers)
sys-libs/glibc:           2.16.0
Repositories: gentoo
ACCEPT_KEYWORDS="x86 ~x86"
ACCEPT_LICENSE="*"
CBUILD="i686-pc-linux-gnu"
CFLAGS="-Os -march=pentium4 -pipe -fomit-frame-pointer"
CHOST="i686-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/HSOconnect /usr/share/config /var/lib/hsqldb"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo /usr/share/HSOconnect/images /usr/share/HSOconnect/languages"
CXXFLAGS="-Os -march=pentium4 -pipe -fomit-frame-pointer"
DISTDIR="/usr/portage/distfiles"
FCFLAGS="-O2 -march=i686 -pipe"
FEATURES="assume-digests binpkg-logs ccache config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync news parallel-fetch protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch"
FFLAGS="-O2 -march=i686 -pipe"
GENTOO_MIRRORS="http://distfiles.gentoo.org"
LANG="de_DE"
LC_ALL="de_DE.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
MAKEOPTS="-j5"
PKGDIR="/usr/portage/packages"
PORTAGE_CONFIGROOT="/"
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages"
PORTAGE_TMPDIR="/var/tmp"
PORTDIR="/usr/portage"
PORTDIR_OVERLAY=""
SYNC="rsync://rsync.gentoo.org/gentoo-portage"
USE="=npp PolicyKit PyGTK X a52 aac acl acpi alsa apic apm arts automount avi bash-completition berkdb bluetooth branding bzip2 cairo cdaudio cdda cddb cdparanoia cdr cgi cli consolekit cracklib crypt cups cxx dbus distcc divx dri dts dvd dvdr eap-sim emboss encode evdev exif fam ffmpeg firefox fla flac flash fortran gdbm gif gimp gphoto2 gpm gtk hal hddtemp iconv injection ipv6 java jbig jpeg jpeg2 kaffeine kde keyboard lame lcms ldap libnotify lm_sensors lzo mad madwifi mdnsresponder-compat mmx mng modplug modules mouse mp3 mp4 mpack mpeg msr mudflap musepack ncurses nforce2 nls nntp nptl nptlonly nvidia objc ogg opengl openmp oss pam pango pcmcia pcre pdf perl pmu png policykit ppds pulseaudio qt3support qt4 rdesktop readline samba sdl session sid sim smp sndfile soap speex spell sse sse2 ssl ssse3 startup-notification svg swf synaptics tcl tcpd theora tiff truetype udev udisks ui unicode upower usb vcdinfo vme vorbis wavpack webkit wifi wma wxwidgets x264 x86 xcb xine xinerama xml xv xvid zlib" ALSA_CARDS="ali5451 als4000 atiixp atiixp-modem bt87x ca0106 cmipci emu10k1 emu10k1x ens1370 ens1371 es1938 es1968 fm801 hda-intel intel8x0 intel8x0m maestro3 trident usb-audio via82xx via82xx-modem ymfpci" ALSA_PCM_PLUGINS="adpcm alaw asym copy dmix dshare dsnoop empty extplug file hooks iec958 ioplug ladspa lfloat linear meter mmap_emul mulaw multi null plug rate route share shm softvol" APACHE2_MODULES="authn_core authz_core socache_shmcb unixd actions alias auth_basic authn_alias authn_anon authn_dbm authn_default authn_file authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache cgi cgid dav dav_fs dav_lock deflate dir disk_cache env expires ext_filter file_cache filter headers include info log_config logio mem_cache mime mime_magic negotiation rewrite setenvif speling status unique_id userdir usertrack vhost_alias" CALLIGRA_FEATURES="kexi words flow plan sheets stage tables krita karbon braindump" CAMERAS="ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf superstar2 timing tsip tripmate tnt ubx" INPUT_DEVICES="synaptics evdev mouse keyboard penmount" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LINGUAS="de en" PHP_TARGETS="php5-3" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_2" RUBY_TARGETS="ruby18 ruby19" USERLAND="GNU" VIDEO_CARDS="vesa vesafb intel" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq steal rawnat logmark ipmark dhcpmac delude chaos account"
Unset:  CPPFLAGS, CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON

UPDATE:

config.log prints out:

Code: Select all

configure:27378: result: /usr/bin/xmlcatalog
configure:27399: checking for DocBook XML DTD V4.1.2 in XML catalog
configure:27402: $XMLCATALOG --noout "$XML_CATALOG_FILE" "-//OASIS//DTD DocBook XML V4.1.2//EN" >&2
/usr/bin/xmlcatalog: error while loading shared libraries: libxml2.so.2: cannot open shared object file: No such file or directory
configure:27405: $? = 127
configure:27411: result: not found
configure:27420: error: DocBook DTD is required for --enable-man

so the libxml2 is the problem.
i now need to see in what order reinstall, because glib is needed by libxml2.

gienah · Post by **gienah** » Tue Feb 12, 2013 10:14 am

Code: Select all

configure:27378: result: /usr/bin/xmlcatalog 
configure:27399: checking for DocBook XML DTD V4.1.2 in XML catalog 
configure:27402: $XMLCATALOG --noout "$XML_CATALOG_FILE" "-//OASIS//DTD DocBook XML V4.1.2//EN" >&2 
/usr/bin/xmlcatalog: error while loading shared libraries: libxml2.so.2: cannot open shared object file: No such file or directory 
configure:27405: $? = 127 
configure:27411: result: not found 
configure:27420: error: DocBook DTD is required for --enable-man

so the libxml2 is the problem.

Well you seem like you are on the right track, but that is an incorrect conclusion, it is /usr/bin/xmlcatalog that is broken so you want to rebuild the package that contains it, which you can find with:

Code: Select all

equery belongs /usr/bin/xmlcatalog

Edit: Looking at this more, maybe you are correct about libxml2 being the problem, as on my system I have:

Code: Select all

# ls -al /usr/lib64/libxml2*
lrwxrwxrwx 1 root root      16 Feb 10 20:10 /usr/lib64/libxml2.so -> libxml2.so.2.8.0
lrwxrwxrwx 1 root root      16 Feb 10 20:10 /usr/lib64/libxml2.so.2 -> libxml2.so.2.8.0
-rwxr-xr-x 1 root root 1413592 Feb 10 20:10 /usr/lib64/libxml2.so.2.8.0
#

It might be best to rebuild both libxml and the package that contains /usr/bin/xmlcatalog

cwr · Post by **cwr** » Tue Feb 12, 2013 12:19 pm

There are an awful lot of varieties of DocBook. I've ended up with:

Code: Select all

app-text/build-docbook-catalog-1.19.1:0
app-text/docbook-dsssl-stylesheets-1.79:0
app-text/docbook-sgml-dtd-3.0-r3:3.0
app-text/docbook-sgml-dtd-3.1-r3:3.1
app-text/docbook-sgml-dtd-4.0-r3:4.0
app-text/docbook-sgml-dtd-4.1-r3:4.1
app-text/docbook-sgml-utils-0.6.14-r1:0
app-text/docbook-xml-dtd-4.1.2-r6:4.1.2
app-text/docbook-xml-dtd-4.2-r2:4.2
app-text/docbook-xml-dtd-4.3-r1:4.3
app-text/docbook-xml-dtd-4.4-r2:4.4
app-text/docbook-xml-dtd-4.5-r1:4.5
app-text/docbook-xml-simple-dtd-1.0-r1:1.0
app-text/docbook-xml-simple-dtd-4.1.2.4-r2:0
app-text/docbook-xsl-stylesheets-1.77.1-r1:0

and there are sometimes missing dependencies in package doc flags.
I'd try re-emerging the specific DocBook version you want, and see
if that helps.

Will

ExecutorElassus · Post by **ExecutorElassus** » Sun Feb 24, 2013 2:46 pm

loth libxml and /usr/bin/xmlcatalog are owned by dev-libs/libxml2. However, emerging this package did not solve this problem for me, either.

Perhaps something screwy is going on here? Here are the actual error messages I get trying to emerge glib:

Code: Select all

checking pkg-config is at least version 0.16... /usr/bin/pkg-config: error while loading shared libraries: libglib-2.0.so.0: cannot open shared object file: No such file or director

and

Code: Select all

checking for xmlcatalog... /usr/bin/xmlcatalog
checking for DocBook XML DTD V4.1.2 in XML catalog... not found
configure: error: DocBook DTD is required for --enable-man

the latter of which seems to be the fatal error.

So what's going on here? In my case, this is on a brand-new install (still inside the liveCD), and I'm still running into errors.

Cheers,

EE
UPDATE: so, it seems pkgconfig might have issues. Check it:

Code: Select all

checking for Win32... no
checking if internal glib should be used... no
checking for x86_64-pc-linux-gnu-pkg-config... no
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... /usr/bin/pkg-config: error while loading shared libraries: libglib-2.0.so.0: cannot open shared object file: No such file or directory
no
checking for GLIB... no
configure: error: Either a previously installed pkg-config or "glib-2.0 >= 2.16" could not be found. Please set GLIB_CFLAGS and GLIB_LIBS to the correct values or pass --with-internal-glib to configure to use the bundled copy.

So, glib requires pkgconfig to work, but pkgconfig cannot emerge without a working link to glib. How to I get around this?

Capashen · Post by **Capashen** » Mon Apr 14, 2014 12:34 pm

It's an old post, but I found myself facing the same issue.

Actually the problem comes from /etc/xml/docbook and /etc/xml/catalog, the permissions are not set correctly for portage, because portage is using portage as user and group when running.
Those files are used to check either XML Docbook is installed or not, and portage is not able to read it.

To fix this issue just adjust rights on the following files and folder :

Code: Select all

chmod 655 /etc/xml
chmod 644 /etc/xml/docbook
chmod 644 /etc/xml/catalog

Art Vandalay · Post by **Art Vandalay** » Sun Jun 08, 2014 1:42 am

I'm now also experiencing the same issue, and have tried the above suggestions to no avail.

Did you guys resolve this?

Art Vandalay · Post by **Art Vandalay** » Sun Jun 08, 2014 3:27 am

looks like there was a problem with my catalog

doing the following has fixed it for me:

Code: Select all

rm /etc/xml/{catalog,docbook}
emerge libxml2 docbook-xsl-stylesheets docbook-xml-dtd

glib now compiles successfully