Thank you very much for your help, and apologies for the too-general
subject line of my e-mail. Your solution worked perfectly.
> (Changing the subject to something more specific so that other people
> having this problem can find the thread more easily. "update-all" isn't
> really the relevant problem here, because a specific package is to blame.)
>
>
> On 6/18/14, 4:34 AM, Lowell Tacconi-Garman wrote:
>> I've tried a number of times the following combination:
>>
>> fink selfupdate
>> fink update-all
>>
>> but each time it ends as shown in the log below. Could someone please
>> diagnose what is wrong, and tell me how to fix it?
>>
>> Thanks in advance,
>> Lowell Tacconi-Garman
>>
>> [vpn-44-230:~] ltacconi% fink update-all
>> Information about 10647 packages read in 4 seconds.
>> The following 14 packages will be installed or updated:
>> graphviz graphviz-shlibs imagemagick2-shlibs imagemagick5-shlibs
>> libavcodec52-shlibs libavformat52-shlibs libavutil50-shlibs
>> libdjvulibre21-dev
>> libdjvulibre21-shlibs libgegl0.1.0-dev libgegl0.1.0-shlibs
>> libopenraw1-dev libopenraw1-shlibs libxml2-py27
>> The following 10 additional packages will be installed:
>> boost1.55-nopython boost1.55-nopython-shlibs hwloc hwloc-dev
>> hwloc-shlibs libpng14 librsvg2-bin llvm33 openmpi openmpi-shlibs
>> The following package might be temporarily removed:
>> tcltk-dev
>> Do you want to continue? [Y/n] Y
>> Temporarily removing BuildConflicts:
>> tcltk-dev
>> Reading buildlock packages...
>> /sw/bin/dpkg-lockwait --remove tcltk-dev
>> (Reading database ... 106680 files and directories currently installed.)
>> Removing tcltk-dev ...
>> Setting runtime build-lock...
>> dpkg-deb -b /sw/src/fink.build/root-fink-buildlock-graphviz-2.26.3-8
>> /sw/src/fink.build
>> dpkg-deb: building package `fink-buildlock-graphviz-2.26.3-8' in
>> `/sw/src/fink.build/fink-buildlock-graphviz-2.26.3-8_2014.06.18-13.26.56_darwin-x86_64.deb'.
>> Installing build-lock package...
>> /sw/bin/dpkg-lockwait -i
>> /sw/src/fink.build/fink-buildlock-graphviz-2.26.3-8_2014.06.18-13.26.56_darwin-x86_64.deb
>> Selecting previously deselected package fink-buildlock-graphviz-2.26.3-8.
>> (Reading database ... 105538 files and directories currently installed.)
>> Unpacking fink-buildlock-graphviz-2.26.3-8 (from
>> .../fink-buildlock-graphviz-2.26.3-8_2014.06.18-13.26.56_darwin-x86_64.deb)
>> ...
>> Setting up fink-buildlock-graphviz-2.26.3-8 (2014.06.18-13.26.56) ...
>>
>> sudo -u fink-bld [ENV] sh -c /tmp/fink.MdcUh
>> env LANG=C LC_ALL=C /sw/bin/tar --no-same-owner --no-same-permissions
>> -xf /sw/src/graphviz-2.26.3.tar.gz
>> sudo -u fink-bld [ENV] sh -c /tmp/fink.Ftwdb
>> [ -r /sw/fink/dists/stable/main/finkinfo/graphics/graphviz.patch ]
>> sudo -u fink-bld [ENV] sh -c /tmp/fink.qqQ3r
>> /tmp/fink.2SucW
>> #!/bin/sh -ev
>> sed 's|@FINKPREFIX@|/sw|g' <
>> /sw/fink/dists/stable/main/finkinfo/graphics/graphviz.patch | patch -p1
>> patching file configure
>> patching file plugin/quartz/gvplugin_quartz.h
>> patching file plugin/quartz/gvplugin_quartz.c
>> patching file plugin/quartz/gvloadimage_quartz.c
>> patching file plugin/quartz/gvrender_quartz.c
>> patching file lib/gvc/gvcext.h
>> patching file tclpkg/gv/Makefile.am
>> Hunk #1 succeeded at 100 (offset -11 lines).
>> patching file tclpkg/gv/Makefile.in
>> Hunk #1 succeeded at 2825 (offset -537 lines).
>> patching file configure
>> Hunk #1 succeeded at 27582 with fuzz 2 (offset 5657 lines).
>> sed -i.orig -e '/OCAML/s|/usr|/sw|g' \
>> -e '/framework/s|-\(framework\) |-Wl,-\1,|g' \
>> configure
>> # don't bother with Makefile.am
>> for f in `grep -lr -e "-framework " macosx plugin | grep -v \.am` ; do
>> sed -i.orig -e '/framework/s|-\(framework\) |-Wl,-\1,|g' $f
>> done
>> grep -lr -e "-framework " macosx plugin | grep -v \.am
>> sed -i.orig -e '/am__append_5/s|LIBLTDL|LTDLDEPS|' lib/gvc/Makefile.in
>> sudo -u fink-bld [ENV] sh -c /tmp/fink.KM2nu
>> /tmp/fink.Mz37k
>> #!/bin/sh -ev
>> ruby_h_path=`find /usr/lib/ruby -name ruby.h | head -n 1`
>> find /usr/lib/ruby -name ruby.h | head -n 1
>> test -f "$ruby_h_path" || ruby_h_path=`find /System/Library/Frameworks
>> -name ruby.h | head -n 1`
>> find /System/Library/Frameworks -name ruby.h | head -n 1
>> test -f "$ruby_h_path" && echo "Found ruby.h as $ruby_h_path, using its
>> dirname..."
>> Found ruby.h as
>> /System/Library/Frameworks/Ruby.framework/Versions/1.8/Headers/ruby.h,
>> using its dirname...
>> system_ruby_include=`dirname $ruby_h_path`
>> dirname $ruby_h_path
>> test -d "$system_ruby_include"
>> if test -d "/usr/X11R6"
>> then X11_ROOT=/usr/X11R6
>> elif test -d "/opt/X11"
>> then X11_ROOT=/opt/X11
>> elif test "." = "."
>> then { echo "No X11 found."; exit 1; }
>> # else, don't care if X11 is not found for -nox
>> fi
>> # handle java
>> JAVA_VERSION=`javac -version 2>&1 >/dev/null | cut -d ' ' -f 2`
>> javac -version 2>&1 >/dev/null | cut -d ' ' -f 2
>> JAVA_RELEASE=`javac -version 2>&1 >/dev/null | cut -d ' ' -f 2 | cut
>> -d. -f1-2`
>> javac -version 2>&1 >/dev/null | cut -d ' ' -f 2 | cut -d. -f1-2
>> case "$JAVA_RELEASE" in
>> "1.6") export LDFLAGS="-Wl,-framework,JavaVM
>> -Wl,-framework,ApplicationServices -Wl,-framework,CoreServices"
>> ./configure --prefix=/sw --mandir=/sw/share/man \
>> --disable-static \
>> --with-included-ltdl=no \
>> --with-ltdl-include=/sw/include \
>> --with-ltdl-lib=/sw/lib \
>> --with-extraincludedir=/sw/include \
>> --with-extralibdir=/sw/lib \
>> --with-tcl=/usr/bin/tclsh \
>> --with-tclsh=/usr/bin/tclsh \
>> --with-wish=/usr/bin/wish \
>> --without-lasi \
>> --without-ghostscript \
>> --without-devil \
>> --with-ming \
>> --with-quartz \
>> LUA=lua51 \
>> --with-x \
>> --with-rsvg \
>> --x-includes=$X11_ROOT/include \
>> --x-libraries=$X11_ROOT/lib \
>> --with-glitz \
>> --with-libgd \
>> --with-gts \
>> --with-glutincludedir="/sw/include -I$X11_ROOT/include" \
>> --with-glutlibdir=/sw/lib \
>> \
>> \
>> \
>> \
>> \
>> \
>> \
>> \
>> \
>> \
>> \
>> --disable-r \
>> --disable-perl \
>> --disable-python \
>> GUILE=/sw/bin/guile-1.8 \
>> PKG_CONFIG_PATH="/sw/lib/fontconfig2/lib/pkgconfig:$PKG_CONFIG_PATH" \
>> RUBY=/usr/bin/ruby
>> CPPFLAGS="-I/System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/CoreGraphics.framework/Versions/A/Headers
>> -I/System/Library/Frameworks/JavaVM.framework/Versions/A/Headers
>> -I/sw/lib/ocaml -idirafter $system_ruby_include" -C
>> ;;
>> "1.7" ) export
>> LDFLAGS="-L/Library/Java/JavaVirtualMachines/jdk$JAVA_VERSION.jdk/Contents/Home/lib
>> -Wl,-framework,ApplicationServices -Wl,-framework,CoreServices"
>> ./configure --prefix=/sw --mandir=/sw/share/man \
>> --disable-static \
>> --with-included-ltdl=no \
>> --with-ltdl-include=/sw/include \
>> --with-ltdl-lib=/sw/lib \
>> --with-extraincludedir=/sw/include \
>> --with-extralibdir=/sw/lib \
>> --with-tcl=/usr/bin/tclsh \
>> --with-tclsh=/usr/bin/tclsh \
>> --with-wish=/usr/bin/wish \
>> --without-lasi \
>> --without-ghostscript \
>> --without-devil \
>> --with-ming \
>> --with-quartz \
>> LUA=lua51 \
>> --with-x \
>> --with-rsvg \
>> --x-includes=$X11_ROOT/include \
>> --x-libraries=$X11_ROOT/lib \
>> --with-glitz \
>> --with-libgd \
>> --with-gts \
>> --with-glutincludedir="/sw/include -I$X11_ROOT/include" \
>> --with-glutlibdir=/sw/lib \
>> \
>> \
>> \
>> \
>> \
>> \
>> \
>> \
>> \
>> \
>> \
>> --disable-r \
>> --disable-perl \
>> --disable-python \
>> GUILE=/sw/bin/guile-1.8 \
>> PKG_CONFIG_PATH="/sw/lib/fontconfig2/lib/pkgconfig:$PKG_CONFIG_PATH" \
>> RUBY=/usr/bin/ruby
>> CPPFLAGS="-I/System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/CoreGraphics.framework/Versions/A/Headers
>> -I/Library/Java/JavaVirtualMachines/jdk$JAVA_VERSION.jdk/Contents/Home/include
>> -I/sw/lib/ocaml -idirafter $system_ruby_include" -C
>> ;;
>> *) ;;
>> esac
>> # TK_XINCLUDES needed for 10.8
>> sed -i.orig -e '/framework/s|-\(framework\) |-Wl,-\1,|g' \
>> -e "/TK_XINCLUDES/s|\"\"|\"-I$X11_ROOT/include\"|" config.status
>> sed: config.status: No such file or directory
>> ### execution of /tmp/fink.Mz37k failed, exit code 1
>> ### execution of /tmp/fink.KM2nu failed, exit code 1
>> Removing runtime build-lock...
>> Removing build-lock package...
>> /sw/bin/dpkg-lockwait -r fink-buildlock-graphviz-2.26.3-8
>> (Reading database ... 105539 files and directories currently installed.)
>> Removing fink-buildlock-graphviz-2.26.3-8 ...
>> Reading buildlock packages...
>> /sw/bin/dpkg-lockwait -i
>> /sw/fink/dists/stable/main/binary-darwin-x86_64/languages/tcltk-dev_8.5.15-4_darwin-x86_64.deb
>> Selecting previously deselected package tcltk-dev.
>> (Reading database ... 105538 files and directories currently installed.)
>> Unpacking tcltk-dev (from .../tcltk-dev_8.5.15-4_darwin-x86_64.deb) ...
>> Setting up tcltk-dev (8.5.15-4) ...
>>
>> Failed: phase compiling: graphviz-2.26.3-8 failed
>>
>> Before reporting any errors, please run "fink selfupdate" and try again.
>>
>> If you continue to have issues, please check to see if the FAQ on Fink's
>> website solves the problem. If not, ask on one (not both, please) of
>> these mailing lists:
>>
>> The Fink Users List <fink-users@lists.sourceforge.net>
>> The Fink Beginners List <fink-beginn...@lists.sourceforge.net>,
>>
>> with a carbon copy to the maintainer:
>>
>> David Fang <fang...@users.sourceforge.net>
>>
>> Note that this is preferable to emailing just the maintainer directly,
>> since most fink package maintainers do not have access to all possible
>> hardware and software configurations.
>>
>> Please try to include the complete error message in your report. This
>> generally consists of a compiler line starting with e.g. "gcc" or "g++"
>> followed by the actual error output from the compiler.
>>
>> Also include the following system information:
>> Package manager version: 0.37.0
>> Distribution version: selfupdate-rsync Wed Jun 18 13:24:19 2014, 10.7,
>> x86_64
>> Trees: local/main stable/main unstable/main unstable/crypto
>> Xcode.app: 4.6.3
>> Xcode command-line tools: 4.6.0.0.1.1365549073
>> Max. Fink build jobs: 1
>>
> A selfupdate only changes the situation if the package which isn't
> building has received an update, which doesn't appear to be the case here.
>
> What appears to have happened here is that the $JAVA_RELEASE variable
> has a value which isn't either 1.6 or 1.7, and so the configure script
> isn't being run. I see the same thing as you do, since I have a
> Java-1.8 JDK installed.
>
> If you edit /sw/fink/10.7/stable/main/finkinfo/graphics/graphviz.info
> and change the line which says
>
> "1.7" ) export
> LDFLAGS="-L/Library/Java/JavaVirtualMachines/jdk$JAVA_VERSION.jdk/Contents/Home/lib
> -Wl,-framework,ApplicationServices -Wl,-framework,CoreServices"
>
> to
>
> 1.[78] ) export
> LDFLAGS="-L/Library/Java/JavaVirtualMachines/jdk$JAVA_VERSION.jdk/Contents/Home/lib
> -Wl,-framework,ApplicationServices -Wl,-framework,CoreServices"
>
>
> that will allow the build to proceed.
--
------------------------
Lowell E. Tacconi-Garman
User Support Department
European Southern Observatory
Karl-Schwarzschild-Str. 2, D-85748 Garching bei Muenchen, Germany
tel : +49 89 3200 6416 fax : +49 89 3200 6898 email : ltacc...@eso.org
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