Re: [Fink-users] openmpi-1.8.4.3 configure fails on Mac 10.9.5
Thanks! Updating libxml2 fixed the problem. Peter On May 7, 2015, at 4:02 PM, Jack Howarth wrote: > The problem is obvious in the config.log... > > configure:3734: /usr/bin/clang -o conftest -O3 -DNDEBUG > -I/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4 > -I/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4 > -I/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4/opal/include > -I/sw/include -Wl,-flat_namespace -L/sw/lib conftest.c -lhwloc >> &5 > configure:3738: $? = 0 > configure:3745: ./conftest > dyld: Library not loaded: /sw/lib/libxml2.2.dylib > Referenced from: /sw/lib/libhwloc.5.dylib > Reason: Incompatible library version: libhwloc.5.dylib requires > version 12.0.0 or later, but libxml2.2.dylib provides version 10.0.0 > ./configure: line 3747: 39330 Trace/BPT trap: 5 ./conftest$ac_cv_exeext > configure:3749: $? = 133 > configure:3756: error: in > `/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4/opal/mca/event/libevent2021/libevent': > configure:3758: error: cannot run C compiled programs. > If you meant to cross compile, use `--host'. > > The installed /sw/lib/libhwloc.5.dylib on your machine is properly > linked to the current libxml2 (as is mine on 10.9)... > > % otool -L /sw/lib/libhwloc.5.dylib > /sw/lib/libhwloc.5.dylib: > /sw/lib/libhwloc.5.dylib (compatibility version 12.0.0, current version > 12.1.0) > /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current > version 1197.1.1) > /sw/lib/libxml2.2.dylib (compatibility version 12.0.0, current version 12.1.0) > > but it appears that you have an older copy of the > /sw/lib/libxml2.2.dylib installed. Do you see the following? > > % otool -L /sw/lib/libxml2.2.dylib > /sw/lib/libxml2.2.dylib: > /sw/lib/libxml2.2.dylib (compatibility version 12.0.0, current version 12.1.0) > /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current > version 1197.1.1) > /usr/lib/libz.1.dylib (compatibility version 1.0.0, current version 1.2.5) > /sw/lib/liblzma.5.dylib (compatibility version 6.0.0, current version 6.5.0) > /sw/lib/libiconv.2.dylib (compatibility version 8.0.0, current version 8.1.0) > > with the installed libxml2 having a compatibility version of 12.0.0? > If not try 'fink rebuild libxml2'. > Jack > > On Thu, May 7, 2015 at 6:22 PM, Barnes, Peter D. wrote: >> Moving /usr/local and /opt/local didn't change anything. >> >> Requested config.log is attached. >> >> Thanks, >> Peter >> >> On May 7, 2015, at 1:46 PM, Jack Howarth >> wrote: >>> No problems building on 10.9 here. Please post the config.log from >>> /sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4/opal/mca/event/libevent2021/libevent >>> so we can see the actual error. Also try the usual checks of moving >>> aside /usr/local and /opt/local to make sure that doesn't solve your >>> build problem. >>> >>> On Thu, May 7, 2015 at 3:12 PM, Barnes, Peter D. wrote: Hello Folks, openmpi-1.8.43 build fails, during a configure step. This is after reducing build jobs to 1, rebooting, and fink self-update. Thanks for any hints, Peter Package manager version: 0.38.4 Distribution version: selfupdate-rsync Thu May 7 11:09:59 2015, 10.9, x86_64 Trees: local/main stable/main unstable/main Xcode.app: 6.1.1 Xcode command-line tools: 6.2.0.0.1.1424975374 Max. Fink build jobs: 1 Hardware Overview: Model Name:MacBook Pro Model Identifier: MacBookPro5,4 Processor Name:Intel Core 2 Duo Processor Speed: 2.53 GHz Number of Processors: 1 Total Number of Cores: 2 System Software Overview: System Version:OS X 10.9.5 (13F1077) Kernel Version:Darwin 13.4.0 Failed build step: > --- MCA component event:libevent2021 (m4 configuration macro, priority 80) > checking for MCA component event:libevent2021 compile mode... static > checking libevent configuration args... --disable-dns --disable-http > --disable-rpc --disable-openssl --enable-thread-support --disable-evport > configure: OMPI configuring in opal/mca/event/libevent2021/libevent > configure: running /bin/sh './configure' --disable-dns --disable-http > --disable-rpc --disable-openssl --enable-thread-support --disable-evport > '--prefix=/sw' '--datadir=/sw/share/doc' '--sysconfdir=/sw/etc/openmpi' > '--sharedstatedir=/sw/var/openmpi/shared' > '--localstatedir=/sw/var/openmpi/local' '--libdir=/sw/lib/openmpi' > '--includedir=/sw/include' '--infodir=/sw/share/info' > '--mandir=/sw/share/man' '--enable-shared' '--enable-static' > 'FCFLAGS=-O3' '--with-devel-headers' 'FC=gfortran-fsf-5' > '--with-hwloc=/sw' 'CC=/usr/bin/clang' 'CXX=/usr/bin/clang++' > --cache-file=/dev/null --srcdir=. --disable-option-checking > checking for a BSD-compatible install... /usr/bin/install -c > checking whether build environment is sane... yes > checking for a th
Re: [Fink-users] openmpi-1.8.4.3 configure fails on Mac 10.9.5
> On May 7, 2015, at 16:02, Jack Howarth wrote: > > The problem is obvious in the config.log... > > configure:3734: /usr/bin/clang -o conftest -O3 -DNDEBUG > -I/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4 > -I/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4 > -I/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4/opal/include > -I/sw/include -Wl,-flat_namespace -L/sw/lib conftest.c -lhwloc >> &5 > configure:3738: $? = 0 > configure:3745: ./conftest > dyld: Library not loaded: /sw/lib/libxml2.2.dylib > Referenced from: /sw/lib/libhwloc.5.dylib > Reason: Incompatible library version: libhwloc.5.dylib requires > version 12.0.0 or later, but libxml2.2.dylib provides version 10.0.0 > ./configure: line 3747: 39330 Trace/BPT trap: 5 ./conftest$ac_cv_exeext > configure:3749: $? = 133 > configure:3756: error: in > `/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4/opal/mca/event/libevent2021/libevent': > configure:3758: error: cannot run C compiled programs. > If you meant to cross compile, use `--host'. > > The installed /sw/lib/libhwloc.5.dylib on your machine is properly > linked to the current libxml2 (as is mine on 10.9)... > > % otool -L /sw/lib/libhwloc.5.dylib > /sw/lib/libhwloc.5.dylib: > /sw/lib/libhwloc.5.dylib (compatibility version 12.0.0, current version > 12.1.0) > /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current > version 1197.1.1) > /sw/lib/libxml2.2.dylib (compatibility version 12.0.0, current version 12.1.0) > > but it appears that you have an older copy of the > /sw/lib/libxml2.2.dylib installed. Do you see the following? > > % otool -L /sw/lib/libxml2.2.dylib > /sw/lib/libxml2.2.dylib: > /sw/lib/libxml2.2.dylib (compatibility version 12.0.0, current version 12.1.0) > /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current > version 1197.1.1) > /usr/lib/libz.1.dylib (compatibility version 1.0.0, current version 1.2.5) > /sw/lib/liblzma.5.dylib (compatibility version 6.0.0, current version 6.5.0) > /sw/lib/libiconv.2.dylib (compatibility version 8.0.0, current version 8.1.0) > > with the installed libxml2 having a compatibility version of 12.0.0? > If not try 'fink rebuild libxml2'. > Jack > Or perhaps your libxml2-shlibs just happens not to be current. I’m noticing that hwloc doesn’t declare a dependency on libxml2, much less a versioned one, in spite of the fact that it links to libxml2.2.dylib. It’s quite possible under such a scenario to grab a hwloc-shlibs from the binary distribution without any update to libxml2-shlibs—or even not to install libxml2-shlibs at all. Also, if DYLD_LIBRARY_PATH has been set globally so that the fink build process doesn’t automatically unset it, that can cause the linker to point to some other, incompatible libxml2.2.dylib . -- Alexander Hansen, Ph.D. Fink User Liaison -- One dashboard for servers and applications across Physical-Virtual-Cloud Widest out-of-the-box monitoring support with 50+ applications Performance metrics, stats and reports that give you Actionable Insights Deep dive visibility with transaction tracing using APM Insight. http://ad.doubleclick.net/ddm/clk/290420510;117567292;y ___ Fink-users mailing list Fink-users@lists.sourceforge.net List archive: http://news.gmane.org/gmane.os.macosx.fink.user Subscription management: https://lists.sourceforge.net/lists/listinfo/fink-users
Re: [Fink-users] openmpi-1.8.4.3 configure fails on Mac 10.9.5
Moving /usr/local and /opt/local didn't change anything. Requested config.log is attached. Thanks, Peter On May 7, 2015, at 1:46 PM, Jack Howarth wrote: > No problems building on 10.9 here. Please post the config.log from > /sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4/opal/mca/event/libevent2021/libevent > so we can see the actual error. Also try the usual checks of moving > aside /usr/local and /opt/local to make sure that doesn't solve your > build problem. > > On Thu, May 7, 2015 at 3:12 PM, Barnes, Peter D. wrote: >> Hello Folks, >> >> openmpi-1.8.43 build fails, during a configure step. >> >> This is after reducing build jobs to 1, rebooting, and fink self-update. >> >> Thanks for any hints, >> Peter >> >> Package manager version: 0.38.4 >> Distribution version: selfupdate-rsync Thu May 7 11:09:59 2015, 10.9, x86_64 >> Trees: local/main stable/main unstable/main >> Xcode.app: 6.1.1 >> Xcode command-line tools: 6.2.0.0.1.1424975374 >> Max. Fink build jobs: 1 >> >> Hardware Overview: >> Model Name:MacBook Pro >> Model Identifier: MacBookPro5,4 >> Processor Name:Intel Core 2 Duo >> Processor Speed: 2.53 GHz >> Number of Processors: 1 >> Total Number of Cores: 2 >> System Software Overview: >> System Version:OS X 10.9.5 (13F1077) >> Kernel Version:Darwin 13.4.0 >> >> Failed build step: >>> --- MCA component event:libevent2021 (m4 configuration macro, priority 80) >>> checking for MCA component event:libevent2021 compile mode... static >>> checking libevent configuration args... --disable-dns --disable-http >>> --disable-rpc --disable-openssl --enable-thread-support --disable-evport >>> configure: OMPI configuring in opal/mca/event/libevent2021/libevent >>> configure: running /bin/sh './configure' --disable-dns --disable-http >>> --disable-rpc --disable-openssl --enable-thread-support --disable-evport >>> '--prefix=/sw' '--datadir=/sw/share/doc' '--sysconfdir=/sw/etc/openmpi' >>> '--sharedstatedir=/sw/var/openmpi/shared' >>> '--localstatedir=/sw/var/openmpi/local' '--libdir=/sw/lib/openmpi' >>> '--includedir=/sw/include' '--infodir=/sw/share/info' >>> '--mandir=/sw/share/man' '--enable-shared' '--enable-static' 'FCFLAGS=-O3' >>> '--with-devel-headers' 'FC=gfortran-fsf-5' '--with-hwloc=/sw' >>> 'CC=/usr/bin/clang' 'CXX=/usr/bin/clang++' --cache-file=/dev/null >>> --srcdir=. --disable-option-checking >>> checking for a BSD-compatible install... /usr/bin/install -c >>> checking whether build environment is sane... yes >>> checking for a thread-safe mkdir -p... ./install-sh -c -d >>> checking for gawk... no >>> checking for mawk... no >>> checking for nawk... no >>> checking for awk... awk >>> checking whether make sets $(MAKE)... yes >>> checking build system type... x86_64-apple-darwin13.4.0 >>> checking host system type... x86_64-apple-darwin13.4.0 >>> checking for gcc... /usr/bin/clang >>> checking whether the C compiler works... yes >>> checking for C compiler default output file name... a.out >>> checking for suffix of executables... >>> checking whether we are cross compiling... configure: error: in >>> `/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4/opal/mca/event/libevent2021/libevent': >>> configure: error: cannot run C compiled programs. >>> If you meant to cross compile, use `--host'. >>> See `config.log' for more details >>> configure: /bin/sh './configure' *failed* for >>> opal/mca/event/libevent2021/libevent >>> configure: WARNING: Event library failed to configure >>> configure: error: Cannot continue >>> ### execution of /tmp/fink.Rtl0n failed, exit code 1 >>> ### execution of /tmp/fink.D4lDv failed, exit code 1 >>> Removing runtime build-lock... >>> Removing build-lock package... >>> /sw/bin/dpkg-lockwait -r fink-buildlock-openmpi-1.8.4-3 >>> (Reading database ... 36096 files and directories currently installed.) >>> Removing fink-buildlock-openmpi-1.8.4-3 ... >>> Failed: phase compiling: openmpi-1.8.4-3 failed config.log Description: config.log -- One dashboard for servers and applications across Physical-Virtual-Cloud Widest out-of-the-box monitoring support with 50+ applications Performance metrics, stats and reports that give you Actionable Insights Deep dive visibility with transaction tracing using APM Insight. http://ad.doubleclick.net/ddm/clk/290420510;117567292;y___ Fink-users mailing list Fink-users@lists.sourceforge.net List archive: http://news.gmane.org/gmane.os.macosx.fink.user Subscription management: https://lists.sourceforge.net/lists/listinfo/fink-users
Re: [Fink-users] openmpi-1.8.4.3 configure fails on Mac 10.9.5
The problem is obvious in the config.log... configure:3734: /usr/bin/clang -o conftest -O3 -DNDEBUG -I/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4 -I/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4 -I/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4/opal/include -I/sw/include -Wl,-flat_namespace -L/sw/lib conftest.c -lhwloc >&5 configure:3738: $? = 0 configure:3745: ./conftest dyld: Library not loaded: /sw/lib/libxml2.2.dylib Referenced from: /sw/lib/libhwloc.5.dylib Reason: Incompatible library version: libhwloc.5.dylib requires version 12.0.0 or later, but libxml2.2.dylib provides version 10.0.0 ./configure: line 3747: 39330 Trace/BPT trap: 5 ./conftest$ac_cv_exeext configure:3749: $? = 133 configure:3756: error: in `/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4/opal/mca/event/libevent2021/libevent': configure:3758: error: cannot run C compiled programs. If you meant to cross compile, use `--host'. The installed /sw/lib/libhwloc.5.dylib on your machine is properly linked to the current libxml2 (as is mine on 10.9)... % otool -L /sw/lib/libhwloc.5.dylib /sw/lib/libhwloc.5.dylib: /sw/lib/libhwloc.5.dylib (compatibility version 12.0.0, current version 12.1.0) /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1197.1.1) /sw/lib/libxml2.2.dylib (compatibility version 12.0.0, current version 12.1.0) but it appears that you have an older copy of the /sw/lib/libxml2.2.dylib installed. Do you see the following? % otool -L /sw/lib/libxml2.2.dylib /sw/lib/libxml2.2.dylib: /sw/lib/libxml2.2.dylib (compatibility version 12.0.0, current version 12.1.0) /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1197.1.1) /usr/lib/libz.1.dylib (compatibility version 1.0.0, current version 1.2.5) /sw/lib/liblzma.5.dylib (compatibility version 6.0.0, current version 6.5.0) /sw/lib/libiconv.2.dylib (compatibility version 8.0.0, current version 8.1.0) with the installed libxml2 having a compatibility version of 12.0.0? If not try 'fink rebuild libxml2'. Jack On Thu, May 7, 2015 at 6:22 PM, Barnes, Peter D. wrote: > Moving /usr/local and /opt/local didn't change anything. > > Requested config.log is attached. > > Thanks, > Peter > > On May 7, 2015, at 1:46 PM, Jack Howarth > wrote: >> No problems building on 10.9 here. Please post the config.log from >> /sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4/opal/mca/event/libevent2021/libevent >> so we can see the actual error. Also try the usual checks of moving >> aside /usr/local and /opt/local to make sure that doesn't solve your >> build problem. >> >> On Thu, May 7, 2015 at 3:12 PM, Barnes, Peter D. wrote: >>> Hello Folks, >>> >>> openmpi-1.8.43 build fails, during a configure step. >>> >>> This is after reducing build jobs to 1, rebooting, and fink self-update. >>> >>> Thanks for any hints, >>> Peter >>> >>> Package manager version: 0.38.4 >>> Distribution version: selfupdate-rsync Thu May 7 11:09:59 2015, 10.9, >>> x86_64 >>> Trees: local/main stable/main unstable/main >>> Xcode.app: 6.1.1 >>> Xcode command-line tools: 6.2.0.0.1.1424975374 >>> Max. Fink build jobs: 1 >>> >>> Hardware Overview: >>> Model Name:MacBook Pro >>> Model Identifier: MacBookPro5,4 >>> Processor Name:Intel Core 2 Duo >>> Processor Speed: 2.53 GHz >>> Number of Processors: 1 >>> Total Number of Cores: 2 >>> System Software Overview: >>> System Version:OS X 10.9.5 (13F1077) >>> Kernel Version:Darwin 13.4.0 >>> >>> Failed build step: --- MCA component event:libevent2021 (m4 configuration macro, priority 80) checking for MCA component event:libevent2021 compile mode... static checking libevent configuration args... --disable-dns --disable-http --disable-rpc --disable-openssl --enable-thread-support --disable-evport configure: OMPI configuring in opal/mca/event/libevent2021/libevent configure: running /bin/sh './configure' --disable-dns --disable-http --disable-rpc --disable-openssl --enable-thread-support --disable-evport '--prefix=/sw' '--datadir=/sw/share/doc' '--sysconfdir=/sw/etc/openmpi' '--sharedstatedir=/sw/var/openmpi/shared' '--localstatedir=/sw/var/openmpi/local' '--libdir=/sw/lib/openmpi' '--includedir=/sw/include' '--infodir=/sw/share/info' '--mandir=/sw/share/man' '--enable-shared' '--enable-static' 'FCFLAGS=-O3' '--with-devel-headers' 'FC=gfortran-fsf-5' '--with-hwloc=/sw' 'CC=/usr/bin/clang' 'CXX=/usr/bin/clang++' --cache-file=/dev/null --srcdir=. --disable-option-checking checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... ./install-sh -c -d checking for gawk... no checking for mawk... no checking for nawk... no checking for awk... awk checking whether make sets $(MAKE)... yes checking build system type... x86_64-apple-darwin13.4.0 ch
Re: [Fink-users] openmpi-1.8.4.3 configure fails on Mac 10.9.5
No problems building on 10.9 here. Please post the config.log from /sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4/opal/mca/event/libevent2021/libevent so we can see the actual error. Also try the usual checks of moving aside /usr/local and /opt/local to make sure that doesn't solve your build problem. On Thu, May 7, 2015 at 3:12 PM, Barnes, Peter D. wrote: > Hello Folks, > > openmpi-1.8.43 build fails, during a configure step. > > This is after reducing build jobs to 1, rebooting, and fink self-update. > > Thanks for any hints, > Peter > > Package manager version: 0.38.4 > Distribution version: selfupdate-rsync Thu May 7 11:09:59 2015, 10.9, x86_64 > Trees: local/main stable/main unstable/main > Xcode.app: 6.1.1 > Xcode command-line tools: 6.2.0.0.1.1424975374 > Max. Fink build jobs: 1 > > Hardware Overview: > Model Name:MacBook Pro > Model Identifier: MacBookPro5,4 > Processor Name:Intel Core 2 Duo > Processor Speed: 2.53 GHz > Number of Processors: 1 > Total Number of Cores: 2 > System Software Overview: > System Version:OS X 10.9.5 (13F1077) > Kernel Version:Darwin 13.4.0 > > Failed build step: >> --- MCA component event:libevent2021 (m4 configuration macro, priority 80) >> checking for MCA component event:libevent2021 compile mode... static >> checking libevent configuration args... --disable-dns --disable-http >> --disable-rpc --disable-openssl --enable-thread-support --disable-evport >> configure: OMPI configuring in opal/mca/event/libevent2021/libevent >> configure: running /bin/sh './configure' --disable-dns --disable-http >> --disable-rpc --disable-openssl --enable-thread-support --disable-evport >> '--prefix=/sw' '--datadir=/sw/share/doc' '--sysconfdir=/sw/etc/openmpi' >> '--sharedstatedir=/sw/var/openmpi/shared' >> '--localstatedir=/sw/var/openmpi/local' '--libdir=/sw/lib/openmpi' >> '--includedir=/sw/include' '--infodir=/sw/share/info' >> '--mandir=/sw/share/man' '--enable-shared' '--enable-static' 'FCFLAGS=-O3' >> '--with-devel-headers' 'FC=gfortran-fsf-5' '--with-hwloc=/sw' >> 'CC=/usr/bin/clang' 'CXX=/usr/bin/clang++' --cache-file=/dev/null --srcdir=. >> --disable-option-checking >> checking for a BSD-compatible install... /usr/bin/install -c >> checking whether build environment is sane... yes >> checking for a thread-safe mkdir -p... ./install-sh -c -d >> checking for gawk... no >> checking for mawk... no >> checking for nawk... no >> checking for awk... awk >> checking whether make sets $(MAKE)... yes >> checking build system type... x86_64-apple-darwin13.4.0 >> checking host system type... x86_64-apple-darwin13.4.0 >> checking for gcc... /usr/bin/clang >> checking whether the C compiler works... yes >> checking for C compiler default output file name... a.out >> checking for suffix of executables... >> checking whether we are cross compiling... configure: error: in >> `/sw/src/fink.build/openmpi-1.8.4-3/openmpi-1.8.4/opal/mca/event/libevent2021/libevent': >> configure: error: cannot run C compiled programs. >> If you meant to cross compile, use `--host'. >> See `config.log' for more details >> configure: /bin/sh './configure' *failed* for >> opal/mca/event/libevent2021/libevent >> configure: WARNING: Event library failed to configure >> configure: error: Cannot continue >> ### execution of /tmp/fink.Rtl0n failed, exit code 1 >> ### execution of /tmp/fink.D4lDv failed, exit code 1 >> Removing runtime build-lock... >> Removing build-lock package... >> /sw/bin/dpkg-lockwait -r fink-buildlock-openmpi-1.8.4-3 >> (Reading database ... 36096 files and directories currently installed.) >> Removing fink-buildlock-openmpi-1.8.4-3 ... >> Failed: phase compiling: openmpi-1.8.4-3 failed > > > > > -- One dashboard for servers and applications across Physical-Virtual-Cloud Widest out-of-the-box monitoring support with 50+ applications Performance metrics, stats and reports that give you Actionable Insights Deep dive visibility with transaction tracing using APM Insight. http://ad.doubleclick.net/ddm/clk/290420510;117567292;y ___ Fink-users mailing list Fink-users@lists.sourceforge.net List archive: http://news.gmane.org/gmane.os.macosx.fink.user Subscription management: https://lists.sourceforge.net/lists/listinfo/fink-users
