On Tue, 9 Apr 2013, Alexander Hansen wrote: > On 4/9/13 8:04 AM, Viv Kendon wrote: >> On Tue, 9 Apr 2013, Alexander Hansen wrote: >> >>> On 4/9/13 3:42 AM, Viv Kendon wrote: >>>> On Sun, 7 Apr 2013, Alexander Hansen wrote: >>>> >>>>> On 4/7/13 1:51 PM, Viv Kendon wrote: >>>>>> I think this is the relevant part of the logs, if not, I have the rest >>>>>> of it. >>>>>> >>>>>> make[2]: Entering directory >>>>>> `/sw/src/fink.build/arpack-ng-mpi-atlas-3.1.3-1/arpa >>>>>> ck-ng-3.1.3/PARPACK' >>>>>> /bin/sh ../libtool --tag=F77 --mode=link /sw/bin/mpif77 -g -O2 >>>>>> -no-undefined >>>>>> -version-info 2:0 -Wl,-dead_strip_dylibs -L/sw/lib >>>>>> -L/sw/lib/openmpi -o >>>>>> libparpa >>>>>> ck.la -rpath /sw/lib ../SRC/libarpacksrc.la ../UTIL/libarpackutil.la >>>>>> ../PARPACK >>>>>> /SRC/MPI/libparpacksrcmpi.la ../PARPACK/UTIL/MPI/libparpackutilmpi.la >>>>>> -ltatlas - >>>>>> ltatlas >>>>>> libtool: link: /sw/bin/gfortran-fsf-4.8 -dynamiclib -o >>>>>> .libs/libparpack.2.dylib >>>>>> -Wl,-force_load ../SRC/.libs/libarpacksrc.a -Wl,-force_load >>>>>> ../UTIL/.libs/lib >>>>>> arpackutil.a -Wl,-force_load >>>>>> ../PARPACK/SRC/MPI/.libs/libparpacksrcmpi.a >>>>>> -Wl,-fo >>>>>> rce_load ../PARPACK/UTIL/MPI/.libs/libparpackutilmpi.a -L/sw/lib >>>>>> -L/sw/lib/open >>>>>> mpi -ltatlas -O2 -Wl,-dead_strip_dylibs -install_name >>>>>> /sw/lib/libparpack.2.d >>>>>> ylib -compatibility_version 3 -current_version 3.0 -Wl,-single_module >>>>>> Undefined symbols for architecture x86_64: >>>>>> "_mpi_allreduce_", referenced from: >>>>>> _psgetv0_ in libparpacksrcmpi.a(libparpacksrcmpi_la-psgetv0.o) >>>>>> _psnaitr_ in libparpacksrcmpi.a(libparpacksrcmpi_la-psnaitr.o) >>>>>> _psnaup2_ in libparpacksrcmpi.a(libparpacksrcmpi_la-psnaup2.o) >>>>>> _pssaitr_ in libparpacksrcmpi.a(libparpacksrcmpi_la-pssaitr.o) >>>>>> _pssaup2_ in libparpacksrcmpi.a(libparpacksrcmpi_la-pssaup2.o) >>>>>> _psnorm2_ in libparpacksrcmpi.a(libparpacksrcmpi_la-psnorm2.o) >>>>>> _pdgetv0_ in libparpacksrcmpi.a(libparpacksrcmpi_la-pdgetv0.o) >>>>>> ... >>>>>> "_mpi_comm_rank_", referenced from: >>>>>> _psnaupd_ in libparpacksrcmpi.a(libparpacksrcmpi_la-psnaupd.o) >>>>>> _pssaupd_ in libparpacksrcmpi.a(libparpacksrcmpi_la-pssaupd.o) >>>>>> _pdnaupd_ in libparpacksrcmpi.a(libparpacksrcmpi_la-pdnaupd.o) >>>>>> _pdsaupd_ in libparpacksrcmpi.a(libparpacksrcmpi_la-pdsaupd.o) >>>>>> _pcnaupd_ in libparpacksrcmpi.a(libparpacksrcmpi_la-pcnaupd.o) >>>>>> _pcgetv0_ in libparpacksrcmpi.a(libparpacksrcmpi_la-pcgetv0.o) >>>>>> _pznaupd_ in libparpacksrcmpi.a(libparpacksrcmpi_la-pznaupd.o) >>>>>> ... >>>>>> ld: symbol(s) not found for architecture x86_64 >>>>>> collect2: error: ld returned 1 exit status >>>>>> make[2]: *** [libparpack.la] Error 1 >>>>>> make[2]: Leaving directory >>>>>> `/sw/src/fink.build/arpack-ng-mpi-atlas-3.1.3-1/arpack-ng-3.1.3/PARPACK' >>>>>> >>>>>> make[1]: *** [all-recursive] Error 1 >>>>>> make[1]: Leaving directory >>>>>> `/sw/src/fink.build/arpack-ng-mpi-atlas-3.1.3-1/arpack-ng-3.1.3/PARPACK' >>>>>> >>>>>> make: *** [all-recursive] Error 1 >>>>>> ### execution of /tmp/fink.ZL1fo failed, exit code 2 >>>>>> >>>>>> Package manager version: 0.34.7 >>>>>> Distribution version: selfupdate-rsync Sun Apr 7 20:33:31 2013, 10.7, >>>>>> x86_64 >>>>>> Trees: local/main stable/main >>>>>> Xcode.app: 4.6.1 >>>>>> Xcode command-line tools: 4.6.0.0.1.1362189000 >>>>>> Max. Fink build jobs: 4 >>>>>> >>>>>> >>>>>> open-mpi updated to 1.6.4-2 just prior to this failure. >>>>>> >>>>>> TIA, >>>>>> -- Viv >>>>>> ________________________________________________ >>>>>> Dr Viv Kendon http://quantum.leeds.ac.uk/~viv >>>>>> tel: +44 113 343 4864 Physics and Astronomy >>>>>> Quantum Information Group University of Leeds >>>>>> >>>>> >>>>> Thanks for the report. It looks like arpack-ng upstream tweaked the >>>>> parallel library build, and I naively didn't test that. A fixed >>>>> version should be available shortly via selfupdate. >>>> >>>> I think what is failing now is that it is looking for the wrong source >>>> package name? >>>> >>>> curl --connect-timeout 30 -f -L -A 'fink/0.34.7' -O >>>> http://distfiles.master.finkmirrors.net/arpack-ng-mpi-3.1.3.tar.gz >>>> % Total % Received % Xferd Average Speed Time Time Time >>>> Current >>>> Dload Upload Total Spent Left >>>> Speed >>>> 0 0 0 0 0 0 0 0 --:--:-- --:--:-- >>>> --:--:-- 0 >>>> curl: (22) The requested URL returned error: 404 >>>> >>>> i.e., -mpi shouldn't be in there? >>>> >>> Oops. I just checked in a fix which should be available via >>> 'selfupdate' shortly. >> >> It is still 404: >> >> curl --connect-timeout 30 -f -L -A 'fink/0.34.7' -O >> http://distfiles.master.finkmirrors.net/arpack-3.1.3.tar.gz >> % Total % Received % Xferd Average Speed Time Time Time >> Current >> Dload Upload Total Spent Left >> Speed >> ^M 0 0 0 0 0 0 0 0 --:--:-- --:--:-- >> --:--:-- 0^M 0 0 0 0 0 0 0 0 --:--:-- >> 0:00:01 --:--:-- 0 >> curl: (22) The requested URL returned error: 404 >> >> >> On my other machine I have to following sources: >> >> arpack-ng-3.1.3.tar.gz arpack-ng_3.1.2.tar.gz arpack_3.0.1.tar.gz >> arpack-ng_3.1.0.tar.gz arpack-patch.tar.gz arpack_3.0.2.tar.gz >> arpack-ng_3.1.1.tar.gz arpack96.tar.gz >> >> So it seems to have sometimes had -ng and sometimes not, but maybe it >> needs it now? >> >> TIA, >> -- Viv >> ________________________________________________ >> Dr Viv Kendon http://quantum.leeds.ac.uk/~viv >> tel: +44 113 343 4864 Physics and Astronomy >> Quantum Information Group University of Leeds >> > > Sorry about that--I wasn't fully awake yet. I put up a new version _and_ > verified that it fetches the tarball. :-)
Thanks, downloads and builds fine now -- almost there, failed at the last hurdle: /sw/bin/dpkg-lockwait -r fink-buildlock-arpack-ng-mpi-atlas-3.1.3-2 (Reading database ... 274697 files and directories currently installed.) Removing fink-buildlock-arpack-ng-mpi-atlas-3.1.3-2 ... Failed: Error performing percent expansion: unknown % expansion or nesting too deep: "(%type_raw[-mpi] = -mpi) /sw/lib/libparpack.2.dylib 3.0.0 arpack-ng-mpi-atlas-shlibs (>=3.1.0-1)" (/sw/fink/dists/stable/main/finkinfo/sci/arpack-ng-mpi.info "Shlibs") TIA, -- Viv ________________________________________________ Dr Viv Kendon http://quantum.leeds.ac.uk/~viv tel: +44 113 343 4864 Physics and Astronomy Quantum Information Group University of Leeds ------------------------------------------------------------------------------ Precog is a next-generation analytics platform capable of advanced analytics on semi-structured data. The platform includes APIs for building apps and a phenomenal toolset for data science. Developers can use our toolset for easy data analysis & visualization. Get a free account! http://www2.precog.com/precogplatform/slashdotnewsletter _______________________________________________ Fink-users mailing list [email protected] List archive: http://news.gmane.org/gmane.os.macosx.fink.user Subscription management: https://lists.sourceforge.net/lists/listinfo/fink-users
