hi brian, i tried the compilation but it fails with sqlite-3.6.11: do you have potentially any suggestion what the cause might be?
cheers, andreas building SQLite3 library cp /usr/local/src/tpp-trunk-rev4391/src/../extern/sqlite-3.6.11/.libs/libsqlite3.a /usr/local/src/tpp-trunk-rev4391/src/../build/linux/libsqlite3.a cp: cannot stat `/usr/local/src/tpp-trunk-rev4391/src/../extern/sqlite-3.6.11/.libs/libsqlite3.a': No such file or directory make: *** [/usr/local/src/tpp-trunk-rev4391/src/../build/linux/libsqlite3.a] Error 1 make[1]: Entering directory `/usr/local/src/tpp-trunk-rev4391/extern/sqlite-3.6.11' r...@neo:/usr/local/src/tpp-trunk-rev4391/src# rm -f sqlite3 sqlite3 test -z "libsqlite3.la" || rm -f libsqlite3.la rm -f "./so_locations" rm -rf .libs _libs rm -f *.o rm -f *.lo if /bin/bash ./libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"sqlite\" -DPACKAGE_TARNAME=\"sqlite\" -DPACKAGE_VERSION=\"3.6.11\" -DPACKAGE_STRING=\"sqlite\ 3.6.11\" -DPACKAGE_BUGREPORT=\"http://www.sqlite.org\"; -DPACKAGE=\"sqlite\" -DVERSION=\"3.6.11\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DHAVE_FDATASYNC=1 -DHAVE_USLEEP=1 -DHAVE_LOCALTIME_R=1 -DHAVE_GMTIME_R=1 -I. -I. -DSQLITE_THREADSAFE=1 -g -O2 -MT sqlite3.lo -MD -MP -MF ".deps/sqlite3.Tpo" -c -o sqlite3.lo sqlite3.c; \ then mv -f ".deps/sqlite3.Tpo" ".deps/sqlite3.Plo"; else rm -f ".deps/sqlite3.Tpo"; exit 1; fi checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... mkdir .libs gcc -DPACKAGE_NAME=\"sqlite\" -DPACKAGE_TARNAME=\"sqlite\" -DPACKAGE_VERSION=\"3.6.11\" "-DPACKAGE_STRING=\"sqlite 3.6.11\"" -DPACKAGE_BUGREPORT=\"http://www.sqlite.org\"; -DPACKAGE=\"sqlite\" -DVERSION=\"3.6.11\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DHAVE_FDATASYNC=1 -DHAVE_USLEEP=1 -DHAVE_LOCALTIME_R=1 -DHAVE_GMTIME_R=1 -I. -I. -DSQLITE_THREADSAFE=1 -g -O2 -MT sqlite3.lo -MD -MP -MF .deps/sqlite3.Tpo -c sqlite3.c -fPIC -DPIC -o .libs/sqlite3.o yes checking for gawk... gawk checking whether make sets $(MAKE)... yes checking for style of include used by make... GNU checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking dependency style of gcc... gcc3 checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking for gcc... (cached) gcc checking whether we are using the GNU C compiler... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to accept ISO C89... (cached) none needed checking dependency style of gcc... (cached) gcc3 checking for ranlib... ranlib checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking for a sed that does not truncate output... /bin/sed checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for /usr/bin/ld option to reload object files... -r checking for BSD-compatible nm... /usr/bin/nm -B checking whether ln -s works... yes checking how to recognise dependent libraries... pass_all checking how to run the C preprocessor... gcc -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking dlfcn.h usability... yes checking dlfcn.h presence... yes checking for dlfcn.h... yes checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... gcc3 checking how to run the C++ preprocessor... g++ -E checking for g77... no checking for xlf... no checking for f77... no checking for frt... no checking for pgf77... no checking for cf77... no checking for fort77... no checking for fl32... no checking for af77... no checking for xlf90... no checking for f90... no checking for pgf90... no checking for pghpf... no checking for epcf90... no checking for gfortran... gfortran checking whether we are using the GNU Fortran 77 compiler... yes checking whether gfortran accepts -g... yes checking the maximum length of command line arguments... 32768 checking command to parse /usr/bin/nm -B output from gcc object... ok checking for objdir... .libs checking for ar... ar checking for ranlib... (cached) ranlib checking for strip... strip checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC checking if gcc PIC flag -fPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes configure: creating libtool appending configuration tag "CXX" to libtool checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC checking if g++ PIC flag -fPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate appending configuration tag "F77" to libtool checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for gfortran option to produce PIC... -fPIC checking if gfortran PIC flag -fPIC works... yes checking if gfortran static flag -static works... yes checking if gfortran supports -c -o file.o... yes checking whether the gfortran linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for fdatasync... yes checking for usleep... yes checking for fullfsync... no checking for localtime_r... yes checking for gmtime_r... yes checking for library containing tgetent... no checking for library containing readline... no checking for readline... no checking for library containing pthread_create... -lpthread checking for library containing dlopen... -ldl checking for whether to support dynamic extensions... yes configure: creating ./config.status config.status: creating Makefile config.status: creating sqlite3.pc config.status: executing depfiles commands Assembler messages: Fatal error: can't create .libs/sqlite3.o: No such file or directory make[1]: *** [sqlite3.lo] Error 1 make[1]: Leaving directory `/usr/local/src/tpp-trunk-rev4391/extern/sqlite-3.6.11' Brian Pratt wrote: > Customizing the makefile.config.incl is usually not necessary, and when it > is it's because a system is unusual so there's not really any standard > advice I can offer. > > BTW trunk is just plain broken at the moment (developer forgot to add a > newly created file) - I've alerted the developer responsible for the error > and I'm sure it will be corrected soonest. For the moment, add "-R 4391" to > your subversion statement to grab the code from just before the change that > broke the build. > > From there a "make all install" should be all you need. Conceivably you'll > hit some bumps due to gcc version, I'm not sure what ubuntu 9.04 ships with. > > Brian > > -----Original Message----- > From: [email protected] > [mailto:[email protected]] On Behalf Of andreas quandt > Sent: Wednesday, June 24, 2009 9:28 AM > To: [email protected] > Subject: [spctools-discuss] Re: building tpp from svn (rev 4395) on ubuntu > 9.04 > > > hey brian, > > thanks for the fast reply. > also it would be great if you could send me a short howto for compiling > from trunk as i am not sure if it is still necessary to create > Makefile.config.incl and to define its content respectively. > > many thanks in advance (again), > andreas > > > Brian Pratt wrote: > >> Hi Andreas, >> >> You shouldn't need to mess with Boost config any more, TPP builds its own >> copy for stability. >> >> I'm hitting the same issue (such is life on the bleeding edge with trunk), >> let me have a quick go at cleaning it up... >> >> Brian >> >> -----Original Message----- >> From: [email protected] >> [mailto:[email protected]] On Behalf Of andreas quandt >> Sent: Wednesday, June 24, 2009 8:35 AM >> To: [email protected] >> Subject: [spctools-discuss] building tpp from svn (rev 4395) on ubuntu >> > 9.04 > >> dear list, >> >> i would like to test the trunk version of the tpp but have some trouble >> to build it. >> i was following the instructions for the installation of 4.2.1 on ubuntu >> 9.04 (specifying the latest boost library in the Makefile.config.incl) >> but get following error during the compilation process: >> >> In file included from >> ./Validation/DiscriminateFunction/DiscrimValMixtureDistr.h:6, >> from ./Validation/MixtureModel/MixtureModel.h:14, >> from >> Validation/PeptideProphet/PeptideProphetParser/PeptideProphetParser.h:47, >> from >> >> > Validation/PeptideProphet/PeptideProphetParser/PeptideProphetParserMain.cxx: > >> 2: >> ./Validation/Distribution/NonParametricDistribution.h:84: error: 'Fit' >> has not been declared >> ./Validation/Distribution/NonParametricDistribution.h:85: error: >> expected ';' before '(' token >> ./Validation/Distribution/NonParametricDistribution.h:86: error: >> expected ';' before '(' token >> ./Validation/Distribution/NonParametricDistribution.h:87: error: >> expected ';' before '(' token >> ./Validation/Distribution/NonParametricDistribution.h:90: error: 'Fit' >> has not been declared >> ./Validation/Distribution/NonParametricDistribution.h:92: error: 'Fit' >> has not been declared >> ./Validation/Distribution/NonParametricDistribution.h:94: error: 'Fit' >> has not been declared >> ./Validation/Distribution/NonParametricDistribution.h:106: error: ISO >> C++ forbids declaration of 'Fit' with no type >> ./Validation/Distribution/NonParametricDistribution.h:106: error: >> expected ';' before '*' token >> ./Validation/Distribution/NonParametricDistribution.h:107: error: ISO >> C++ forbids declaration of 'Fit' with no type >> ./Validation/Distribution/NonParametricDistribution.h:107: error: >> expected ';' before '*' token >> In file included from >> ./Validation/MixtureDistribution/AccurateMassDiffDiscrMixtureDistr.h:7, >> from ./Validation/MixtureModel/MixtureModel.h:23, >> from >> Validation/PeptideProphet/PeptideProphetParser/PeptideProphetParser.h:47, >> from >> >> > Validation/PeptideProphet/PeptideProphetParser/PeptideProphetParserMain.cxx: > >> 2: >> ./Validation/InterProphet/InterProphetParser/KDModel.h:118: error: ISO >> C++ forbids declaration of 'Fit' with no type >> ./Validation/InterProphet/InterProphetParser/KDModel.h:118: error: >> expected ';' before '*' token >> ./Validation/InterProphet/InterProphetParser/KDModel.h:119: error: ISO >> C++ forbids declaration of 'Fit' with no type >> ./Validation/InterProphet/InterProphetParser/KDModel.h:119: error: >> expected ';' before '*' token >> make[1]: *** >> >> > [/usr/local/src/tpp-trunk-rev4395/src/../build/linux/PeptideProphetParserMai > >> n.o] >> Error 1 >> make[1]: Leaving directory `/usr/local/src/tpp-trunk-rev4395/src' >> make: *** [default] Error 2 >> >> >> does anyone might have an idea what i am doing wrong? >> and furthermore, i would like to ask if it is still necessary to build >> the boost library separately and to set the Makefile.config.incl? >> if not, i would very much appreciate if one of you could send me a brief >> howto as i did not find any further information about this on the >> spc-wiki... >> >> >> many thanks in advance for any kind of help! >> >> cheers, >> andreas >> >> >> >> >> >> >> >> > > > > > > > > --~--~---------~--~----~------------~-------~--~----~ You received this message because you are subscribed to the Google Groups "spctools-discuss" group. 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