Hi All, just to say that I'm facing exactly the same problem on a CentOS 5 Linux distribution as previously with the version 4.1.1 (see previous post without solution). Regarding your different advices, unfortunatly the problem remains.
Lets see how it goes... Regards, Oana On 6 mar, 00:15, "Lekpor, Kossi" <klek...@coh.org> wrote: > HiShannon, > > Which flavor of Linux are you compiling from? > When I compiled the latest version of TPP from Redhat EL5, the perl library > 'libperl.a' was missing. > So, I have to recompiled perl and set the parameters so that the static > library is built. That's how I fixed the problem. > > Good luck. > Kossi > > -----Original Message----- > From: spctools-discuss@googlegroups.com > [mailto:spctools-disc...@googlegroups.com] On Behalf Ofshannon > Sent: Thursday, March 05, 2009 3:05 PM > To: spctools-discuss > Subject: [spctools-discuss] Re: TPP4.2 compile problem > > Hi Natalie, > > I now change it to: > PERL_LIB_CORE=/usr/lib64/perl5/5.8.8/x86_64-linux-thread-multi/CORE/ > #PERL_LIB=/opt/ActivePerl-5.8/lib > PERL_BIN=/usr/bin/perl > However, the error still the same. > > Thank you very much for your help!Shannon > > On Mar 5, 2:57 pm, Natalie Tasman <ntas...@systemsbiology.org> wrote: > > All perl-related settings must match, and you must also set PERL_BIN > > as well to the same setup. You don't need PERL_LIB. > > > So if you're using something besides your system perl, such as a > > verison of perl in /opt, everything should be set to opt (perl bin, > > perl lib core). > > > Also, ActivePerl is only required for the windows distribution, not > > linux, if that helps simplify things. > > > -Natalie > > > On Thu, Mar 5, 2009 at 2:44 PM,shannon<u0125...@gmail.com> wrote: > > > > Hi Natalie, > > > > I've set it in the Makefile.config.incl already. Sorry I didn't post > > > it at beginning. > > > I have this 2 lines: > > > PERL_LIB_CORE=/usr/lib64/perl5/5.8.8/x86_64-linux-thread-multi/CORE/ > > > PERL_LIB=/opt/ActivePerl-5.8/lib > > > > Thank you very much, > > >Shannon > > > > On Mar 5, 2:41 pm, Natalie Tasman <ntas...@systemsbiology.org> wrote: > > >> HiShannon, > > > >> You'll want to search for perl's CORE directory and set that with > > >> PERL_LIB_CORE= /usr/lib/perl5/5.8.8/x86_64-linux-ld/CORE/ > > > >> (setting to whatever directory it's installed to on your system.) > > > >> Please let us know how it goes, > > > >> Natalie > > > >> On Thu, Mar 5, 2009 at 2:33 PM,shannon<u0125...@gmail.com> wrote: > > > >> > Thank you, Brian and Natalie! > > > >> > Now it made some progress. However I still got some errors: > > > >> > perl -pe "s/\/cygdrive\/c\/Inetpub\/tpp-bin\//\/usr\/local\/tpp\/cgi\- > > >> > bin\//g;s/\x24\{base_dir\}users\//\/usr\/local\/tpp\/cgi-bin\/users\// > > >> > g;s/\/tools\/bin\/TPP\/tpp\//\/usr\/local\/tpp\//g;s/cygpath \-wp // > > >> > g;s/\"\/cygdrive\/c\/Inetpub\/wwwroot\/\"/\\x24ENV\{\'WEBSERVER_ROOT > > >> > \'\}\.'\/'/g;s/\/tpp\-bin/\/tpp\/cgi\-bin/g;s/'\/usr\/bin\//'/g;s/'\/ > > >> > bin\//'/g " < ../../perl/ProphetModels.pl > ../../build/linux/ > > >> > ProphetModels.pl > > >> > perl -c ../../build/linux/ProphetModels.pl > > >> > Can't load '/usr/local/src/trans_proteomic_pipeline/build/linux/ > > >> > tpplib_perl.so' for module tpplib_perl: libboost_filesystem-gcc41- > > >> > mt-1_35.so.1.35.0: cannot open shared object file: No such file or > > >> > directory at /usr/lib64/perl5/5.8.8/x86_64-linux-thread-multi/ > > >> > DynaLoader.pm line 230. > > >> > at /usr/local/src/trans_proteomic_pipeline/build/linux/tpplib_perl.pm > > >> > line 8 > > >> > Compilation failed in require at ../../build/linux/ProphetModels.pl > > >> > line 44. > > >> > BEGIN failed--compilation aborted at ../../build/linux/ > > >> > ProphetModels.pl line 44. > > >> > make[2]: *** [../../build/linux/ProphetModels.pl] Error 2 > > >> > make[2]: *** Deleting file `../../build/linux/ProphetModels.pl' > > >> > make[2]: Leaving directory `/usr/local/src/trans_proteomic_pipeline/ > > >> > src/perl_paths' > > >> > make[1]: *** [perl_paths] Error 2 > > >> > make[1]: Leaving directory `/usr/local/src/trans_proteomic_pipeline/ > > >> > src' > > >> > make: *** [default] Error 2 > > > >> > Thank you so much! > > >> >Shannon > > > >> > On Mar 5, 1:50 pm, Natalie Tasman <ntas...@systemsbiology.org> wrote: > > >> >> HiShannon, > > > >> >> Also, since your boost libs are built with the compiler and threading > > >> >> info in their names, you'll need to set > > > >> >> BOOST_LIBSPEC=-gcc41-mt > > > >> >> or > > > >> >> BOOST_LIBSPEC=-gcc41-mt-1_35 > > > >> >> (depending on how specific you want to be.) > > > >> >> -Natalie > > > >> >> On Thu, Mar 5, 2009 at 12:51 PM, Brian Pratt > > >> >> <brian.pr...@insilicos.com> wrote: > > > >> >> > Perhaps try this? > > > >> >> > BOOST_LIBDIR=/usr/lib/lib/ > > > >> >> > -----Original Message----- > > >> >> > From: spctools-discuss@googlegroups.com > > >> >> > [mailto:spctools-disc...@googlegroups.com] On Behalf Ofshannon > > >> >> > Sent: Thursday, March 05, 2009 12:43 PM > > >> >> > To: spctools-discuss > > >> >> > Cc: tsa...@u.washington.edu > > >> >> > Subject: [spctools-discuss] TPP4.2 compile problem > > > >> >> > Hi, > > > >> >> > I've downloaded the latest TPP and upgrade my boost to 1.35. > > >> >> > Here is my Makefile.config.incl : > > > >> >> > ## for Boost > > >> >> > BOOST_INCL=-I/usr/lib/boost_1_35_0/ > > >> >> > BOOST_LIBDIR=/usr/lib/boost_1_35_0/libs > > >> >> > BOOST_LIBSPEC=-gcc41-mt > > >> >> > LINK=shared > > >> >> > LIBEXT=so > > > >> >> > However, I still got the error: > > >> >> > g++: /usr/lib/libboost_system.so: No such file or directory > > > >> >> > but I can't find any libboost_system.so file under the library. > > >> >> > The only similar files I have is: > > >> >> > /usr/lib/boost_1_35_0/bin.v2/libs/system/build/gcc-4.1.2/release/ > > >> >> > threading-multi/libboost_system-gcc41-mt-1_35.so.1.35.0 > > >> >> > /usr/lib/lib/libboost_system-gcc41-mt.so > > >> >> > /usr/lib/lib/libboost_system-gcc41-mt-1_35.so > > >> >> > /usr/lib/lib/libboost_system-gcc41-mt-1_35.so.1.35.0 > > > >> >> > My OS is linux Red Hat Enterprise Linux 4 > > >> >> > Any help will be highly appreciated. > > > >> >> > Thanks very much! > > >> >> >Shannon > > --------------------------------------------------------------------- > > SECURITY/CONFIDENTIALITY WARNING: > This message and any attachments are intended solely for the individual or > entity to which they are addressed. 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