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:
> >> Hi Shannon,
>
> >> 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:
> >> >> Hi Shannon,
>
> >> >> 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 Of shannon
> >> >> > 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
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