[Bioperl-l] bioperl on CentOS 6.4

Fields, Christopher J cjfields at illinois.edu
Fri Nov 22 04:18:50 UTC 2013

Ah, this is the piece I was missing.  This looks like a problem with the local perl CPAN configuration; these lines are the clue:

Package seems to come without Makefile.PL
(The test -f "/root/.cpan/build/CJFIELDS-T5oDhJ/Makefile.PL” returned false.)

We use Module::Build, not Extutil::MakeMaker; this is why there is no Makefile.PL.  I can try looking into what may be going on; maybe try installing Module::Build to see if that addresses the problem?  There may be an RPM for it, though it normally come with perl core.


On Nov 19, 2013, at 4:36 PM, m.roth at 5-cent.us wrote:

> Oh, btw,
> cpan -m C/CJ/CJFIELDS/BioPerl-1.6.921
> finally results in
> CPAN: File::Temp loaded ok (v0.22)
> Package seems to come without Makefile.PL.
>  (The test -f "/root/.cpan/build/CJFIELDS-T5oDhJ/Makefile.PL" returned
> false.)
>  Writing one on our own (setting NAME to BioPerl)
>  CPAN.pm: Going to build C/CJ/CJFIELDS/BioPerl-1.6.921
> Writing Makefile for BioPerl
> Use of uninitialized value $man in -e at
> /usr/share/perl5/ExtUtils/Command/MM.pm line 133.
> Use of uninitialized value $man in concatenation (.) or string at
> /usr/share/perl5/ExtUtils/Command/MM.pm line 137.
> Manifying
> Can't open blib/man1/.1: No such file or directory at
> /usr/share/perl5/ExtUtils/Command/MM.pm line 141
> make: *** [manifypods] Error 2
>  CJFIELDS/BioPerl-1.6.921
>  /usr/bin/make -- NOT OK
>       mark
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