[Bioperl-l] Installation of Bioperl1.2

Eley Greg eley_greg@bah.com
Fri Jan 17 19:58:50 EST 2003

I too had issues installing BioPerl 1.2 through CPAN on Redhat 8.0.

cpan> install B/BI/BIRNEY/bioperl-1.2.tar.gz (second attempt)
Running make for B/BI/BIRNEY/bioperl-1.2.tar.gz
  Is already unwrapped into directory /root/.cpan/build/bioperl-1.2
  Has already been processed within this session
Running make test
PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM" "-e" 
"test_harness(0, 'blib/lib', 'blib/arch')" t/*.t
(running through tests)
Failed Test        Stat    Wstat    Total    Fail    Failed    List of 
t/BioGraphics.t                        14      1      7.14%       2
t/RootIO.t                             25      2      8.00%       14 18
4 subtests skipped.
Failed 2/134 test scripts, 98.51% okay. 3/6020 subtests failed, 99.95% okay.
make: *** [test_dynamic] Error 29
  /usr/bin/make test -- NOT OK
Running make install
  make test had returned bad status, won't install without force

What do tests 14 & 18 of RootIO and test 2 of BioGraphics need?  Is this 
a common error?  Should I down load and make myself as Vicky is trying 
to do?  Thanks.


Hsu, Vicky wrote:

>The output I get from trying to install bioperl1.2 on an SGI server is as
> prompt> make
> mkdir blib
> mkdir blib/lib
> mkdir blib/arch
> mkdir blib/arch/auto
> mkdir blib/arch/auto/Bio
> mkdir blib/lib/auto
> mkdir blib/lib/auto/Bio
> mkdir blib/man3
> ***Termination code 139 (bu21) 
>  I couldn't find any documentation on what termination code 139 means. Any
>suggestions? Thank you.
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