[Bioperl-l] failed to install Bio::Tools::Run::StandAloneBlastPlus

[Robert Buels]

Hi Galeb,

In your email, could you include the *full* test output?  Just the 
summary isn't enough for us to diagnose what is happening.

Rob

On 05/18/2011 02:37 PM, Galeb Abu-Ali wrote:
> Hi,
>
> I'm having trouble installing Bio::Tools::Run::StandAloneBlastPlus, which
> I'd like to try since I use standalone BLAST+.
> I realize the obstacle has to do with CJFIELDS/BioPerl-Run-1.006900, but
> have no idea how to fix it. Below is the Test Summary Report and cpan-tester
> results for CJFIELDS/BioPerl-Run-1.006900.tar.gz. I use a RHEL 5.5 machine.
> Many thanks for your suggestions.
>
> galeb
>
>
>
> Test Summary Report
> -------------------
> t/BWA.t                     (Wstat: 512 Tests: 0 Failed: 0)
>    Non-zero exit status: 2
>    Parse errors: Bad plan.  You planned 36 tests but ran 0.
> t/Blat.t                    (Wstat: 65280 Tests: 20 Failed: 0)
>    Non-zero exit status: 255
>    Parse errors: Bad plan.  You planned 33 tests but ran 20.
> t/Samtools.t                (Wstat: 512 Tests: 24 Failed: 0)
>    Non-zero exit status: 2
>    Parse errors: Bad plan.  You planned 40 tests but ran 24.
> Files=80, Tests=2799, 34 wallclock secs ( 0.37 usr  0.06 sys + 30.90 cusr
> 3.07 csys = 34.40 CPU)
> Result: FAIL
> Failed 3/80 test programs. 0/2799 subtests failed.
>    CJFIELDS/BioPerl-Run-1.006900.tar.gz
>    ./Build test -- NOT OK
> //hint// to see the cpan-testers results for installing this module, try:
>    reports CJFIELDS/BioPerl-Run-1.006900.tar.gz
> Running Build install
>    make test had returned bad status, won't install without force
> Failed during this command:
>   CJFIELDS/BioPerl-Run-1.006900.tar.gz         : make_test NO
>
> cpan[2]>  reports CJFIELDS/BioPerl-Run-1.006900.tar.gz
> Distribution: C/CJ/CJFIELDS/BioPerl-Run-1.006900.tar.gz
> Fetching 'http://www.cpantesters.org/show/BioPerl-Run.yaml'...DONE
>
> Catching error: "CPAN::Exception::yaml_process_error=HASH(0x1964d450)" at
> /usr/local/lib/perl5/5.12.2/CPAN.pm line 391
>          CPAN::shell() called at /usr/local/lib/perl5/5.12.2/App/Cpan.pm line
> 295
>          App::Cpan::_process_options('App::Cpan') called at
> /usr/local/lib/perl5/5.12.2/App/Cpan.pm line 364
>          App::Cpan::run('App::Cpan') called at /usr/local/bin/cpan line 11
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/bioperl-l
>