[Bioperl-l] Install help errors

[snoze pa]

Hilmar, thanks a lot for your help. I will clean the bioperl from my
computer and install the fresh nightly build. I will update you with
installation. Earlier I tested it with FC8 and FC9 but no luck.

s

On Wed, Jul 9, 2008 at 4:40 PM, Hilmar Lapp <hlapp at gmx.net> wrote:
> I don't understand what's going wrong in your install but note that Sendu
> said you need to install a /nightly build/ (which by definition you can't
> pull from CPAN) because the fix to the issue you tripped over is so recent.
>
> Nightly builds are at
>
> http://www.bioperl.org/DIST/nightly_builds/bioperl-live.tar.gz
>
>        -hilmar
>
> On Jul 9, 2008, at 4:32 PM, snoze pa wrote:
>
>> Hilmar,
>>
>> Here are results of fresh  bioperl installation from cvs. Seems it is
>> not even installing the bioperl properly.
>>
>>> perl -MCPAN -e shell
>>
>> cpan>install Bundle::CPAN
>> cpan>q
>>
>>> cpan
>>
>> cpan>install Module::Build
>> cpan>o conf prefer_installer MB
>> cpan>o conf commit
>> cpan>q
>>
>>> cpan
>>
>> cpan[1]> d /bioperl/
>> CPAN: Storable loaded ok (v2.18)
>> Going to read /root/.cpan/Metadata
>>  Database was generated on Wed, 09 Jul 2008 19:02:50 GMT
>> CPAN: YAML loaded ok (v0.66)
>> Going to read /root/.cpan/build/
>>
>> ............................................................................DONE
>> Found 16 old builds, restored the state of 10
>> Distribution    BIRNEY/bioperl-1.2.1.tar.gz
>> Distribution    BIRNEY/bioperl-1.2.2.tar.gz
>> Distribution    BIRNEY/bioperl-1.2.3.tar.gz
>> Distribution    BIRNEY/bioperl-1.2.tar.gz
>> Distribution    BIRNEY/bioperl-1.4.tar.gz
>> Distribution    BIRNEY/bioperl-db-0.1.tar.gz
>> Distribution    BIRNEY/bioperl-ext-1.4.tar.gz
>> Distribution    BIRNEY/bioperl-gui-0.7.tar.gz
>> Distribution    BIRNEY/bioperl-run-1.2.2.tar.gz
>> Distribution    BIRNEY/bioperl-run-1.4.tar.gz
>> Distribution    BOZO/Fry-Lib-BioPerl-0.15.tar.gz
>> Distribution    CRAFFI/Bundle-BioPerl-2.1.8.tar.gz
>> Distribution    SENDU/bioperl-1.5.2_102.tar.gz
>> Distribution    SENDU/bioperl-db-1.5.2_100.tar.gz
>> 14 items found
>>
>> cpan[2]> install S/SE/SENDU/bioperl-1.5.2_102.tar.gz
>> Running Build for S/SE/SENDU/bioperl-1.5.2_102.tar.gz
>>  Has already been unwrapped into directory
>> /root/.cpan/build/bioperl-1.5.2_102-Dx59Dg
>>  Has already been made
>> Running Build test
>>
>> Test Summary Report
>> -------------------
>> t/Biblio_eutils          (Wstat: 0 Tests: 6 Failed: 1)
>>  Failed test:  6
>>  Parse errors: Bad plan.  You planned 5 tests but ran 6.
>> t/BioFetch_DB            (Wstat: 0 Tests: 27 Failed: 1)
>>  Failed test:  27
>> t/HtSNP                  (Wstat: 65280 Tests: 0 Failed: 0)
>>  Non-zero exit status: 255
>>  Parse errors: Bad plan.  You planned 7 tests but ran 0.
>> Files=236, Tests=12000, 366 wallclock secs ( 7.79 usr  1.28 sys +
>> 174.92 cusr 10.07 csys = 194.06 CPU)
>> Result: FAIL
>> Failed 3/236 test programs. 2/12000 subtests failed.
>>  SENDU/bioperl-1.5.2_102.tar.gz
>>  ./Build test -- NOT OK
>> //hint// to see the cpan-testers results for installing this module, try:
>>  reports SENDU/bioperl-1.5.2_102.tar.gz
>> Running Build install
>>  Already done
>> Failed during this command:
>> SENDU/bioperl-1.5.2_102.tar.gz               : make_test NO
>>
>> Any Idea
>> _______________________________________________
>> Bioperl-l mailing list
>> Bioperl-l at lists.open-bio.org
>> http://lists.open-bio.org/mailman/listinfo/bioperl-l
>
> --
> ===========================================================
> : Hilmar Lapp  -:-  Durham, NC  -:-  hlapp at gmx dot net :
> ===========================================================
>
>
>
>