[Bioperl-l] Install help errors

snoze pa snoze.pa at gmail.com
Wed Jul 9 16:32:51 EDT 2008


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>install Module::Build
cpan>o conf prefer_installer MB
cpan>o conf commit

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/
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
  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.
  ./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

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