[Bioperl-l] Install help errors

snoze pa snoze.pa at gmail.com
Wed Jul 2 19:56:18 UTC 2008


Dear Users,
 I am trying to install bioperl in fedora machine. I am using
precompiled rpm from fedora repo. it is installed. Next I download the
biosql and put in a dir /usr/local/biosql
create a database bioseqdb and load the scema.

However the bioperl-db is not working.. it is giving lots of error. I
used CPAN and also the perl Build.PL. following are the results

Please help me.
thank you.


Test Summary Report
-------------------
t/04swiss     (Wstat: 65280 Tests: 5 Failed: 0)
  Non-zero exit status: 255
  Parse errors: Bad plan.  You planned 52 tests but ran 5.
t/05seqfeature (Wstat: 65280 Tests: 3 Failed: 0)
  Non-zero exit status: 255
  Parse errors: Bad plan.  You planned 48 tests but ran 3.
t/06comment   (Wstat: 65280 Tests: 2 Failed: 0)
  Non-zero exit status: 255
  Parse errors: Bad plan.  You planned 11 tests but ran 2.
t/07dblink    (Wstat: 65280 Tests: 2 Failed: 0)
  Non-zero exit status: 255
  Parse errors: Bad plan.  You planned 18 tests but ran 2.
t/08genbank   (Wstat: 65280 Tests: 2 Failed: 0)
  Non-zero exit status: 255
  Parse errors: Bad plan.  You planned 18 tests but ran 2.
t/09fuzzy2    (Wstat: 65280 Tests: 2 Failed: 0)
  Non-zero exit status: 255
  Parse errors: Bad plan.  You planned 21 tests but ran 2.
t/10ensembl   (Wstat: 65280 Tests: 2 Failed: 0)
  Non-zero exit status: 255
  Parse errors: Bad plan.  You planned 15 tests but ran 2.
t/11locuslink (Wstat: 65280 Tests: 4 Failed: 0)
  Non-zero exit status: 255
  Parse errors: Bad plan.  You planned 110 tests but ran 4.
t/12ontology  (Wstat: 65280 Tests: 4 Failed: 0)
  Non-zero exit status: 255
  Parse errors: Bad plan.  You planned 738 tests but ran 4.
t/13remove    (Wstat: 0 Tests: 4 Failed: 1)
  Failed test:  4
  Parse errors: Bad plan.  You planned 59 tests but ran 4.
t/15cluster   (Wstat: 65280 Tests: 5 Failed: 0)
  Non-zero exit status: 255
  Parse errors: Bad plan.  You planned 160 tests but ran 5.
t/16obda      (Wstat: 65280 Tests: 2 Failed: 0)
  Non-zero exit status: 255
  Parse errors: Bad plan.  You planned 12 tests but ran 2.
Files=16, Tests=198, 26 wallclock secs ( 0.21 usr  0.07 sys + 22.81
cusr  1.25 csys = 24.34 CPU)
Result: FAIL
Failed 12/16 test programs. 1/198 subtests failed.



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