[Bioperl-l] bioperl-1.5.0 RC2

[Jurgen Pletinckx]

> perl -v

This is perl, v5.6.1 built for IP27-irix
...

> uname -a
IRIX64 deepskyblue 6.5 10181058 IP27

> make test

t/ESEfinder..................error is 0
t/ESEfinder..................ok
        10/12 skipped: tests which require remote servers - set env variable
BIOPERLDEBUG to test

t/Genewise...................ok
        2/51 skipped:

t/RestrictionIO..............FAILED test 10
        Failed 1/14 tests, 92.86% okay

t/SeqIO......................XML::DOM::XPath not found - skipping interpro tests
t/SeqIO......................ok

t/simpleGOparser.............ok 88/101Use of uninitialized value in hash element
at
/xlv2/users/jpletinc/00Perl/bioperl-1.5-rc2/bioperl-1.5.0-RC2/blib/lib/Bio/Ontol
ogy/OntologyStore.pm line 263, <GEN3> line 11.
Use of uninitialized value in hash element at
/xlv2/users/jpletinc/00Perl/bioperl-1.5-rc2/bioperl-1.5.0-RC2/blib/lib/Bio/Ontol
ogy/OntologyStore.pm line 263, <GEN3> line 11.

t/simpleGOparser.............ok
t/tutorial...................ok 18/21Use of uninitialized value in print at
/xlv2/users/jpletinc/00Perl/bioperl-1.5-rc2/bioperl-1.5.0-RC2/blib/lib/bptutoria
l.pl line 4039, <GEN21> line 934.
t/tutorial...................ok

t/XEMBL_DB...................SOAP::Lite and/or XML::DOM not installed. This
means that Bio::DB::XEMBL module is not usable. Skipping tests.
t/XEMBL_DB...................ok

Failed Test       Stat Wstat Total Fail  Failed  List of Failed
-------------------------------------------------------------------------------
t/RestrictionIO.t               14    1   7.14%  10
114 subtests skipped.
Failed 1/193 test scripts, 99.48% okay. 1/8956 subtests failed, 99.99% okay.
*** Error code 11 (bu21)


More specific:
> perl -w -Iblib/lib t/RestrictionIO.t
1..14
ok 1
ok 2
ok 3
ok 4
ok 5
ok 6
ok 7
ok 8
ok 9
not ok 10
# Test 10 got: '9' (t/RestrictionIO.t at line 53)
#    Expected: '11'
ok 11
ok 12
ok 13
ok 14

The 'error is 0' message with ESEfinder seems to indicate correct test
completion.


(Thanks, Jason!)

--
Jurgen Pletinckx
AlgoNomics NV