[Bioperl-l] All tests pass

[Jason Stajich]

Oh and just to say thanks for running and reporting the tests Paul!

-jason

On Sun, 15 Dec 2002, Paul Boutros wrote:

> Win2k
> Perl 5.6.1
> Fresh CVS
>
> Biblio_biofetch.t
> =================
> 1..11
> ok 1
> ok 2 # No network access - could not connect to Medline
> ok 3 # No network access - could not connect to Medline
> ok 4 # No network access - could not connect to Medline
> ok 5 # No network access - could not connect to Medline
> ok 6 # No network access - could not connect to Medline
> ok 7 # No network access - could not connect to Medline
> ok 8 # No network access - could not connect to Medline
> ok 9 # No network access - could not connect to Medline
> ok 10 # No network access - could not connect to Medline
> ok 11 # No network access - could not connect to Medline
> Note: network connection was present and active
>
> BioFetch_DB.t
> =============
> ok 16
> ok 17 # No network access - could not connect to embl
> ok 18 # No network access - could not connect to embl
> ok 19 # No network access - could not connect to embl
> ok 20 # No network access - could not connect to embl
> ok 21 # No network access - could not connect to embl
> ok 22 # No network access - could not connect to embl
> ok 23 # No network access - could not connect to embl
> ok 24 # No network access - could not connect to embl
> ok 25 # No network access - could not connect to embl
> ok 26 # No network access - could not connect to embl
> ok 27 # No network access - could not connect to embl
> Note: network connection was present and active
>
> EMBL_db.t
> =========
> ok 4
> ok 5 # could not connect to embl
> ok 6 # could not connect to embl
> ok 7 # could not connect to embl
> ok 8 # could not connect to embl
> ok 9 # could not connect to embl
> ok 10 # could not connect to embl
> ok 11 # could not connect to embl
> ok 12 # could not connect to embl
> ok 13 # could not connect to embl
> ok 14 # could not connect to embl
> ok 15 # could not connect to embl
>
> game.t
> ======
> Subroutine redefinition warnings
> ok 19
> ok 20
> Use of uninitialized value in pattern match (m//) at
> C:/Perl/site/lib/XML/Writer.pm line 307.
> Use of uninitialized value in print at C:/Perl/lib/IO/Handle.pm line 394.
> ok 21
>
> PHD.t
> =====
> Subroutine redefinition warnings
>
> Qual.t
> ======
> Subroutine redefinition warnings
>
> RefSeq.t
> ========
> 1..13
> ok 1
> ok 2
> ok 3
> sleeping for 3 seconds
> ok 4
> ok 5
> ok 6
> ok 7
> ok 8
> ok 9
> ok 10
> ok 11
> ok 12 # Unable to RefSeq test - probably no network connection.
> ok 13 # Unable to RefSeq test - probably no network connection.
> Note: There is a network connection working
>
> Scf.t
> =====
> Subroutine redefinition warnings
>
> SearchIO.t
> ==========
> subroutine redefined warnings
>
> ok 476
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> ok 478
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> ok 480
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HitTableWriter.pm line 268, <GEN31> line 353.
> ok 482
> ok 483
> ok 484
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 192, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 192, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> ok 486
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> ok 488
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> ok 489
> ok 490
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> ok 491
> ok 492
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> ok 493
> ok 494
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in sprintf at
> Bio/SearchIO/Writer/HTMLResultWriter.pm line 259, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/HSP/BlastHSP.pm
> line 447, <GEN31> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/SearchUtils.pm
> line 154, <GEN37> line 353.
> Use of uninitialized value in addition (+) at Bio/Search/SearchUtils.pm
> line 154, <GEN37> line 353.
> Use of uninitialized value in numeric eq (==) at Bio/Search/SearchUtils.pm
> line 300, <GEN37> line 353.
> Use of uninitialized value in numeric eq (==) at Bio/Search/SearchUtils.pm
> line 300, <GEN37> line 353.
> Use of uninitialized value in concatenation (.) or string at
> Bio/Search/SearchUtils.pm line 227, <GEN37> line 353.
> Use of uninitialized value in concatenation (.) or string at
> Bio/Search/SearchUtils.pm line 228, <GEN37> line 353.
> Use of uninitialized value in concatenation (.) or string at
> Bio/Search/SearchUtils.pm line 229, <GEN37> line 353.
> Use of uninitialized value in concatenation (.) or string at
> Bio/Search/SearchUtils.pm line 227, <GEN37> line 353.
> Use of uninitialized value in concatenation (.) or string at
> Bio/Search/SearchUtils.pm line 228, <GEN37> line 353.
> Use of uninitialized value in concatenation (.) or string at
> Bio/Search/SearchUtils.pm line 229, <GEN37> line 353.
>
> Term.t
> ======
> Subroutine redefinition warnings
>
> UniGene.t
> =========
> subroutine redefined warnings
>
> Variation_IO.t
> ==============
> Subroutine redefinition warnings
>
> XEMBLE_db.t
> ===========
> 1..9
> Unrecognized escape \d passed through at C:/Perl/site/lib/XML/DOM.pm line
> 136.
> ok 1
> ok 2 # server may be down
> ok 3 # Server may be down
> ok 4 # Server may be down
> ok 5 # Server may be down
> ok 6 # Server may be down
> ok 7 # Server may be down
> ok 8 # Server may be down
> ok 9 # Server may be down
>
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l@bioperl.org
> http://bioperl.org/mailman/listinfo/bioperl-l
>

--
Jason Stajich
Duke University
jason at cgt.mc.duke.edu