[Bioperl-l] Re: Please test

[Paul Boutros]

I don't get quite the same results as Shailesh on WinXP.

t\BioGraphics
passes all

t\consed
fails 12 & 14

t\game
passes, but with several warnings of:
Odd number of elements in hash assignment at
C:/Perl/site/lib/Bio/Root/Root.pm
line 197, <GEN0> line 88.

t\largefasta
passes but with several warnings of:
Use of uninitialized value in unlink at
C:/Perl/site/lib/Bio/Seq/LargePrimarySeq.pm line 287

t\largepseq
passes but with:
Use of uninitialized value in numeric lt (<) at
C:/Perl/site/lib/Bio/Seq/LargePrimarySeq.pm line 194

c\scf
passes all but with many warnings like:
Subroutine write_seq redefined at C:/Perl/site/lib/Bio\SeqIO\scf.pm line
563.

t\SearchIO
fails 19 317 342 347 (same as his)

t\trim
On test 6 I get:
returning 65 769
CGGACGCGTGGGGTGACCCCGGAAGATTCGAGTGCTTCGTCTGGTAATCAAAATCAGGTTTCT
CCGGTTGGATCTCAAACTCAAGGTTATGCCGTGGCACAAATGTCGCCTGCTGTTTCATCTGTCAGTGATGCTCCCTCATT
AGACACACAGAGACAACGAGATATTCAGTCCAGGCTAGCTAACAGTGGTTCAGATGATTCTGATGACGAAGATCCTGATG
GAGAGACTGTAACAACAGTGAATGATGATCCTACCGATGTTAAGCGTGCTAGGAGGATGCTTTCAAACCGAGAATCCGCT
AGGCGCTCTAGAAGAAGAAAGCAAGAGCAAATGAGTGAATTTGATTCACAGGTTGGCCAATTACGTGGTGAGCATTCAAC
TATGCTTAAGCGTCTTAGTGAGGTCACTCAGAAGTTTAGCACCGCTGTTGTCGATAACAGAATCTTAAAAGCTGATATCG
AAACATTGAGAACAAAGGTGAAGATGGCAGAGGACACTGTGAAAAGAGTGACAGGGATGAACCCTAGGCTTTTGGCAAAA
CCATACAGCATACCATTCGATAGGACACTGATGGGTTCTTCACAGCCAAACTTGAATCAAACCGACATGATTCCAAATCA
AATATCAGAGGACAACAGTTTTGCAAGCAACTCGGTTGTTACTTTGGAATCCGGTTGCAATGCTTTTGAAGCCA
Use of uninitialized value in concatenation (.) or string at
C:/Perl/site/lib/Bi
o/Tools/Alignment/Consed.pm line 743.
returning 0 740
CTGTGGGACCCACTGATATTACCGAACTTTTGAACCAAACAGTTATGTGTTGGCGCCAAAAATA
ACGTTAAAGAAACCATCACAAGAGCCTTATGACAAAGAGGGAGAGATAGACATAACTTAAGACATTACACAATTTGGTCA
AACGATAAACCAAATCCAACAGACATTTAAACCAAATCCAACGCCAACAAAACATTCATATATAAGATATACCCAAACCG
TATCAAACGCAGACGCCGCCCTAGTAACTGTATCCTTTCACAAACAAGCTCTCGGAGGCAGCAGAGTCACCAGAAGCCCC
AGCAATGTATTTCCCAAGTGTAGCGTCCGAGTTAGCCTTGCACCTGACCAAGAACGTGGCCTGAGCTTTGGCTACGTTCT
CTTTCTTACCTCCCCAAGCCTTGAGTGTGCTTTGCTGGAGGGCTCGGCCAAAGGAGAAAGTAAGCGTCCATGGCTTCAAC
AGATCGAGCTTGTTCATTGCGTTCAGATTTAGCGTTGCTTCCTCTTCGCTCTGTCCTCCTGAGAGGAACACGATTCCTGG
AACCGCTGGTGGGACCGTGCGGCGGAGAGCAGTCACTGTGTATTCCGCAATGACTTCCGGTGCAACCTTGGCGCTGTCTG
AGCCTGGAGTGACCATGTTAGGTTTAAGCAGAGTGCCTTCGAGGAGGACGTGGTGGTCGTTCAAGGCCTTGTACACGGCA
GAAAGAACCGTCTCAGTCACAGCCGCACATTTCTT
Use of uninitialized value in concatenation (.) or string at
C:/Perl/site/lib/Bio/Tools/Alignment/Consed.pm line 743.

t\XEMBL_DB
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