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ppport.h  view on Meta::CPAN

#ifndef UV_MAX
#  define UV_MAX                         PERL_ULONG_MAX
#endif

#endif

#ifndef IVSIZE
#  ifdef LONGSIZE
#    define IVSIZE LONGSIZE
#  else
#    define IVSIZE 4 /* A bold guess, but the best we can make. */
#  endif
#endif
#ifndef UVTYPE
#  define UVTYPE                         unsigned IVTYPE
#endif

#ifndef UVSIZE
#  define UVSIZE                         IVSIZE
#endif
#ifndef sv_setuv

t/06kseq.t  view on Meta::CPAN

        'variant'       => 'illumina',
        'seq'           => 'CCAAATCTTGAATTGTAGCTCCCCT',
        'qual'          => 'OSXOQXXXXXSXXUXXTXXXXTRMS',
        'phred'         => '15 19 24 15 17 24 24 24 24 24 19 24 24 21 24 24 '.
                           '20 24 24 24 24 20 18 13 19',
        'name'    => 'FC12044_91407_8_200_285_136',
        'desc'          => undef,
        'count'         => 25
                                },
    example                 => {
        'variant'       => 'sanger', # TODO: guessing on the format here...
        'seq'           => 'GTTGCTTCTGGCGTGGGTGGGGGGG',
        'qual'          => ';;;;;;;;;;;9;7;;.7;393333',
        'phred'         => '26 26 26 26 26 26 26 26 26 26 26 24 26 22 26 26 '.
                           '13 22 26 18 24 18 18 18 18',
        'name'    => 'EAS54_6_R1_2_1_443_348',
        'desc'          => 'baz',
        'count'         => 3
                                },
    illumina_faked          => {
        'variant'       => 'illumina',

t/06kseq.t  view on Meta::CPAN

        'seq'           => 'ACGTACGTACGTACGTACGTACGTACGTACGTACGTACGTNNNNNN',
        'qual'          => 'hgfedcba`_^]\[ZYXWVUTSRQPONMLKJIHGFEDCBA@?>=<;',
        'phred'         => '40 39 38 37 36 35 34 33 32 31 30 29 28 27 26 25 '.
                           '24 23 22 21 20 19 18 17 16 15 14 13 12 11 10 10 9 '.
                           '8 7 6 5 5 4 4 3 3 2 2 1 1',
        'name'    => 'slxa_0001_1_0001_01',
        'desc'          => undef,
        'count'         => 1
                                },
    tricky                  => {
        'variant'       => 'sanger', # TODO: guessing on the format here...
        'seq'           => 'TGGGAGGTTTTATGTGGAAAGCAGCAATGTACAAGA',
        'qual'          => 'IIIIIII.IIIIII1@44@-7.%<&+/$/%4(++(%',
        'phred'         => '40 40 40 40 40 40 40 13 40 40 40 40 40 40 16 31 '.
                           '19 19 31 12 22 13 4 27 5 10 14 3 14 4 19 7 10 10 '.
                           '7 4',
        'name'    => '071113_EAS56_0053:1:3:990:501',
        'desc'          => undef,
        'count'         => 4
                                },
    evil_wrapping           => {
        'variant'       => 'sanger', # TODO: guessing on the format here...
        'seq'           => 'AACCCGTCCCATCAAAGATTTTGGTTGGAACCCGAAAGGGTTTTGAATTC'.
                           'AAACCCCTTTCGGTTCCAACTATTCAATTGTTTAACTTTTTTTAAATTGA'.
                           'TGGTCTGTTGGACCATTTGTAATAATCCCCATCGGAATTTCTTT',
        'qual'          => 'A;@;%75?:#<<9EA1;=EA3%B;B;A;B;@;%9EA1EA1EA3%<B;A;8EA0D@3$EA1=B;A;B;B;:=:B;:B:A9:EA0A9<FA81+&"D?-B;4<::/<;=:A98-5?6=C>+8<<3;=4:DA3%<;=8-9.A=):B=*',
        'phred'         => '32 26 31 26 4 22 20 30 25 2 27 27 24 36 32 16 '.
                           '26 28 36 32 18 4 33 26 33 26 32 26 33 26 31 26 '.
                           '4 24 36 32 16 36 32 16 36 32 18 4 27 33 26 32 26 '.
                           '23 36 32 15 35 31 18 3 36 32 16 28 33 26 32 26 33 '.
                           '26 33 26 25 28 25 33 26 25 33 25 32 24 25 36 32 '.
                           '15 32 24 27 37 32 23 16 10 5 1 35 30 12 33 26 19 '.
                           '27 25 25 14 27 26 28 25 32 24 23 12 20 30 21 28 '.
                           '34 29 10 23 27 27 18 26 28 19 25 35 32 18 4 27 26 '.
                           '28 23 12 24 13 32 28 8 25 33 28 9',
        'name'    => 'SRR014849.203935',
        'desc'          => 'EIXKN4201B4HU6 length=144',
        'count'         => 3
                                },
    zero_qual           => {
        'variant'       => 'sanger', # TODO: guessing on the format here...
        'seq'           => 'AG',
        'qual'          => 'DD',
        'phred'         => '0 0',
        'name'          => 'someID2',
        'desc'          => undef,
        'count'         => 2
    }
);

for my $example (sort keys %example_files) {