← Back to branch summary

~ubuntu-branches/ubuntu/trusty/bioperl/trusty-proposed

« back to all changes in this revision

Viewing changes to t/data/contigspectrumtest.asm

  • Committer: Bazaar Package Importer
  • Author(s): Charles Plessy
  • Date: 2009-03-10 07:19:11 UTC
  • mfrom: (1.2.3 upstream)
  • Revision ID: james.westby@ubuntu.com-20090310071911-fukqzw54pyb1f0bd
Tags: 1.6.0-2
https://launchpad.net/bugs/324001
* Removed patch system (not used):
  - removed instuctions in debian/rules;
  - removed quilt from Build-Depends in debian/control.
* Re-enabled tests:
  - uncommented test command in debian/rules;
  - uncommented previously missing build-dependencies in debian/control.
  - Re-enabled tests and uncommented build-dependencies accordingly.
* Removed libmodule-build-perl and libtest-harness-perl from
  Build-Depends-Indep (provided by perl-modules).
* Better cleaning of empty directories using find -type d -empty -delete
  instead of rmdir in debian/rules (LP: #324001).

Show diffs side-by-side

added added

removed removed

Lines of Context:
t/data/contigspectrumtest.asm
 
1
sequence        ATTGCCATTCTTTCGAAGCGCATTCCCTCTCGTGGCGCTGGCTTCCAGGATCTTTTGGAAGCGCATTCGACGCAACACACCTGCCCGTTTGGGCCGGCCCAACTGGTTCGCAGTGGTAGTGATAGAGGTACTGGTCAATCTGCTTTAATCGACATGAAGATGACGCGAAAAGCGCCCTCCTGCGGATCCGGATCCGTCGCTCACCTGGTCTTGAATGACCTGATGTTCGCAGCCATGGAAGCCGGTTACCGGCTTGCGCCAATCAAGGCAGCATGCACTGCTGAGCAAAAAGCGAGCCAAACTTGTGACCTGATGGCCTTACGCAAT
 
2
lsequence       ATTGCCATTCTTTCGAAGCGCATTCCCTCTCGTGGCGCTGGCTTCCAGGATCTTTTGGAAGCGCATTCGACGCAACACACCTGCCCGTTT-GGG-CCGGCCC-AACTGGTTCGCAGTGGTAGTGATAGAGGTACTGGTCAATCTGCTTTAATCGACATGAAGATGACGCGAAAAGCGCCCTCCTGCGGATCCGGATCCGTCGCTCACCTGGTCTTGAATGACCTGATGTTCGCAGCCATGGAAGCCGGTTACCGGCTTGCGCCAATCAAGGCAGCATGCACTGCTGAGCAAAAAGCGAGCCAAACTTGTGACCTGATGGCCTTACGCAAT
 
3
quality 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
 
4
asmbl_id        652
 
5
seq_id  
 
6
com_name        
 
7
type    
 
8
method  asmg
 
9
ed_status       
 
10
redundancy      2.75
 
11
perc_N  0.00
 
12
seq#    9
 
13
full_cds        
 
14
cds_start       
 
15
cds_end 
 
16
ed_pn   GRA
 
17
ed_date 08/27/07 18:38:59
 
18
comment 
 
19
frameshift      
 
20
 
 
21
seq_name        9986984
 
22
asm_lend        1
 
23
asm_rend        102
 
24
seq_lend        1
 
25
seq_rend        105
 
26
best    0
 
27
comment 
 
28
db      ABC
 
29
offset  0
 
30
lsequence       ATTGCCATTCTTTCGAAGCGCATTCCCTCTCGTGGCGCTGGCTTCCAGGATCTTTTGGAAGCGCATTCGACGCAACACACCTGCCCGTTTCGGGTCCGGCCCGAA
 
31
 
 
32
seq_name        9944760
 
33
asm_lend        2
 
34
asm_rend        109
 
35
seq_lend        108
 
36
seq_rend        1
 
37
best    0
 
38
comment 
 
39
db      ABC
 
40
offset  1
 
41
lsequence       TTGCCATTCTTTCGAAGCGCATTCCCTCTCGTGGCGCTGGCTTCCAGGATCTTTTGGAAGCGCATTCGACGCAACACACCTGCCCGTTT-GGG-CCGGCCC-AACTGGTTC
 
42
 
 
43
seq_name        9980040
 
44
asm_lend        48
 
45
asm_rend        154
 
46
seq_lend        1
 
47
seq_rend        107
 
48
best    0
 
49
comment 
 
50
db      ABC
 
51
offset  47
 
52
lsequence       GGATCTTTTGGAAGCGCATTCGACGCAACACACCTGCCCGTTT-GGG-CCGGCCC-AACTGGTTCGCAGTGGTAGTGATAGAGGTACTGGTCAATCTGCTTTAATCGACA
 
53
 
 
54
seq_name        9956706
 
55
asm_lend        50
 
56
asm_rend        146
 
57
seq_lend        97
 
58
seq_rend        1
 
59
best    0
 
60
comment 
 
61
db      ABC
 
62
offset  49
 
63
lsequence       ATCTTTTGGAAGCGCATTCGACGCAACACACCTGCCCGTTT-GGG-CCGGCCC-AACTGGTTCGCAGTGGTAGTGATAGAGGTACTGGTCAATCTGCTTT
 
64
 
 
65
seq_name        9937790
 
66
asm_lend        84
 
67
asm_rend        191
 
68
seq_lend        1
 
69
seq_rend        108
 
70
best    0
 
71
comment 
 
72
db      ABC
 
73
offset  83
 
74
lsequence       CCCGTTT-GGG-CCGGCCC-AACTGGTTCGCAGTGGTAGTGATAGAGGTACTGGTCAATCTGCTTTAATCGACATGAAGATGACGCGAAAAGCGCCCTCCTGCGGATCCGG
 
75
 
 
76
seq_name        9976538
 
77
asm_lend        120
 
78
asm_rend        215
 
79
seq_lend        1
 
80
seq_rend        96
 
81
best    0
 
82
comment 
 
83
db      ABC
 
84
offset  122
 
85
lsequence       TGATAGAGGTACTGGTCAATCTGCTTTAATCGACATGAAGATGACGCGAAAAGCGCCCTCCTGCGGATCCGGATCCGTCGCTCACCTGGTCTTGAA
 
86
 
 
87
seq_name        9960711
 
88
asm_lend        134
 
89
asm_rend        229
 
90
seq_lend        1
 
91
seq_rend        96
 
92
best    0
 
93
comment 
 
94
db      ABC
 
95
offset  136
 
96
lsequence       GTCAATCTGCTTTAATCGACATGAAGATGACGCGAAAAGCGCCCTCCTGCGGATCCGGATCCGTCGCTCACCTGGTCTTGAATGACCTGATGTTCG
 
97
 
 
98
seq_name        9962187
 
99
asm_lend        178
 
100
asm_rend        273
 
101
seq_lend        1
 
102
seq_rend        96
 
103
best    0
 
104
comment 
 
105
db      ZZZ
 
106
offset  180
 
107
lsequence       TCCTGCGGATCCGGATCCGTCGCTCACCTGGTCTTGAATGACCTGATGTTCGCAGCCATGGAAGCCGGTTACCGGCTTGCGCCAATCAAGGCAGCA
 
108
 
 
109
seq_name        9970175
 
110
asm_lend        239
 
111
asm_rend        327
 
112
seq_lend        1
 
113
seq_rend        89
 
114
best    0
 
115
comment 
 
116
db      ABC
 
117
offset  241
 
118
lsequence       AAGCCGGTTACCGGCTTGCGCCAATCAAGGCAGCATGCACTGCTGAGCAAAAAGCGAGCCAAACTTGTGACCTGATGGCCTTACGCAAT