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root/yamap/yamap_run.ini
Revision: 1.5
Committed: Wed Dec 13 11:36:48 2006 UTC (9 years, 2 months ago) by gawi79
Branch: MAIN
CVS Tags: HEAD
Changes since 1.4: +53 -51 lines
Log Message:
Added QuickMine option

Line File contents
1 ; Config::Simple 4.57
2 ; Tue Dec 12 16:18:10 2006
3
4 [DBBLAST]
5 database=
6 other_opts=
7 jobs=2
8 program=blastx
9
10 [MSATFINDER]
11 engine=1
12 mrange=1+12|2+8|3+5|4+5|5+5|6+5
13 interrupts=0
14 flank_size=300
15
16 [PFAM]
17 database=/home/db/pfam
18 other_opts=
19 fast=1
20 overlap=0
21
22 [PALINDROME]
23 maxpallen=100
24 minpallen=10
25 gaplimit=100
26 nummismatches=0
27 overlap=Y
28
29 [EQUICKTANDEM]
30 threshold=20
31 maxrepeat=600
32
33 [EINVERTED]
34 gap=12
35 threshold=50
36 mismatch=-4
37 match=3
38 maxrepeat=4000
39
40 [BIGBLAST]
41 database=/home/db/blast/swissprot
42 other_opts=
43 jobs=2
44 program=blastx
45
46 [SELFBLAST]
47 other_opts=-e 0.0000001
48 jobs=2
49 program=tblastx
50
51 [CONSBLAST]
52 database=/home/db/collector/consortium-current
53 other_opts=
54 jobs=2
55 program=tblastx
56
57 [GLIMMER]
58 arguments_longorfs=
59 arguments_glimmer2=
60
61 [ETANDEM]
62 uniform=
63 mismatch=
64 minrepeat=12
65
66 [TRNASCAN]
67 other_opts=
68 covariance=N
69 searchmode=Bacterial
70 showall=Y
71
72 [COMMON]
73 dontask=yes
74 outdir=yamap_out
75 bigblast=0
76 etandem=0
77 pfam=0
78 palindrome=0
79 quickmine=0
80 dbblast=0
81 msatfinder=0
82 einverted=0
83 transterm=0
84 glimmer=0
85 trnascan=0
86 consblast=0
87 selfblast=0
88
89 [TRANSTERM]
90 other_opts=
91 version=1