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root/yamap/quickmine.ini
Revision: 1.2
Committed: Fri Dec 14 13:51:38 2007 UTC (8 years, 6 months ago) by gawi79
Branch: MAIN
CVS Tags: HEAD
Changes since 1.1: +19 -21 lines
Log Message:
Used in YAMAP v1.02

Line File contents
1 ; Config::Simple 4.57
2 ; Wed Feb 7 15:05:02 2007
3
4 [PATHS]
5 path2proteins=/home/gawi/yamap/yamap/yamap_out
6 path2blast=/home/gawi/yamap/yamap/yamap_out
7 path2public=/home/gawi/yamap/yamap/yamap_out
8 path2output=/home/gawi/yamap/yamap/yamap_out
9 path2scripts=/usr/local/bioinf/yamap/yamap/bin
10
11 [RUN]
12 time=0
13 parse=1
14 orphans=1
15 increment=0
16 plots=0
17 hits=1
18 quickmine=1
19 summarizer=1
20 orphan_count=0
21 split=1
22 paralogue_count=0
23 binary=1
24 orphan_size=0
25 format=1
26 indiv_plot=0
27 genetable=1
28 dot_plot=0
29
30 [LEAVE_ALONE]
31 fasta_file_ending=.fasta
32 write_fasta_files=1
33 condor_output=1
34 ext=.qm
35
36 [ENDINGS]
37 time_end=_orphan_increment.html
38 matrix_end=_SELF_blastn_matrix.html
39 count_end=_SELF_blastn_overview.html
40 end=_SELF_blastn_overview.html.hits.html
41
42 [PARAMS]
43 advanced=1
44 self_hit=1
45 record_separator=tab
46 sig_thresh=0.001
47 blast_command=/usr/local/bin/blastall -p blastn -d yamap_out/SELF_blast_database
48 stylesheet=http://www.genomics.ceh.ac.uk/~dfield/QUICKMINE/quickmineoutput.css
49 formatdb=/usr/local/bin/formatdb -i yamap_out/SELF_blast_database -p F -o F
50 blast_programme=blastn