root/galaxy-central/tool-data/binned_scores.loc @ 3

リビジョン 3, 2.3 KB (コミッタ: kohda, 14 年 前)

Install Unix tools  http://hannonlab.cshl.edu/galaxy_unix_tools/galaxy.html
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1#This is a sample file distributed with Galaxy that enables tools
2#to use a directory of FileBinnedArray data files.  You will need
3#to create these data files and then create a binned_scores.loc file
4#similar to this one (store it in this directory ) that points to
5#the directories in which those files are stored.  The binned_scores.loc
6#file has this format (white space characters are TAB characters):
7#
8#<build>        <description>   <dir>
9#
10#So, for example, if you had hg16 ENCODE binCons on MLAGAN alignments
11#stored in /depot/data2/galaxy/binned_scores/hg16/encode_bincons_lagan,
12#then the binned_scores.loc entry would look like this:
13#
14#hg16    ENCODE binCons on MLAGAN alignments     /depot/data2/galaxy/binned_scores/hg16/encode_bincons_lagan
15#
16#and your /depot/data2/galaxy/binned_scores/hg16/encode_bincons_lagan
17#directory would contain all of your "binned" files (e.g.):
18#
19#-rw-r--r--  1 james    universe 830134 2005-09-13 10:12 ENm001
20#-rw-r--r--  1 james    universe 527388 2005-09-13 10:12 ENm002
21#-rw-r--r--  1 james    universe 269808 2005-09-13 10:12 ENm003
22#...etc...
23#
24#Your binned_scores.loc file should include an entry per line for each
25#"binned" file you have stored.  For example:
26#
27#hg16   ENCODE binCons on MLAGAN alignments     /depot/data2/galaxy/binned_scores/hg16/encode_bincons_lagan
28#hg16   ENCODE binCons on TBA alignments        /depot/data2/galaxy/binned_scores/hg16/encode_bincons_tba
29#hg16   ENCODE GERP on MLAGAN alignment /depot/data2/galaxy/binned_scores/hg16/encode_gerp_lagan
30#hg16   ENCODE GERP on TBA alignment    /depot/data2/galaxy/binned_scores/hg16/encode_gerp_tba
31#hg16   ENCODE phastCons on MLAGAN alignment    /depot/data2/galaxy/binned_scores/hg16/encode_phastcons_lagan
32#hg16   ENCODE phastCons on TBA alignment       /depot/data2/galaxy/binned_scores/hg16/encode_phatcons_tba
33#hg17   ENCODE phastCons on TBA alignment       /depot/data2/galaxy/binned_scores/hg17/phastcons_encode_sep2005_tba
34#hg17   phastCons on 8-species multiz, 16-Jun-2005      /depot/data2/galaxy/binned_scores/hg17/phastcons_mzPt1Mm5Rn3Cf1Gg2Fr1Dr1/
35#hg17   phastCons on 17-species multiz, 13-Apr-2006     /depot/data2/galaxy/binned_scores/hg17/phastCons17way/ba
36#hg17   ESPERR Regulatory Potential, 7-species, 23-Jun-2006     /depot/data2/galaxy/binned_scores/hg17/esperr_rp_7way/ba
37#hg18   phastCons on 17-species multiz, 06-Apr-2006     /depot/data2/galaxy/binned_scores/hg18/phastCons17way/ba
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