annotate tool-data/all_fasta.loc.sample @ 0:00491eabe22b draft

planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
author devteam
date Wed, 27 May 2015 15:13:19 -0400
parents
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
1 #This file lists the locations and dbkeys of all the fasta files
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
2 #under the "genome" directory (a directory that contains a directory
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
3 #for each build). The script extract_fasta.py will generate the file
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
4 #all_fasta.loc. This file has the format (white space characters are
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
5 #TAB characters):
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
6 #
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
7 #<unique_build_id> <dbkey> <display_name> <file_path>
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
8 #
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
9 #So, all_fasta.loc could look something like this:
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
10 #
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
11 #apiMel3 apiMel3 Honeybee (Apis mellifera): apiMel3 /path/to/genome/apiMel3/apiMel3.fa
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
12 #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /path/to/genome/hg19/hg19canon.fa
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
13 #hg19full hg19 Human (Homo sapiens): hg19 Full /path/to/genome/hg19/hg19full.fa
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
14 #
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
15 #Your all_fasta.loc file should contain an entry for each individual
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
16 #fasta file. So there will be multiple fasta files for each build,
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
17 #such as with hg19 above.
00491eabe22b planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
devteam
parents:
diff changeset
18 #