Mercurial > repos > drosofff > mississipi_gcc2

comparison tool_data_table_conf.xml.sample @ 0:de6a6afc5a79 draft default tip

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author drosofff
date Tue, 24 Jun 2014 12:16:43 -0400
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-1:000000000000 0:de6a6afc5a79
1 <tables>
2 <!-- Locations of all fasta files under genome directory -->
3 <table name="all_fasta" comment_char="#">
4 <columns>value, dbkey, name, path</columns>
5 <file path="tool-data/all_fasta.loc" />
6 </table>
7 <!-- Locations of indexes in the BFAST mapper format -->
8 <table name="bfast_indexes" comment_char="#">
9 <columns>value, dbkey, formats, name, path</columns>
10 <file path="tool-data/bfast_indexes.loc" />
11 </table>
12 <!-- Locations of nucleotide (mega)blast databases -->
13 <table name="blastdb" comment_char="#">
14 <columns>value, name, path</columns>
15 <file path="tool-data/blastdb.loc" />
16 </table>
17 <!-- Locations of protein (mega)blast databases -->
18 <table name="blastdb_p" comment_char="#">
19 <columns>value, name, path</columns>
20 <file path="tool-data/blastdb_p.loc" />
21 </table>
22 <!-- Locations of indexes in the BWA mapper format -->
23 <table name="bwa_indexes" comment_char="#">
24 <columns>value, dbkey, name, path</columns>
25 <file path="tool-data/bwa_index.loc" />
26 </table>
27 <!-- Locations of indexes in the BWA color-space mapper format -->
28 <table name="bwa_indexes_color" comment_char="#">
29 <columns>value, dbkey, name, path</columns>
30 <file path="tool-data/bwa_index_color.loc" />
31 </table>
32 <!-- Locations of MAF files that have been indexed with bx-python -->
33 <table name="indexed_maf_files">
34 <columns>name, value, dbkey, species</columns>
35 <file path="tool-data/maf_index.loc" />
36 </table>
37 <!-- Locations of fasta files appropriate for NGS simulation -->
38 <table name="ngs_sim_fasta" comment_char="#">
39 <columns>value, dbkey, name, path</columns>
40 <file path="tool-data/ngs_sim_fasta.loc" />
41 </table>
42 <!-- Locations of PerM base index files -->
43 <table name="perm_base_indexes" comment_char="#">
44 <columns>value, name, path</columns>
45 <file path="tool-data/perm_base_index.loc" />
46 </table>
47 <!-- Locations of PerM color-space index files -->
48 <table name="perm_color_indexes" comment_char="#">
49 <columns>value, name, path</columns>
50 <file path="tool-data/perm_color_index.loc" />
51 </table>
52 <!-- Location of Picard dict file and other files -->
53 <table name="picard_indexes" comment_char="#">
54 <columns>value, dbkey, name, path</columns>
55 <file path="tool-data/picard_index.loc" />
56 </table>
57 <!-- Location of SRMA dict file and other files -->
58 <table name="srma_indexes" comment_char="#">
59 <columns>value, dbkey, name, path</columns>
60 <file path="tool-data/picard_index.loc" />
61 </table>
62 <!-- Location of Mosaik files -->
63 <table name="mosaik_indexes" comment_char="#">
64 <columns>value, dbkey, name, path</columns>
65 <file path="tool-data/mosaik_index.loc" />
66 </table>
67 </tables>