Mercurial > repos > yating-l > multi_fasta_glimmer_hmm

comparison tool_data_table_conf.xml.sample @ 0:b07a805758cc draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/remimarenco/multi_fasta_glimmerhmm.git commit 1245031a7d52c922c86f33ebfd0f20eb9ddf84ac-dirty
author yating-l
date Mon, 01 May 2017 15:29:33 -0400
parents
children
comparison
equal deleted inserted replaced
-1:000000000000 0:b07a805758cc
1 <!-- Use the file tool_data_table_conf.xml.oldlocstyle if you don't want to update your loc files as changed in revision 4550:535d276c92bc-->
2 <tables>
3 <!-- Locations of all fasta files under genome directory -->
4 <table name="all_fasta" comment_char="#">
5 <columns>value, dbkey, name, path</columns>
6 <file path="tool-data/all_fasta.loc" />
7 </table>
8 <!-- Locations of indexes in the BFAST mapper format -->
9 <table name="bfast_indexes" comment_char="#">
10 <columns>value, dbkey, formats, name, path</columns>
11 <file path="tool-data/bfast_indexes.loc" />
12 </table>
13 <!-- Locations of protein (mega)blast databases -->
14 <table name="blastdb_p" comment_char="#">
15 <columns>value, name, path</columns>
16 <file path="tool-data/blastdb_p.loc" />
17 </table>
18 <!-- Locations of indexes in the BWA mapper format -->
19 <table name="bwa_indexes" comment_char="#">
20 <columns>value, dbkey, name, path</columns>
21 <file path="tool-data/bwa_index.loc" />
22 </table>
23 <!-- Locations of indexes in the BWA color-space mapper format -->
24 <table name="bwa_indexes_color" comment_char="#">
25 <columns>value, dbkey, name, path</columns>
26 <file path="tool-data/bwa_index_color.loc" />
27 </table>
28 <!-- Locations of MAF files that have been indexed with bx-python -->
29 <table name="indexed_maf_files">
30 <columns>name, value, dbkey, species</columns>
31 <file path="tool-data/maf_index.loc" />
32 </table>
33 <!-- Locations of fasta files appropriate for NGS simulation -->
34 <table name="ngs_sim_fasta" comment_char="#">
35 <columns>value, dbkey, name, path</columns>
36 <file path="tool-data/ngs_sim_fasta.loc" />
37 </table>
38 <!-- Locations of PerM base index files -->
39 <table name="perm_base_indexes" comment_char="#">
40 <columns>value, name, path</columns>
41 <file path="tool-data/perm_base_index.loc" />
42 </table>
43 <!-- Locations of PerM color-space index files -->
44 <table name="perm_color_indexes" comment_char="#">
45 <columns>value, name, path</columns>
46 <file path="tool-data/perm_color_index.loc" />
47 </table>
48 <!-- Location of Picard dict file and other files -->
49 <table name="picard_indexes" comment_char="#">
50 <columns>value, dbkey, name, path</columns>
51 <file path="tool-data/picard_index.loc" />
52 </table>
53 <!-- Location of SRMA dict file and other files -->
54 <table name="srma_indexes" comment_char="#">
55 <columns>value, dbkey, name, path</columns>
56 <file path="tool-data/picard_index.loc" />
57 </table>
58 <!-- Location of Mosaik files -->
59 <table name="mosaik_indexes" comment_char="#">
60 <columns>value, dbkey, name, path</columns>
61 <file path="tool-data/mosaik_index.loc" />
62 </table>
63 <!-- Locations of indexes in the 2bit format -->
64 <table name="twobit" comment_char="#">
65 <columns>value, path</columns>
66 <file path="tool-data/twobit.loc" />
67 </table>
68 <!-- Available IGV builds, loaded from URL -->
69 <table name="igv_broad_genomes" comment_char="#">
70 <columns>name, url, value</columns>
71 <file url="http://igv.broadinstitute.org/genomes/genomes.txt" />
72 </table>
73 <!-- Available liftOver chain file -->
74 <table name="liftOver" comment_char="#">
75 <columns>dbkey, name, value</columns>
76 <file path="tool-data/liftOver.loc" />
77 </table>
78 <!-- iobio bam servers -->
79 <table name="bam_iobio" comment_char="#">
80 <columns>value, name, url</columns>
81 <file path="tool-data/bam_iobio.loc" />
82 </table>
83 <!-- iobio vcf servers -->
84 <table name="vcf_iobio" comment_char="#">
85 <columns>value, name, url</columns>
86 <file path="tool-data/vcf_iobio.loc" />
87 </table>
88 <!-- simple biom servers -->
89 <table name="biom_simple_display" comment_char="#">
90 <columns>value, name, url</columns>
91 <file path="tool-data/biom_simple_display.loc" />
92 </table>
93 <!-- glimmer_hmm trained_dir -->
94 <table name="glimmer_hmm_trained_dir" comment_char="#">
95 <columns>value, name, path</columns>
96 <file path="tool-data/glimmer_hmm.loc" />
97 </table>
98 </tables>