Mercurial > repos > mikel-egana-aranguren > oppl

comparison README @ 20:46257c870179 draft

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New installation procedure added
author Mikel Egana Aranguren <mikel-egana-aranguren@toolshed.g2.bx.psu.edu>
date Mon, 08 Oct 2012 12:55:08 +0200
parents cc270db37d33
children ffde1fafa066
comparison
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19:cc270db37d33 20:46257c870179
1 INSTALLATION VIA MERCURIAL (RECOMMENDED)
2 ========================================
3
4 1.- Stop Galaxy.
5
6 2.- Move to galaxy-dist/tools/
7
8 3.- Clone the OPPL-Galaxy repository with mercurial:
9
10 hg clone http://mikel-egana-aranguren@toolshed.g2.bx.psu.edu/repos/mikel-egana-aranguren/oppl
11
12 4.- Move to galaxy-dist/tools/oppl/ and run install.sh:
13
14 chmod +x install.sh
15 ./install.sh
16
17 5.- Add the following lines to /galaxy-dist/tool_conf.xml:
18
19 <section name="Ontology Pre Processor Language" id="oppl">
20 <tool file="oppl/oppl.xml"/>
21 <tool file="oppl/inference.xml"/>
22 <tool file="oppl/query.xml"/>
23 <tool file="oppl/oppl_query.xml"/>
24 <tool file="oppl/merge.xml"/>
25 </section>
26
27 6.- Start Galaxy.
28
29 For updates:
30
31 1.- Stop Galaxy.
32
33 2.- Move to galaxy-dist/tools/oppl/
34
35 3.- Update local files:
36
37 hg update
38
39 4.- Run install.sh:
40
41 ./install.sh
42
43 5.- Only edit /galaxy-dist/tool_conf.xml in case a tool (an XML file) has been added/removed.
44
45 6.- Start Galaxy.
1 46
2 47
3 48
4 MANUAL INSTALLATION 49 MANUAL INSTALLATION (DIRECT DOWNLOAD)
5 ============ 50 =====================================
51
52 Download and uncompress anywhere you like, and then:
6 53
7 1.- Stop Galaxy. 54 1.- Stop Galaxy.
8 55
9 2.- Copy the following files and directories to 56 2.- Copy the following files and directories to
10 /galaxy-dist/tool-data/shared/jars/: 57 /galaxy-dist/tool-data/shared/jars/:
20 oppl_query_lib/ 67 oppl_query_lib/
21 merge_lib/ 68 merge_lib/
22 FaCT++-linux-v1.5.2/ 69 FaCT++-linux-v1.5.2/
23 FaCT++-OSX-v1.5.2/ 70 FaCT++-OSX-v1.5.2/
24 71
25 3.- Create directory /galaxy-dist/tools/OPPL/ 72 3.- Create directory /galaxy-dist/tools/oppl/
26 73
27 4.- Copy oppl.xml, inference.xml, query.xml, oppl_query.xml and 74 4.- Copy oppl.xml, inference.xml, query.xml, oppl_query.xml and
28 merge.xml to /galaxy-dist/tools/OPPL/ 75 merge.xml to /galaxy-dist/tools/oppl/
29 76
30 5.- Add the following lines to /galaxy-dist/tool_conf.xml: 77 5.- Add the following lines to /galaxy-dist/tool_conf.xml:
31 78
32 <section name="Ontology Pre Processor Language" id="oppl"> 79 <section name="Ontology Pre Processor Language" id="oppl">
33 <tool file="OPPL/oppl.xml"/> 80 <tool file="oppl/oppl.xml"/>
34 <tool file="OPPL/inference.xml"/> 81 <tool file="oppl/inference.xml"/>
35 <tool file="OPPL/query.xml"/> 82 <tool file="oppl/query.xml"/>
36 <tool file="OPPL/oppl_query.xml"/> 83 <tool file="oppl/oppl_query.xml"/>
37 <tool file="OPPL/merge.xml"/> 84 <tool file="oppl/merge.xml"/>
38 </section> 85 </section>
39 86
40 6.- Start Galaxy. 87 6.- Start Galaxy.
41
42
43 INSTALLATION VIA MERCURIAL AND SHELL SCRIPT
44 88
45 89
46 90
47 FORESEEN FEATURES 91 FORESEEN FEATURES
48 ================= 92 =================