Mercurial > repos > mikel-egana-aranguren > oppl

comparison README @ 22:8d4bbaa99b4a draft

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Minor changes for JBS paper
author Mikel Egana Aranguren <mikel-egana-aranguren@toolshed.g2.bx.psu.edu>
date Sun, 14 Oct 2012 17:21:51 +0200
parents ffde1fafa066
children
comparison
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21:ffde1fafa066 22:8d4bbaa99b4a
30 30
31 1.- Stop Galaxy. 31 1.- Stop Galaxy.
32 32
33 2.- Move to galaxy-dist/tools/oppl/ 33 2.- Move to galaxy-dist/tools/oppl/
34 34
35 3.- Pull changes adn update working copy: 35 3.- Pull changes and update working copy with mercurial:
36 36
37 hg pull 37 hg pull
38 hg update 38 hg update
39 39
40 4.- Run install.sh: 40 4.- Run install.sh:
41 41
42 ./install.sh 42 ./install.sh
43 43
44 5.- Only edit /galaxy-dist/tool_conf.xml in case a tool (an XML file) has been added/removed. 44 5.- Only edit galaxy-dist/tool_conf.xml in case a tool (an XML file) has been added/removed.
45 45
46 6.- Start Galaxy. 46 6.- Start Galaxy.
47 47
48 48
49 49
53 Download and uncompress anywhere you like, and then: 53 Download and uncompress anywhere you like, and then:
54 54
55 1.- Stop Galaxy. 55 1.- Stop Galaxy.
56 56
57 2.- Copy the following files and directories to 57 2.- Copy the following files and directories to
58 /galaxy-dist/tool-data/shared/jars/: 58 galaxy-dist/tool-data/shared/jars/:
59 59
60 oppl_galaxy_tool.jar 60 oppl_galaxy_tool.jar
61 inference.jar 61 inference.jar
62 query.jar 62 query.jar
63 oppl_query.jar 63 oppl_query.jar
68 oppl_query_lib/ 68 oppl_query_lib/
69 merge_lib/ 69 merge_lib/
70 FaCT++-linux-v1.5.2/ 70 FaCT++-linux-v1.5.2/
71 FaCT++-OSX-v1.5.2/ 71 FaCT++-OSX-v1.5.2/
72 72
73 3.- Create directory /galaxy-dist/tools/oppl/ 73 3.- Create directory galaxy-dist/tools/oppl/
74 74
75 4.- Copy oppl.xml, inference.xml, query.xml, oppl_query.xml and 75 4.- Copy oppl.xml, inference.xml, query.xml, oppl_query.xml and
76 merge.xml to /galaxy-dist/tools/oppl/ 76 merge.xml to galaxy-dist/tools/oppl/
77 77
78 5.- Add the following lines to /galaxy-dist/tool_conf.xml: 78 5.- Add the following lines to galaxy-dist/tool_conf.xml:
79 79
80 <section name="Ontology Pre Processor Language" id="oppl"> 80 <section name="Ontology Pre Processor Language" id="oppl">
81 <tool file="oppl/oppl.xml"/> 81 <tool file="oppl/oppl.xml"/>
82 <tool file="oppl/inference.xml"/> 82 <tool file="oppl/inference.xml"/>
83 <tool file="oppl/query.xml"/> 83 <tool file="oppl/query.xml"/>
104 104
105 - Other output formats apart from RDF/XML. 105 - Other output formats apart from RDF/XML.
106 106
107 - Support for DataPropertyAssertion, DataPropertyHierarchy, 107 - Support for DataPropertyAssertion, DataPropertyHierarchy,
108 DifferentIndividuals, ... 108 DifferentIndividuals, ...
109
110 - A new tool for wrapping the ontology modularisation function of the OWL API.
109 111
110 112
111 113
112 KNOWN BUGS AND ISSUES 114 KNOWN BUGS AND ISSUES
113 ===================== 115 =====================