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comparison onto-toolkit/INSTALL @ 1:d2d26d330236

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v 0.2: tools added for OPPL-galaxy
author easr
date Wed, 11 Apr 2012 10:33:41 +0200
parents 4484575e4186
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0:4484575e4186 1:d2d26d330236
5 5
6 1. Galaxy (latest version recommended): 6 1. Galaxy (latest version recommended):
7 7
8 http://main.g2.bx.psu.edu/ 8 http://main.g2.bx.psu.edu/
9 9
10 2. ONTO-PERL (version >= 1.18): 10 2. ONTO-PERL (version >= 1.37):
11 11
12 http://search.cpan.org/dist/ONTO-PERL/ 12 http://search.cpan.org/dist/ONTO-PERL/
13 13
14 After installing the required software: 14 After installing the required software:
15 15
19 19
20 3. Adapt your 'tool_conf.xml' file by adding the 'ONTO-ToolKit' section: 20 3. Adapt your 'tool_conf.xml' file by adding the 'ONTO-ToolKit' section:
21 21
22 <section name="OBO Ontology manipulation" id="ONTO-ToolKit"> 22 <section name="OBO Ontology manipulation" id="ONTO-ToolKit">
23 <tool file="ontology/get_ancestor_terms.xml"/> 23 <tool file="ontology/get_ancestor_terms.xml"/>
24 <tool file="ontology/get_child_terms.xml"/>
25 <tool file="ontology/get_descendent_terms.xml"/>
26 <tool file="ontology/get_intersection_ontology_from.xml"/>
27 <tool file="ontology/get_list_intersection_from.xml"/>
28 <tool file="ontology/get_parent_terms_by_relationship_type.xml"/>
24 <tool file="ontology/get_parent_terms.xml"/> 29 <tool file="ontology/get_parent_terms.xml"/>
25 <tool file="ontology/get_descendent_terms.xml"/> 30 <tool file="ontology/get_relationship_types.xml"/>
26 <tool file="ontology/get_child_terms.xml"/> 31 <tool file="ontology/get_subontology_from.xml"/>
32 <tool file="ontology/get_terms_by_relationship_type.xml"/>
33 <tool file="ontology/obo2owl.xml" />
34 <tool file="ontology/obo2rdf.xml" />
35 <tool file="ontology/obo2tran.xml" />
27 <tool file="ontology/term_id_vs_term_def.xml"/> 36 <tool file="ontology/term_id_vs_term_def.xml"/>
28 <tool file="ontology/term_id_vs_term_name.xml"/> 37 <tool file="ontology/term_id_vs_term_name.xml"/>
29 <tool file="ontology/get_relationship_types.xml"/>
30 <tool file="ontology/obo2rdf.xml" />
31 <tool file="ontology/obo2tran.xml" />
32 <tool file="ontology/obo2owl.xml" />
33 </section> 38 </section>
34 39
35 4. Restart your Galaxy instance. 40 4. Restart your Galaxy instance.
36 41
37 Bugs/comments/questions/etc 42 Bugs/comments/questions/etc