owlcollab/owltools

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OWLTools

Stars: 115
Forks: 34
Open beginner issues: 0
Indexed issues: 122

Dominant language: Java
License: BSD-3-Clause
Last GitHub push: Jul 7, 2026
Latest indexed: Sep 20, 2026
Contributing guide: No contributing guide
Code of conduct: No code of conduct
Beginner labels: No beginner labels indexed
PR merge metrics: No merged PRs in 30d

Beginner friendly Everything

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122 open issues indexed

GAF 2.2 relations are not properly emitted during GOlr loading Open

bug

Difficulty 4/5 3-5 days Newbie friendliness 35/100

owlcollab/owltools#312 · Opened Feb 10, 2021
Add or confirm support for GAF 2.2 to owltools Open

bug

Difficulty 4/5 3-5 days Newbie friendliness 35/100

owlcollab/owltools#291 · Opened Apr 10, 2020
Feature request: Need simple IC score generation Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

owlcollab/owltools#289 · Opened Nov 12, 2019
Remove role GCIs from biochebi output Open

owlcollab/owltools#287 · 5 comments · 1 assignee · Opened Oct 21, 2019
Conversion from OBO to OWL Functional creates invalid IRIs Open

Difficulty 3/5 1-2 days Newbie friendliness 42/100

owlcollab/owltools#286 · Opened Jul 12, 2019
Using make-species-subset command to extract plant specific terms from go-plus.owl Open

Difficulty 4/5 3-5 days Newbie friendliness 28/100

owlcollab/owltools#283 · 9 comments · Opened May 13, 2019
Duplicated entries after map2slim Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

owlcollab/owltools#272 · Opened Feb 24, 2019
Migrate owltools dependencies from code.berkeleybop.org to GitHub Open

enhancement

owlcollab/owltools#269 · 1 assignee · Opened Feb 8, 2019
map2slim memory requirements Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

owlcollab/owltools#263 · Opened Sep 10, 2018
ClassCastException / crash when running --make-species-subset Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

owlcollab/owltools#262 · 7 comments · Opened Aug 6, 2018
Add GO term created_by and creation_date into loader for GOlr Open

enhancement

Difficulty 4/5 3-5 days Newbie friendliness 30/100

owlcollab/owltools#257 · 4 comments · Opened Jun 6, 2018
Unstable output for owltools --save-closure-for-chado Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

owlcollab/owltools#256 · 8 comments · Opened Jun 5, 2018
Error when convert Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

owlcollab/owltools#255 · Opened May 18, 2018
Correct label and biological process issues for model annotation loader, possible other improvements Open

enhancement

owlcollab/owltools#253 · 16 comments · 1 assignee · Opened May 8, 2018
refactor identifiers to use CurieUtil Open

owlcollab/owltools#252 · 1 assignee · Opened May 8, 2018
Converting gaf/gpad to ttl(owl) format Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

owlcollab/owltools#244 · 3 comments · Opened Apr 2, 2018
Extend solr loader to populate new closure fields Open

owlcollab/owltools#243 · 2 comments · 1 assignee · Opened Mar 8, 2018
Add code to populate regulates-strict closure Open

owlcollab/owltools#241 · 1 assignee · Opened Feb 20, 2018
GAF inference are incomplete because of incorrect mapping for part_of Open

owlcollab/owltools#238 · 5 comments · 1 assignee · Opened Feb 3, 2018
Ensure owltools produces correct aspect when generating predicted GAFs Open

owlcollab/owltools#237 · 2 comments · 1 assignee · Opened Feb 3, 2018
SolrCommandRunner should skip models that are unsatisfiable Open

owlcollab/owltools#234 · 6 comments · 1 assignee · Opened Jan 18, 2018
Should TableRenderer include properties? Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

owlcollab/owltools#229 · 5 comments · Opened Dec 21, 2017
Add prefix definition Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

owlcollab/owltools#228 · 2 comments · Opened Dec 21, 2017
Compiling fails Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

owlcollab/owltools#221 · Opened Nov 8, 2017
Is it possible to get paths from one OWL Entity to another using OWLTools? Open

Difficulty 5/5 Over a week Newbie friendliness 15/100

owlcollab/owltools#220 · 1 comment · Opened Oct 30, 2017
Get a subgraph from class axioms Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

owlcollab/owltools#218 · 3 comments · Opened Oct 12, 2017
map2slim documentation image is broken Open

Difficulty 1/5 Under an hour Newbie friendliness 65/100

owlcollab/owltools#209 · Opened Jul 13, 2017
Change merge equivalence sets behavior Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

owlcollab/owltools#203 · 2 comments · Opened Jun 15, 2017
OWL Tools Jar - Unable to integrate into Maven based Application - Windows 8 Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

owlcollab/owltools#202 · 14 comments · Opened Jun 12, 2017
Object properties as outgoing edges from an owl class Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

owlcollab/owltools#201 · 2 comments · Opened Jun 1, 2017
map2slim keep originals Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

owlcollab/owltools#199 · 1 comment · Opened May 10, 2017
Solr loading should be resilient in the face of unknown taxon IDs Open

Difficulty 3/5 1-2 days Newbie friendliness 45/100

owlcollab/owltools#196 · Opened May 1, 2017
Upgrade OWLTools-Solr to Solr7 Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

owlcollab/owltools#194 · 4 comments · Opened May 1, 2017
OWLTools Build failed using maven in Windows 8 Open

owlcollab/owltools#193 · 19 comments · 1 assignee · Opened Apr 28, 2017
Test golr loader is resilient for ontology IRIs not matching name in import Open

owlcollab/owltools#188 · 1 assignee · Opened Apr 11, 2017
FastOwlSim's SimGIC scoring discrepancy Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

owlcollab/owltools#187 · 4 comments · Opened Apr 5, 2017
Improve CLI for solr loading Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

owlcollab/owltools#184 · 1 comment · Opened Mar 30, 2017
OWLTools-Solr cleanup Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

owlcollab/owltools#181 · 2 comments · Opened Mar 30, 2017
Terms are not completely removed by --make-species-subset Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

owlcollab/owltools#164 · 7 comments · Opened Sep 26, 2016
Error building from source Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

owlcollab/owltools#163 · 8 comments · Opened Sep 8, 2016
Add an obograph-json export option Open

Difficulty 4/5 3-5 days Newbie friendliness 20/100

owlcollab/owltools#161 · Opened Aug 30, 2016
Method isOboXRef Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

owlcollab/owltools#159 · Opened Jul 24, 2016
Why getOWLClassByIdentifierNoAltIds? Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

owlcollab/owltools#158 · Opened Jul 23, 2016
Provide javadoc for Golr client Open

owlcollab/owltools#157 · 1 assignee · Opened Jul 15, 2016
Issue with slimming over has_part Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

owlcollab/owltools#156 · Opened Jul 6, 2016
Invalid GAF in Example command-line Open

Difficulty 2/5 1-3 hours Newbie friendliness 28/100

owlcollab/owltools#155 · Opened Jun 27, 2016
Fix URLs for go annotation rules Open

owlcollab/owltools#154 · 1 assignee · Opened Jun 21, 2016
GafSolrDocumentLoader should load secondary taxa Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

owlcollab/owltools#151 · 3 comments · Opened Apr 28, 2016
merge-support-ontologies does not work if ontology lacks an ontologyIRI Open

Difficulty 3/5 1-2 days Newbie friendliness 25/100

owlcollab/owltools#150 · Opened Mar 29, 2016
Error when saving as functional syntax Open

Difficulty 3/5 1-2 days Newbie friendliness 45/100

owlcollab/owltools#148 · 1 comment · Opened Feb 11, 2016

owlcollab/owltools

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