From 67b90474e5117866d8850ec93d76b7417c09dc4f Mon Sep 17 00:00:00 2001
From: Jesper Friis <jesper-friis@users.noreply.github.com>
Date: Thu, 2 May 2024 09:55:36 +0200
Subject: [PATCH] Added minor fixes for ontoconvert (#739)

# Description
Minor fixes for ontoconvert option help.

Also included `emmo:comment` to the set of annotations included in the
`--copy-emmo-annotations` option.

**Note**: Builds on top of PR
https://github.com/emmo-repo/EMMOntoPy/pull/756. Merge that PR first!

## Type of change
- [x] Bug fix.
- [ ] New feature.
- [ ] Documentation update.
- [ ] Test update.

## Checklist
<!-- Put an `x` in the boxes that apply. You can also fill these out
after creating the PR. -->

This checklist can be used as a help for the reviewer.

- [ ] Is the code easy to read and understand?
- [ ] Are comments for humans to read, not computers to disregard?
- [ ] Does a new feature has an accompanying new test (in the CI or unit
testing schemes)?
- [ ] Has the documentation been updated as necessary?
- [ ] Does this close the issue?
- [ ] Is the change limited to the issue?
- [ ] Are errors handled for all outcomes?
- [ ] Does the new feature provide new restrictions on dependencies, and
if so is this documented?

## Comments
<!-- Additional comments here, including clarifications on checklist if
applicable. -->

---------

Co-authored-by: Francesca L. Bleken <48128015+francescalb@users.noreply.github.com>
---
 tests/testonto/domainonto.ttl | 5 +++++
 tools/ontoconvert             | 7 +++++--
 2 files changed, 10 insertions(+), 2 deletions(-)

diff --git a/tests/testonto/domainonto.ttl b/tests/testonto/domainonto.ttl
index f7e5bf71..545bcd20 100644
--- a/tests/testonto/domainonto.ttl
+++ b/tests/testonto/domainonto.ttl
@@ -43,6 +43,11 @@ emmo:EMMO_967080e5_2f42_4eb2_a3a9_c58143e835f9 a owl:AnnotationProperty ;
     skos:prefLabel "elucidation"@en ;
     rdfs:comment "Short enlightening explanation aimed to facilitate the user in drawing the connection (interpretation) between a OWL entity and the real world object(s) for which it stands."@en .
 
+emmo:EMMO_c7b62dd7_063a_4c2a_8504_42f7264ba83f a owl:AnnotationProperty ;
+    rdfs:subPropertyOf rdfs:comment ;
+    skos:prefLabel "comment"@en ;
+    rdfs:comment "A text that add some information about the entity."@en .
+
 :EMMO_70fe84ff_99b6_4206_a9fc_9a8931836d84 a owl:AnnotationProperty ;
     rdfs:subPropertyOf rdfs:comment ;
     skos:prefLabel "definition"@en ;
diff --git a/tools/ontoconvert b/tools/ontoconvert
index d97123bd..3e1e6a6f 100755
--- a/tools/ontoconvert
+++ b/tools/ontoconvert
@@ -87,8 +87,10 @@ def main(argv: list = None):
             "http://www.w3.org/2004/02/skos/core#prefLabel"
             "-->http://www.w3.org/2000/01/rdf-schema#label "
             "--copy-annotation=elucidation"
-            "-->http://www.w3.org/2000/01/rdf-schema#comment`"
+            "-->http://www.w3.org/2000/01/rdf-schema#comment` "
             "--copy-annotation=definition"
+            "-->http://www.w3.org/2000/01/rdf-schema#comment` "
+            "--copy-annotation=comment"
             "-->http://www.w3.org/2000/01/rdf-schema#comment`"
         ),
     )
@@ -110,7 +112,7 @@ def main(argv: list = None):
         metavar="NAME",
         help=(
             "Add additional relations inferred by the reasoner.  Supported "
-            'reasoners are "FaCT++" (default), "HermiT" and "Pellet".'
+            'reasoners are "HermiT" (default), "Pellet" and "FaCT++".'
         ),
     )
     parser.add_argument(
@@ -242,6 +244,7 @@ def main(argv: list = None):
                 "-->http://www.w3.org/2000/01/rdf-schema#label",
                 "elucidation-->http://www.w3.org/2000/01/rdf-schema#comment",
                 "definition-->http://www.w3.org/2000/01/rdf-schema#comment",
+                "comment-->http://www.w3.org/2000/01/rdf-schema#comment",
             ]
         )