Add test save (#686)

Added initial test for ontology.save. Some of them are commented out and need to be adressed in specific issues.

ontopy/ontology.py

@@ -1555,7 +1555,7 @@ def get_version(self, as_iri=False) -> str:
                 "No versionIRI or versionInfo " f"in Ontology {self.base_iri!r}"
             )
         _, _, version_info = tokens[0]
-        return version_info.strip('"').strip("'")
+        return version_info.split("^^")[0].strip('"')
 
     def set_version(self, version=None, version_iri=None):
         """Assign version to ontology by asigning owl:versionIRI.

tests/test_save.py

@@ -0,0 +1,106 @@
+from typing import TYPE_CHECKING
+
+if TYPE_CHECKING:
+    from pathlib import Path
+
+
+def test_save(
+    tmpdir: "Path",
+    testonto: "Ontology",
+    repo_dir: "Path",
+) -> None:
+    import os
+    from pathlib import Path
+
+    # For debugging purposes tmpdir can be set to a directory
+    # in the current directory: test_save_dir
+    # Remember to remove the directory after testing
+    debug = False
+    if debug:
+        tmpdir = repo_dir / "tests" / "test_save_dir"
+        import os
+
+        os.makedirs(tmpdir, exist_ok=True)
+
+    # Save ontology in a different location
+    testonto.save(tmpdir / "testonto_saved.ttl")
+    # check that the file is in tmpdir
+    assert (tmpdir / "testonto_saved.ttl").exists()
+    testonto.save(format="rdfxml")
+
+    # provide a format and filename
+    testonto.save(tmpdir / "testonto_saved.owl", format="rdfxml")
+    assert (tmpdir / "testonto_saved.owl").exists()
+
+    # Provide only filename
+    # Note that when not giving a filename and not giving a directory
+    # the file will be saved in the current directory
+    testonto.save(format="rdfxml")
+    assert Path(testonto.name + ".rdfxml").exists()
+    # check if testonto_saved.owl and testonto.rdfxml are identical files
+    with open(tmpdir / "testonto_saved.owl") as f:
+        owlfile = f.read()
+    with open(Path(testonto.name + ".rdfxml")) as f:
+        rdfxmlfile = f.read()
+    assert owlfile == rdfxmlfile
+    # Delete the file from the current directory
+    Path(testonto.name + ".rdfxml").unlink()
+
+    # Provide format and directory
+    testonto.save(format="rdfxml", dir=tmpdir)
+    assert (tmpdir / str(testonto.name + ".rdfxml")).exists()
+
+    # Provide directory that does not exist, but add mkdir=True
+    testonto.save(format="owl", dir=tmpdir / "subdir", mkdir=True)
+    assert (tmpdir / "subdir" / (testonto.name + ".owl")).exists()
+
+    # Check that file is overwritten only wityh overwrite=True, and
+    # not by default (overwrite=False).
+    # To do this we
+    # 1. check that the file testonto.rdfxml is the same as
+    # testonto_saved.owl
+    # 2. save testonto to testonto.rdfxml again. Since overwrite=False
+    # this should append to testonto.rdfxml
+    # 3. check that testonto.owl is not the same as testonto_saved.owl
+    # 4. save testonto to testonto.owl again, but with overwrite=True
+    # 5. check that testonto.owl is the same as testonto_saved.owl
+    # NB! this is not currently working, issue #685
+
+    # 1.
+    with open(tmpdir / "testonto_saved.owl") as f:
+        owlfile = f.read()
+    with open(tmpdir / "testonto.rdfxml") as f:
+        owlfile2 = f.read()
+    assert owlfile == owlfile2
+    # 2.
+    testonto.save(format="rdfxml", dir=tmpdir)
+    # 3.
+    with open(tmpdir / "testonto_saved.owl") as f:
+        owlfile = f.read()
+    with open(tmpdir / "testonto.rdfxml") as f:
+        owlfile2 = f.read()
+    # assert owlfile != owlfile2 # to be uncommented when issue #685 is fixed
+    # 4.
+    testonto.save(format="rdfxml", dir=tmpdir, overwrite=True)
+    # 5.
+    with open(tmpdir / "testonto_saved.owl") as f:
+        owlfile = f.read()
+    with open(tmpdir / "testonto.rdfxml") as f:
+        owlfile2 = f.read()
+    assert owlfile == owlfile2
+
+    # Test that the ontology is saved recursively when deisred
+    testonto.save(
+        format="ttl", dir=tmpdir / "recursively", mkdir=True, recursive=True
+    )
+    assert (tmpdir / "recursively" / "testonto.ttl").exists()
+    # Recursive save is not working . Issue #687
+    # assert (tmpdir / "recursively" / "models.ttl").exists()
+
+    # squash merge during save
+
+    # Write catalogfile
+
+    # append_catalog
+
+    # catalog_filename