Milestone Review

• bump package version to 0.2.0
• change cli: file paths are not longer optional (--transcripts, --annotation) put positional arguments
• refactor TranscriptGenerator class
• update Docker
• add convenience imports
• implement linter suggestions

tests/test_main.py

@@ -62,7 +62,7 @@ class TestGtf:
     def test_parsed(self):
         annotations = Gtf()
         annotations.read_file("tests/resources/Annotation1.gtf")
-        annotations.parse_free_text()
+        annotations.parse_key_value()
 
         assert annotations.parsed == True
         assert set(annotations.free_text_columns) == set(