Update print statements to make it clear when is a warning for debugging, update tests inline with changes, clean up some old files and update version number

Author: rmcolq

environment.yml

@@ -6,7 +6,7 @@ channels:
   - defaults
 dependencies:
   - wget
-  - biopython
+  - biopython>=1.74
   - minimap2
   - pip
   - python>=3.6

scorpio/__init__.py

@@ -1,2 +1,2 @@
 _program = "scorpio"
-__version__ = "0.2"
+__version__ = "0.3"

scorpio/command.py

@@ -7,7 +7,7 @@
 from Bio.Seq import Seq
 from operator import itemgetter
 
-from type_constellations import load_feature_coordinates
+from .type_constellations import load_feature_coordinates
 
 def parse_args():
     parser = argparse.ArgumentParser(description="""Pick a representative sample for each unique sequence""",