structure updates for pip

Author: kennypavan

src/OrthogonalBarcode.py OrthogonalBarcodes/OrthogonalBarcode.pysrc/OrthogonalBarcode.py renamed to OrthogonalBarcodes/OrthogonalBarcode.py

@@ -90,16 +90,3 @@ def filter_ooi_fasta_sequences(self,barcode):
 				if ( ((alignment.score/self.length)*100) >= self.ooi_homology_threshold ):
 					return True
 
-
-
-# Basic Usage
-# barcodes = OrthogonalBarcode()
-# barcodes.length=25
-# barcodes.gc=50
-# barcodes.amount=10
-# barcodes.hamming_distance=4
-# barcodes.ooi_file='tests/test_ooi.fasta'
-# barcodes.ooi_homology_threshold = 40
-# barcodes.avoid_rs=[EcoRI,BamHI,NheI,XhoI,KasI]
-# barcodes.generate_barcodes()
-# print(barcodes.barcodes)

README.md

@@ -25,7 +25,9 @@ pip install OrthogonalBarcodes
 ## Quickstart
 
 ```python
-barcodes = OrthogonalBarcode()
+from OrthogonalBarcodes import OrthogonalBarcode
+
+barcodes = OrthogonalBarcode.OrthogonalBarcode()
 barcodes.length=25
 barcodes.gc=50
 barcodes.amount=10
@@ -46,8 +48,10 @@ print(barcodes.barcodes)
 ## Full Usage
 
 ```python
+from OrthogonalBarcodes import OrthogonalBarcode
+
 # Instantiate the class and set required/optional properties below.
-barcodes = OrthogonalBarcode()
+barcodes = OrthogonalBarcode.OrthogonalBarcode()
 
 # Required — The length of each barcode (Default:20)
 barcodes.length=25

setup.py

@@ -5,19 +5,22 @@
 
 
 setuptools.setup(
-     name='OrthogonalBarcodes',  
-     version='0.1',
-     scripts=['src/OrthogonalBarcode.py'] ,
-     author="Kenny Pavan",
-     author_email="kennypavan@protonmail.com",
-     description="A simple Python class for generating custom orthogonal DNA/RNA barcodes.",
-     long_description=long_description,
-   long_description_content_type="text/markdown",
-     url="https://github.com/kennypavan/OrthogonalBarcodes",
-     packages=setuptools.find_packages(),
-     classifiers=[
-         "Programming Language :: Python :: 3",
-         "License :: OSI Approved :: MIT License",
-         "Operating System :: OS Independent",
-     ],
+    name='OrthogonalBarcodes',  
+    version='0.2.5',
+    author="Kenny Pavan",
+    author_email="kennypavan@protonmail.com",
+    description="A simple Python class for generating custom orthogonal DNA/RNA barcodes.",
+    long_description=long_description,
+    long_description_content_type="text/markdown",
+    url="https://github.com/kennypavan/OrthogonalBarcodes",
+    packages=['OrthogonalBarcodes'],
+    classifiers=[
+        "Programming Language :: Python :: 3",
+        "License :: OSI Approved :: MIT License",
+        "Operating System :: OS Independent",
+    ],
+    install_requires=[
+        'biopython>=1.79',
+        'numpy>=1.23.1',          
+    ],
  )