v1.6.2

LICENSE

@@ -1,6 +1,6 @@
 MIT License
 
-Copyright (c) 2020 Ayaan Hossain
+Copyright (c) 2020-2021 Ayaan Hossain
 
 Permission is hereby granted, free of charge, to any person obtaining a copy
 of this software and associated documentation files (the "Software"), to deal

README.md

@@ -31,6 +31,7 @@ Non-repetitiveness is a global property of the entire genetic part toolbox, and
 
 `Non-Repetitive Parts Calculator` is a `Linux`/`MacOS`-tested software, and was originally built with `Python2.7`. The software is now `Python3` exclusive, and compatible only with `Python3.6` and above. `Python2.7` is no longer supported.
 
+
 **Setting up the Environment**
 
 The best way to install `NRP Calculator` is via `conda`. If you have either `anaconda` or `miniconda` installed on your system, you are good to proceed. Otherwise, you may first need to install [miniconda](https://docs.conda.io/en/latest/miniconda.html).
@@ -50,34 +51,15 @@ $ conda activate nrpenv
 
 > **Note** You don't necessarily need to make a new environment, as long as you know which environment you want `NRP Calculator` installed in, and have it activated during installation. For example, you might have a different project environment inside which you want to install `NRP Calculator`.
 
-**Installing External Dependencies**
-
-To use `NRP Calculator` in a new environment, we must first install `ViennaRNA`, which is an external dependency for the software and not available in [PyPI](https://pypi.org). `ViennaRNA` is easily installed with
-```bash
-$ conda install -c bioconda viennarna
-```
-
-If you are following the instructions as is, this will install the latest copy of `ViennaRNA` inside the new `nrpenv` environment.
-
-If you do not want to install `conda` on your system, you will need to install [ViennaRNA](https://www.tbi.univie.ac.at/RNA/ViennaRNA/doc/html/install.html), and its `Python` bindings manually.
-
-Once completed, you can verify your installation of `ViennaRNA` via:
-```python
-$ python
-Python 3.6.10 | packaged by conda-forge | (default, Apr 24 2020, 16:44:11)
-[GCC 7.3.0] on linux
-Type "help", "copyright", "credits" or "license" for more information.
->>> import RNA
->>> quit()
-```
 
 **Approach 1: Install from PyPI**
 
 Once `ViennaRNA` is installed, you can install `NRP Calculator` from PyPI, where it is published as the `nrpcalc` package. This is as easy as
 ```bash
 $ pip install --upgrade nrpcalc --no-cache-dir
 ```
-which will additionally install all remaining dependencies from PyPI.
+which will also install all dependencies from PyPI.
+
 
 **Approach 2: Install from GitHub**
 
@@ -112,7 +94,7 @@ Non-Repetitive Parts Calculator
 Automated design and discovery of non-repetitive genetic
 parts for engineering stable systems.
 
-Version: 1.6.0
+Version: 1.6.2
 
 Authors: Ayaan Hossain <auh57@psu.edu>
          Howard Salis  <salis@psu.edu>
@@ -158,7 +140,7 @@ If you encounter any problems during installation, please feel free to [open an
 
 `Non-Repetitive Parts Calculator` is an **open-source software** under [MIT](https://opensource.org/licenses/MIT) License.
 
-See [LICENSE](./LICENSE) file for more details.
+See [LICENSE](https://github.com/ayaanhossain/nrpcalc/blob/master/LICENSE) file for more details.
 
 ## Citation
 

nrpcalc/nrpcalc.py

@@ -3,7 +3,7 @@
 from .base import kmerSetDB
 
 
-__version__ = '1.6.0'
+__version__ = '1.6.2'
 
 __authors__ = '''
 Ayaan Hossain <auh57@psu.edu>

setup.py

@@ -15,7 +15,7 @@
     name='nrpcalc',
 
     # Link: https://www.python.org/dev/peps/pep-0440/#version-scheme
-    version='1.6.0',
+    version='1.6.2',
 
     description='Non-Repetitive Parts Calculator - Automated design and discovery of non-repetitive genetic parts for engineering stable genetic systems',
 
@@ -104,7 +104,8 @@
         'jupyter>=1.0.0',
         'scikit-learn>=0.23.1',
         'seaborn>=0.10.1',
-        'statsmodels>=0.11.0'],
+        'statsmodels>=0.11.0',
+        'ViennaRNA>=2.4.18a1'],
 
     project_urls={  # Optional
         'Bug Reports': 'https://github.com/ayaanhossain/nrpcalc/issues',