Merge pull request #15 from alexismhill3/release-030

Prep for release 0.3.0

NEWS.md

@@ -0,0 +1,21 @@
+# Changelog
+
+## Pinetree 0.3.0
+
+- Support for site-specific RNase binding constants.
+- Overlapping genes and genes that overlap with ribosome binding sites are now fully supported.
+- Bug fixes. 
+
+## Pinetree 0.2.0
+
+- It is now possible to simulate transcript degradation from internal and external cleavage sites.
+- Fixed transcript abundances for simulating translation without transcription.
+- Minor bug fixes and more informative error messages.
+
+## Pinetree 0.1.4
+
+- More informative error message message when installation fails because cmake is not installed.
+
+## Pinetree 0.1.0
+
+First initial release.

setup.py

@@ -14,7 +14,7 @@
 from shutil import copyfile, copymode
 
 PROJECT_NAME = "pinetree"
-VERSION = "0.2.0"
+VERSION = "0.3.0"
 
 class CMakeExtension(Extension):
     def __init__(self, name, sourcedir=''):

src/pinetree/python_bindings.cpp

@@ -407,8 +407,11 @@ PYBIND11_MODULE(core, m) {
 
             .. note::
                
-               At this time, overlapping genes or genes that overlap with 
-               ribosome binding sites are not supported.
+               Overlapping genes, or genes that overlap with 
+               ribosome binding sites, are supported as of release
+               0.3.0. If using an ealier version, specifing overlapping
+               genes is not recommended, and could cause the program
+               to crash.
 
             Args:
                 name (str): Name of gene. Name may be referenced by