RLS Version 1.2.0

Big change is adding a new chicken caecum prebuilt model (courtesy of
Florian Plaza Oñate), but also better outputs.

Full ChangeLog

- Pretrained model from chicken caecum
- Output table with basic information on bins (including N50 & L50)
- When reclustering is used (default), output the unreclusted bins into a directory called `output_prerecluster_bins`
- Added `--verbose` flag and silented some of the output when it is not used
- Use coloredlogs (if package is available)

ChangeLog

@@ -1,10 +1,10 @@
-Unreleased
+Version 1.2.0 Oct 19 2022 by BigDataBiology
 	* Pretrained model from chicken caecum
 	* Output table with basic information on bins (including N50 & L50)
 	* When reclustering is used (default), output the unreclusted bins into a
 	directory called `output_prerecluster_bins`
-	* Used coloredlogs (if package is available)
 	* Added --verbose flag and silented some of the output when it is not used
+	* Use coloredlogs (if package is available)
 
 Version 1.1.1 Sep 27 2022 by BigDataBiology
 	* Completely remove use of atomicwrites package

README.md

@@ -22,7 +22,7 @@ If you use this software in a publication please cite:
 
 ## Basic usage of SemiBin
 
-A tutorial of running SemiBin from scrath can be found here [SemiBin tutorial](https://github.com/psj1997/SemiBin_tutorial_from_scratch).
+A tutorial of running SemiBin from scrath can be found here [SemiBin tutorial](https://github.com/BigDataBiology/SemiBin_tutorial_from_scratch).
 
 Installation:
 
@@ -144,7 +144,7 @@ The following environments are supported:
 - `pig_gut`
 - `built_environment`
 - `wastewater`
-- `chicken_caecum` (In the benchmark this pretrained model outperforms other models in the chicken caecum dataset. Thanks for [Florian Plaza Oñate](https://scholar.google.com/citations?hl=zh-CN&user=-gE5y_4AAAAJ&view_op=list_works&sortby=pubdate)'s work.)
+- `chicken_caecum` (Contributed by [Florian Plaza Oñate](https://scholar.google.com/citations?hl=zh-CN&user=-gE5y_4AAAAJ&view_op=list_works&sortby=pubdate))
 - `global`
 
 The `global` environment can be used if none of the others is appropriate.

SemiBin/semibin_version.py

@@ -1 +1 @@
-__version__ = '1.1.1'
+__version__ = '1.2.0'

docs/whatsnew.md

@@ -1,5 +1,17 @@
 # What's New
 
+## Version 1.2.0
+
+*Released October 19 2022*
+
+### User visible improvements
+
+- Pretrained model from chicken caecum (contributed by [Florian Plaza Oñate](https://scholar.google.com/citations?hl=zh-CN&user=-gE5y_4AAAAJ&view_op=list_works&sortby=pubdate))
+- Output table with basic information on bins (including N50 & L50)
+- When reclustering is used (default), output the unreclusted bins into a directory called `output_prerecluster_bins`
+- Added `--verbose` flag and silented some of the output when it is not used
+- Use coloredlogs (if package is available)
+
 ## Version 1.1.1
 
 *Released September 27 2022*