v3.0.0a7 release

ChangeLog

@@ -1,5 +1,5 @@
-2021-02-07  Tao Liu  <[email protected]>
-	MACS 3.0.0a6
+2022-02-18  Tao Liu  <[email protected]>
+	MACS 3.0.0a7
 
 	* New features:
 
@@ -27,6 +27,16 @@
 	a submodule in order to support fermi-lite library under non-x64 
 	architectures.
 
+	8) BAI index and random access to BAM file now is supported. #449
+	And user can use original BAM file (instead of the subset of BAM
+	file as in SAPPER) in the `callvar` command. 
+
+	9) Support of Python > 3.10 #497 #498
+
+	* Other fixes:
+
+	1) Missing header line while no peaks can be called #501 #502
+
 2020-04-11  Tao Liu  <[email protected]>
 	MACS version 2.2.7.1
 

README.md

@@ -34,36 +34,46 @@ make sure that the main branch passes unit testing on certain
 functions and subcommands to reproduce the correct outputs. We will
 add more new features in the future.**
 
-## Recent Changes for MACS (3.0.0a6)
+## Recent Changes for MACS (3.0.0a7)
+
+### 3.0.0a7
+
+	* New features:
 
-### 3.0.0a6
-	* New features
-
 	1) Speed/memory optimization.  Use the cykhash to replace python
-    dictionary. Use buffer (10MB) to read and parse input file (not
-    available for BAM file parser). And many optimization tweaks.
+	dictionary. Use buffer (10MB) to read and parse input file (not
+	available for BAM file parser). And many optimization tweaks.
 
 	2) Code cleanup. Reorganize source codes.
 
 	3) Unit testing.
 
-	4) R wrappers for MACS -- MACSr matching the current version of
-    MACS
+	4) R wrappers for MACS -- MACSr
 
-    5) Switch to Github Action for CI, support multi-arch testing
-    including x64, armv7, aarch64, s390x and ppc64le.
+	5) Switch to Github Action for CI, support multi-arch testing
+	including x64, armv7, aarch64, s390x and ppc64le.
 
-    6) MACS tag-shifting model has been refined. Now it will use a
-    naive peak calling approach to find ALL possible paired peaks at +
-    and - strand, then use all of them to calculate the
-    cross-correlation. (a related bug has been fix #442)
+	6) MACS tag-shifting model has been refined. Now it will use a
+	naive peak calling approach to find ALL possible paired peaks at +
+	and - strand, then use all of them to calculate the
+	cross-correlation. (a related bug has been fix #442)
 
-    7) Call variants in peak regions directly from BAM files. The
-	function was originally developed under code name SAPPER. Now
-	SAPPER has been merged into MACS. Also, `simde` has been added as
-	a submodule in order to support fermi-lite library under non-x64
+	7) Call variants in peak regions directly from BAM files. The 
+	function was originally developed under code name SAPPER. Now 
+	SAPPER has been merged into MACS. Also, `simde` has been added as 
+	a submodule in order to support fermi-lite library under non-x64 
 	architectures.
 
+	8) BAI index and random access to BAM file now is supported. #449
+	And user can use original BAM file (instead of the subset of BAM
+	file as in SAPPER) in the `callvar` command. 
+
+	9) Support of Python > 3.10 #497 #498
+
+	* Other fixes:
+
+    1) Missing header line while no peaks can be called #501 #502
+
 ## Install
 
 The common way to install MACS is through