prepare for release 2.3.9 (#483)

* prepare for release 2.3.9

* Update ChangeLog

Co-authored-by: Lauren Coombe <[email protected]>

---------

Co-authored-by: Lauren Coombe <[email protected]>

Author: jwcodee

ChangeLog

@@ -1,3 +1,10 @@
+2024-09-11 Johnathan Wong <[email protected]>
+
+  * Release version 2.3.9
+
+      General:
+                * Deallocate memory used by alignment data structure in dialign
+
 2024-07-18 Lauren Coombe <[email protected]>
 
   * Release version 2.3.8

Misc/samtobreak.hs

@@ -279,7 +279,7 @@ parseArgs = do
   where
   help = putStr (usageInfo usage options) >> exitSuccess
   tryHelp = "Try 'abyss-samtobreak --help' for more information."
-  version = "abyss-samtobreak (ABySS) 2.3.8\n"
+  version = "abyss-samtobreak (ABySS) 2.3.9\n"
   usage = "Usage: samtobreak [OPTION]... [FILE]...\n\
 \Calculate contig and scaffold contiguity and correctness metrics.\n"
 

README.md

@@ -1,5 +1,5 @@
 [![Release](https://img.shields.io/github/release/bcgsc/abyss.svg)](https://github.com/bcgsc/abyss/releases)
-[![Downloads](https://img.shields.io/github/downloads/bcgsc/abyss/total?logo=github)](https://github.com/bcgsc/abyss/releases/download/2.3.8/abyss-2.3.8.tar.gz)
+[![Downloads](https://img.shields.io/github/downloads/bcgsc/abyss/total?logo=github)](https://github.com/bcgsc/abyss/releases/download/2.3.9/abyss-2.3.9.tar.gz)
 [![Conda](https://img.shields.io/conda/dn/bioconda/abyss?label=Conda)](https://anaconda.org/bioconda/abyss)
 [![Issues](https://img.shields.io/github/issues/bcgsc/abyss.svg)](https://github.com/bcgsc/abyss/issues)
 

bin/abyss-pe

@@ -414,7 +414,7 @@ help:
 	@echo 'Report bugs to https://github.com/bcgsc/abyss/issues or [email protected].'
 
 version:
-	@echo "abyss-pe (ABySS) 2.3.8"
+	@echo "abyss-pe (ABySS) 2.3.9"
 	@echo "Written by Shaun Jackman and Anthony Raymond."
 	@echo
 	@echo "Copyright 2012 Canada's Michael Smith Genome Science Centre"

configure.ac

@@ -1,5 +1,5 @@
 AC_PREREQ(2.62)
-AC_INIT(ABySS, 2.3.8, [email protected], abyss,
+AC_INIT(ABySS, 2.3.9, [email protected], abyss,
 		http://www.bcgsc.ca/platform/bioinfo/software/abyss)
 
 AC_CONFIG_MACRO_DIR([m4])

doc/ABYSS.1

@@ -1,4 +1,4 @@
-.TH ABYSS "1" "2015-May" "ABYSS (ABySS) 2.3.8" "User Commands"
+.TH ABYSS "1" "2015-May" "ABYSS (ABySS) 2.3.9" "User Commands"
 .SH NAME
 ABYSS \- assemble short reads into contigs
 .SH SYNOPSIS

doc/abyss-pe.1

@@ -1,4 +1,4 @@
-.TH abyss-pe "1" "2015-May" "abyss-pe (ABySS) 2.3.8" "User Commands"
+.TH abyss-pe "1" "2015-May" "abyss-pe (ABySS) 2.3.9" "User Commands"
 .SH NAME
 abyss-pe - assemble reads into contigs
 .SH SYNOPSIS

doc/abyss-tofastq.1

@@ -1,4 +1,4 @@
-.TH abyss-tofastq "1" "2015-May" "ABySS 2.3.8" "User Commands"
+.TH abyss-tofastq "1" "2015-May" "ABySS 2.3.9" "User Commands"
 .SH NAME
 abyss-tofastq \- convert various file formats to FASTQ format
 .br