Added necessary changes to keep up with TBB

medvedevgroup · Sep 29, 2022 · 2a902ee · 2a902ee
1 parent 602b82c
commit 2a902ee
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Showing 8 changed files with 13 additions and 8 deletions.
diff --git a/CMakeLists.txt b/CMakeLists.txt
@@ -1,5 +1,5 @@
 cmake_minimum_required(VERSION 3.0)
-project(SibeliaZ VERSION 1.2.4)
+project(SibeliaZ VERSION 1.2.5)
 set(CMAKE_POLICY_DEFAULT_CMP0048 NEW)
 
 include(ExternalProject)

diff --git a/NEWS.md b/NEWS.md
@@ -1,3 +1,9 @@
+SibeliaZ 1.2.5
+==============
+* Necessary updates to keep up with changes in TBB
+* Updated the readme: added more detailed clarification for the
+parameter -a (vertex frequency threshold)
+
 SibeliaZ 1.2.4
 ==============
 * Made GFF output compliant with the [GFF3 specification](https://github.com/The-Sequence-Ontology/Specifications/blob/master/gff3.md)

diff --git a/README.md b/README.md
@@ -1,9 +1,9 @@
 [![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/sibeliaz/README.html)
 
-SibeliaZ 1.2.4
+SibeliaZ 1.2.5
 ===============
 
-Release date: 6th September 2021
+Release date: 29th September 2022
 ================================
 
 Authors

diff --git a/SibeliaZ-LCB/CMakeLists.txt b/SibeliaZ-LCB/CMakeLists.txt
@@ -1,5 +1,4 @@
 project(SibeliaZ-LCB CXX)
-cmake_minimum_required(VERSION 2.8)
 set(CMAKE_BUILD_TYPE RELEASE)
 set(CMAKE_PROJECT_NAME sibeliaz)
 

diff --git a/SibeliaZ-LCB/blocksfinder.cpp b/SibeliaZ-LCB/blocksfinder.cpp
@@ -27,7 +27,7 @@ namespace Sibelia
 	}
 
 	JunctionStorage * JunctionStorage::this_;
-	extern const std::string VERSION = "1.2.4";
+	extern const std::string VERSION = "1.2.5";
 
 	bool compareById(const BlockInstance & a, const BlockInstance & b)
 	{

diff --git a/SibeliaZ-LCB/sibeliaz b/SibeliaZ-LCB/sibeliaz
@@ -120,7 +120,7 @@ global_alignment()
 {
 	echo "Performing global alignment.."
         echo "##maf version=1" > "$outfile"
-	echo "# sibeliaz v1.2.4 " >> "$outfile"
+	echo "# sibeliaz v1.2.5 " >> "$outfile"
 	echo "# cmd=$1" >> "$outfile"
 
 	memory_min=`free -k -w | head -2 | tail -1 | awk '{print $2}'`

diff --git a/TwoPaCo b/TwoPaCo
diff --git a/examples/sibeliaz_out/alignment.maf b/examples/sibeliaz_out/alignment.maf
@@ -1,5 +1,5 @@
 ##maf version=1
-# sibeliaz v1.2.4 
+# sibeliaz v1.2.5 
 # cmd=genome1.fa genome2.fa
 
 a