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@@ -5,18 +5,18 @@ [![PyPI](https://img.shields.io/pypi/dm/pyabpoa.svg?label=pip%20install)](https://pypi.python.org/pypi/pyabpoa) [![Published in Bioinformatics](https://img.shields.io/badge/Published%20in-Bioinformatics-blue.svg)](https://dx.doi.org/10.1093/bioinformatics/btaa963) [![GitHub Issues](https://img.shields.io/github/issues/yangao07/abPOA.svg?label=Issues)](https://github.com/yangao07/abPOA/issues) -[![Build Status](https://img.shields.io/travis/yangao07/abPOA/master.svg?label=Master)](https://travis-ci.org/yangao07/abPOA) -[![License](https://img.shields.io/badge/License-MIT-black.svg)](https://github.com/yangao07/abPOA/blob/master/LICENSE) +[![Build Status](https://img.shields.io/travis/yangao07/abPOA/main.svg?label=Main)](https://travis-ci.org/yangao07/abPOA) +[![License](https://img.shields.io/badge/License-MIT-black.svg)](https://github.com/yangao07/abPOA/blob/main/LICENSE) <!-- [![PyPI](https://img.shields.io/pypi/v/pyabpoa.svg?style=flat)](https://pypi.python.org/pypi/pyabpoa) --> -## Updates (v1.5.0) +## Updates (v1.5.1) -- Fix memory allocation bug for local alignment mode +- Fix a memory allocation bug caused by int overflow when memery is large (>4G) ## Getting started Download the [latest release](https://github.com/yangao07/abPOA/releases): ``` -wget https://github.com/yangao07/abPOA/releases/download/v1.5.0/abPOA-v1.5.0.tar.gz -tar -zxvf abPOA-v1.5.0.tar.gz && cd abPOA-v1.5.0 +wget https://github.com/yangao07/abPOA/releases/download/v1.5.1/abPOA-v1.5.1.tar.gz +tar -zxvf abPOA-v1.5.1.tar.gz && cd abPOA-v1.5.1 ``` Make from source and run with test data: ``` @@ -34,7 +34,7 @@ abpoa ./test_data/seq.fa > cons.fa ## Table of Contents - [abPOA: adaptive banded Partial Order Alignment](#abpoa-adaptive-banded-partial-order-alignment) - - [Updates (v1.5.0)](#updates-v150) + - [Updates (v1.5.1)](#updates-v151) - [Getting started](#getting-started) - [Table of Contents](#table-of-contents) - [Introduction](#introduction) @@ -92,9 +92,9 @@ You can also build abPOA from source files. Make sure you have gcc (>=6.4.0) and zlib installed before compiling. It is recommended to download the [latest release](https://github.com/yangao07/abPOA/releases). ``` -wget https://github.com/yangao07/abPOA/releases/download/v1.5.0/abPOA-v1.5.0.tar.gz -tar -zxvf abPOA-v1.5.0.tar.gz -cd abPOA-v1.5.0; make +wget https://github.com/yangao07/abPOA/releases/download/v1.5.1/abPOA-v1.5.1.tar.gz +tar -zxvf abPOA-v1.5.1.tar.gz +cd abPOA-v1.5.1; make ``` Or, you can use `git clone` command to download the source code. This gives you the latest version of abPOA, which might be still under development. @@ -106,13 +106,13 @@ cd abPOA; make ### <a name="binary"></a>Pre-built binary executable file for Linux/Unix or MacOS If you meet any compiling issue, please try the pre-built binary file for linux: ``` -wget https://github.com/yangao07/abPOA/releases/download/v1.5.0/abPOA-v1.5.0_x64-linux.tar.gz -tar -zxvf abPOA-v1.5.0_x64-linux.tar.gz +wget https://github.com/yangao07/abPOA/releases/download/v1.5.1/abPOA-v1.5.1_x64-linux.tar.gz +tar -zxvf abPOA-v1.5.1_x64-linux.tar.gz ``` or for macos: ``` -wget https://github.com/yangao07/abPOA/releases/download/v1.5.0/abPOA-v1.5.0_arm64-macos.tar.gz -tar -zxvf abPOA-v1.5.0_arm64-macos.tar.gz +wget https://github.com/yangao07/abPOA/releases/download/v1.5.1/abPOA-v1.5.1_arm64-macos.tar.gz +tar -zxvf abPOA-v1.5.1_arm64-macos.tar.gz ``` ## <a name="usage"></a>General usage |