Installing SAMtools

Procedure

1. Use PuTTY to log in to the server as the root user.
2. Run the following command to install dependencies:

   yum install -y ncurses ncurses-base ncurses-libs ncurses-devel

3. Use the SFTP tool to upload the SAMtools installation package to the /path/to/AUGUSTUS directory.
4. Run the following command to decompress the package:

   cd /path/to/AUGUSTUS && tar -zxf samtools-1.11.tar.gz

5. Run the following command to rename and go to the installation directory:

   mv samtools-1.11 samtools && cd samtools

6. Run the following commands to perform configuration:

   autoheader

   autoconf

   sed -i 's/\-O2/\-O3 -march=armv8.2-a -mtune=tsv110/g' `grep -lr "\-O2" ./`

   CC=`which gcc` ./configure --prefix=/path/to/AUGUSTUS/samtools

7. Run the following commands to perform compilation and installation:

   make -j 16

   make install