====== ivar ======
iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.

===== Information =====

  * Version: 1.3.1
  * Added: January, 2021
  * Updated: September, 2021
  * Link: https://github.com/andersen-lab/ivar

===== Usage =====

See versions of ivar that are available:
<code>$ module avail ivar</code>

Load one version into your environment and run it:
<code>$ module load ivar/1.3.1
$ ivar</code>

===== Installation ======
Notes from the sysadmin during installation.

<code>$ cd /tmp
$ wget https://github.com/andersen-lab/ivar/archive/refs/tags/v1.3.1.tar.gz
$ tar xf v1.3.1.tar.gz 
$ cd ivar-1.3.1
# iVar needs GCC >= 5.0.0, CentOS 7 has 4.8.5
$ sudo yum install devtoolset-7-gcc devtoolset-7-gcc-c++
$ scl enable devtoolset-7 bash
$ ./autogen.sh
$ module load htslib/1.11
$ ./configure --with-hts=/export/apps/htslib/1.11 --prefix=/export/apps/ivar/1.3.1
$ make
$ sudo mkdir -p /export/apps/ivar/1.3.1
$ sudo chown aorth /export/apps/ivar/1.3.1
$ make install
$ sudo chown -R root:root /export/apps/ivar/1.3.1</code>