sra-tools

NCBI SRA (Sequence Read Archive) tools.

• Version: 3.0.0
• Added: March, 2022
• Link: https://github.com/ncbi/sra-tools

See versions which are available:

$ module avail sra-tools

Load one version into your environment and run it:

$ module load sra-tools/3.0.0
$ sratools
$ fastconv

Notes from the sysadmin during installation:

$ cd /tmp
$ git clone https://github.com/ncbi/sra-tools.git -b 3.0.0
$ cd sra-tools
$ sudo yum install cmake3
$ scl enable devtoolset-7 bash
$ ./configure --prefix=/export/apps/sra-tools/3.0.0 --with-ncbi-vdb-prefix=/export/apps/ncbi-vdb/3.0.0 --build-prefix=/tmp/foo
$ vim build/Makefile.env # change cmake to cmake3
$ make -j4
$ sudo mkdir -p /export/apps/sra-tools/3.0.0
$ sudo chown aorth /export/apps/sra-tools/3.0.0
$ make install
$ sudo chown -R root:root /export/apps/sra-tools/3.0.0

Requires ncbi-vdb also (compiled separately into /export/apps).