Entering edit mode
7.5 years ago
David_emir
▴
470
Hi,
I am trying to update BWA in centos but not able to do so,
Program: bwa (alignment via Burrows-Wheeler transformation) Version: 0.5.0 (r1200)
i have tried downloading and setting up the path for bwa-0.7.15 but failed to upgrade it.
The path i have set
#!/bin/bash
BWA_HOME=/home/Exome_seq/bwa-0.7.15
PATH=$BWA_HOME:$PATH
export PATH
Please let me know how to upgrade BWA in my system to the latest version.
Thanks, Ateeq
What happens if you type /home/Exome_seq/bwa-0.7.15/bwa directly? What does
which bwa
give? This is more of a linux configuration problem. In linux you don't need to install a binary to run it. The above code should be put in your.profile
(best option) ,.bash_profile
or.bashrc
in your home. Then log off and on or do a$ . .profile
. This is all in case you need the freshest builds, otherwise have the sysadmin use the package system.Which version of CentOS are you using ? At least for CentOS 7, bwa-0.7.12 is available in the epel repository so you can install it with yum (CentOS 6 has bwa-0.7.5)