[Question] Lots of path variables missing when using SSHClient login remote

[Roy-Kid]

Hi, I have a question that. When I use SSHClient to connect to remote HPC, I find a lot of commands can not be found, such as 'qstat', module load. I inspect the $PATH and find some PATH variables which the administrator installs are missing. But those I write in .bashrc stay. I wonder why and how to solve this problem.

Sorry for asking this silly question and hope you can help me. Thanks!

[pkittenis]

Hi,

That's to do with how bash behaves in remote execute mode (what happens when run_command is called). In this case only .bashrc is read and not .bash_profile. Presumably some paths are set only in .bash_profile and so do not get set on run_command.

Either use an interactive shell which uses a login shell which does read .bash_profile, or set paths in bashrc or any other method.

See bash details here.

See also man bash and man ssh.

[Roy-Kid]

Thanks for your help and sorry for replying late. Your attached link is so important to help me understand this question. I will rewrite my code this weekend. I want to start a session with login shell mode.