10-16-2018
Perhaps I misread your first post. Did you actually edit your .bashrc to add the path to gatk-4.0.10.1, or just change it on the command line?
(second, probably silly question - are you using bash?).
/root/bin was most likely added to PATH from some default bashrc in /etc, or in .bash_profile in root's home directory.
This User Gave Thanks to Scott For This Post:
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LEARN ABOUT DEBIAN
svscanboot
svscanboot(8) System Manager's Manual svscanboot(8)
NAME
svscanboot - starts svscan(8) in the /service directory, with output and error messages logged through readproctitle(8).
svscanboot is available in daemontools 0.75 and above.
SYNOPSIS
svscanboot
DESCRIPTION
svscanboot runs the pipeline
svscan /service 2>&1 | readproctitle service errors: .....
with 400 dots. The last 400 bytes of error messages from svscan(8) will be visible to ps(1) through readproctitle(8).
svscanboot sets $PATH to
/command:/usr/local/bin:/usr/local/sbin:
/bin:/sbin:/usr/bin:/usr/sbin:/usr/X11R6/bin
(all in one line, no space)
and clears all other environment variables. Program writers are encouraged to use globally allocated names in /command.
SEE ALSO
supervise(8), svc(8), svok(8), svstat(8), svscan(8), readproctitle(8), fghack(8), pgrphack(8), multilog(8), tai64n(8), tai64nlocal(8),
setuidgid(8), envuidgid(8), envdir(8), softlimit(8), setlock(8), ps(1)
http://cr.yp.to/daemontools.html
http://cr.yp.to/slashcommand.html
svscanboot(8)