Another useful tool for scanning files on a linux based file sharing/websites systems is chkrootkit. This is a simple root kit scanner.
Once the package is installed simmply run:
#chkrootkit ROOTDIR is `/' Checking `amd'... not found Checking `basename'... not infected Checking `biff'... not found Checking `chfn'... not infected Checking `chsh'... not infected Checking `cron'... not infected . . . . . Searching for 64-bit Linux Rootkit ... nothing found Searching for 64-bit Linux Rootkit modules... nothing found Searching for suspect PHP files... nothing found Searching for anomalies in shell history files... nothing found Checking `asp'... not infected Checking `bindshell'... not infected Checking `lkm'... chkproc: nothing detected Checking `rexedcs'... not found Checking `w55808'... not infected Checking `wted'... chkwtmp: nothing deleted Checking `scalper'... not infected Checking `slapper'... not infected Checking `z2'... chklastlog: nothing deleted Checking `chkutmp'... The tty of the following user process(es) were not found in /var/run/utmp ! ! RUID PID TTY CMD ! root 13979 pts/0 -bash ! root 13990 pts/2 -bash ! root 15095 pts/2 /bin/sh /usr/sbin/chkrootkit ! root 15745 pts/2 ./chkutmp ! root 15747 pts/2 ps axk tty,ruser,args -o tty,pid,ruser,args ! root 15746 pts/2 sh -c ps axk "tty,ruser,args" -o "tty,pid,ruser,args" chkutmp: nothing deleted Checking `OSX_RSPLUG'... not infected