1. Remote access and file transfer Getting files on and off Bio-Linux

2. Overview Remote logins to Bio-Linux Getting data from remote machines Pushing data from Bio-Linux Networked file systems and file-sharing

3. Logging in remotely There is only 1 way to access a Bio-Linux machine remotely. Bio-Linux runs sshd, which supports Secure Shell connections. Secure Shell (SSH) is a safe version of something like “telnet”. How you access Bio-Linux remotely using SSH depends on what system you are logging in from.

4. SSH clients by platform Windows: We recommend PuTTY (http://www.chiark.greenend.org.uk/~sgtatham/putty/). It is a free, lightweight and capable SSH client.http://www.chiark.greenend.org.uk/~sgtatham/putty/ Mac Classic: MacSSH (http://pro.wanadoo.fr/chombier/)http://pro.wanadoo.fr/chombier/ Mac OSX: Built in ssh at the command line Linux/Unix: OpenSSH (http://http://openssh.org/) is the Open Source ssh suite. It is installed on Bio- Linux by default.http://http://openssh.org/

5. Working via SSH Configuring a graphical SSH client is very easy You will need a username The IP address and/or hostname of the machine Some clients make you specify the SSH port (22 by default) If you want to use graphical applications over the ssh “tunnel” you will need to enable “X11 forwarding”

8. Why use X11 forwarding? It means you can log in and run your favourite graphical Bio-Linux applications on your Windows/Mac/Unix desktop. But... I want a full Bio-Linux desktop to work with remotely! Simple: Just log in via SSH with X11 forwarding turned on and type the following command: gnome-session & You will get a full interactive Gnome desktop on your machine! It will be just like being on the Bio-Linux machine (but slightly slower!)

9. Command line SSH basics Logging into a machine using a non-graphical SSH client is easy: ssh username@your.bio.linux.machi.neusername@your.bio.linux.machi.ne To make sure X forwading is turned on with OpenSSH ssh -x username@your.bio.linux.machi.ne

10. Getting data from remote machines Most likely you are familiar with FTP. Most people are familiar with graphical FTP clients. Bio-Linux has a command line FTP client. At a terminal just type: ftp You will be prompted for a username and password.

11. FTP basics ls bin ascii get mget put mput

12. sFTP If the server supports it you should use sftp instead of FTP. sFTP = secure FTP sftp @ The rest of the commands are just like FTP Relies on sshd.

13. SCP scp is the hard way of doing sftp ;) scp @ : Can take wildcards. Great for shunting single files around between Linux machines. Relies on sshd.

14. WinSCP For getting files from Windows to Bio-Linux there is a great (free!) program called WinSCP It looks just like a regular windows file manager. You can “drag and drop” files to and from your Bio-Linux machine. Handles SCP and SFTP transparently http://winscp.sourceforge.net/eng/

16. Using networked resources You may have shared drives at your place of work. These may be NOVELL shares – A novell client is available for Linux so you can access these. smbclient : allows you to access Windows Shares NFS : Bio-Linux can be easily set up to receive NFS exports. Ask us for advice on all of these!