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Revision as of 14:36, 2 November 2016
You can run GUI Programs on HiPerGator, but running such applications on a remote server within a supercomputer and displaying them on your local client computer as if it were running there and making the interface sufficiently responsive is not as easy as simply running them locally. To accomplish this task we use Xpra software - an open-source multi-platform persistent remote display server and client for forwarding applications and desktop screens. Full information on Xpra can be found in its basic usage documentation and the Xpra manual. Below we show the parts of Xpra documentation relevant to its function of running GUI Programs on HiPerGator.
Install Xpra Software on the Client Computer
Since Xpra is required on both ends of the connection you will have to have it installed on your local computer. Xpra client installation depends on the operating system running on your local machine and may require assistance of a system administrator if you do not have the authority to install new software. Once Xpra is installed on your client computer feel free to skip this step. Installation instructions are specific to the operating system running on your local computer:
Start a GUI session on HiPerGator
Single command, no job script
There are two classes of applications that can be started with just one command from the gui environment module and do not require you to provide a job script.
- Preset applications
To list applications presets load the gui module and run launch_gui_session -l
module load gui launch_gui_session -l
To launch a pre-approved application:
- Load the gui module if not already loaded
module load gui
- Launch the application
launch_<application>_gui
For example:
launch_mzmine_gui
or
launch_rstudio_gui
See a full example on the RSTudio Help Page. For MATLAB options, please see the MATLAB Help Page.
- Simple applications
If you want to run a simple application in which either the environment module name matches the name of the program you want to run or you've already loaded the environment module and know the name of the executable then the process is about as simple as launching a preset application
Load the application environment module if its name is different from the executable name
module load <application>/<version>
Launch the executable in a GUI session
module load gui launch_gui_session -e <application>
For example
launch_gui_session -e molden
or
module load gaussian gui launch_gui_session gv
Provided Job Script
If you need to pass custom arguments to the application, load pre-requisite environment modules and so on you can provide a simple script (linux format text file) with the required commands as an argument to launch_gui_session.
Make sure to prepend the command that starts the program with xpra_start. For example, a following job script named my_molden.sh will use the molden/5.0 environment module and start molden with a particular model file:
module load molden/5.0 xpra_start 'molden /ufrc/data/tests/molden/boc-iso-1t.gjf'
Now, to launch molden with the above script run
launch_gui_session -e molden -f my_molden.sh
Manual launch
Of course, if you prefer to talk directly to SLURM you can write a full job script complete with resource requirements, job name, output file, etc in the #SBATCH section you can submit the script to SLURM manually.
Make sure you use the gui partition
#SBATCH --partition=gui
and wrap your command with xpra_start as shown above.
You can use a job script for one of the application presets found in the '$HPC_GUI_JOB' directory once the 'gui' environment module is loaded as the base of your own job script.
List GUI Sessions
If you performed a manual launch or used the '-w' argument to the automated launcher command you'll have to manually check on your gui job. Check the job status with 'squeue -u $USER'. When the job starts you have to list the available xpra sessions using xpra_list_sessions command in the gui module. This command will refresh the Xpra session list and provide a convenient list of live Xpra sessions as well as client commands that can be copied and pasted into a terminal on the client machine.
- Example
$ module load gui $ xpra_list_sessions
Output:
Refreshing Xpra session list for jdoe. This could take a while.....
List of active Xpra sessions for jdoe:
Session: i21a-s33.rc.ufl.edu:9626 for RStudio job 2852284
Client command:
xpra attach ssh:jdoe@i21a-s33.rc.ufl.edu:9626
See the respective application pages for details and sample job scripts.
Connect From a Client Computer
Click [expand] on the right side of a section to open a section specific to the operating system you are running on your local computer.
Connecting from outside of UF campus via VPN
The servers in SLURM gui partition are accessible only within the UF campus network. If you are working off campus, you will need to use the VPN to connect to the UF campus network using AnyConnect VPN or similar software. Please see: https://vpn.ufl.edu for additional information.
Connecting from Linux
Use the client command provided by 'xpra_list_sessions' to connect while adding any local options you need to improve the viewing experience like desktop scaling with --desktop-scaling=on or resolution, dpi (dots per inch) with --dpi=96
- Command
- $USERNAME is your UF GatorLink username, $SERVERNAME is the GUI server address, and $PORT is the X11 port.
xpra attach ssh:$USERNAME@$SERVERNAME:$PORT
Example: jdoe@local_computer:~$ xpra attach ssh:testuser@i21a-s33.rc.ufl.edu:12345 --desktop-scaling=on --dpi=96
- Note
- if you close the application window using the close button in the top right (or left) corner, this will exit your application and terminate your SLURM gui session. Use 'Ctrl+c' key combination in the terminal windows where you ran the xpra attach command to disconnect the session if you plan to reconnect later.
Connecting from MacOS X
Simply execute the xpra shell script you downloaded during client software installation. If not installed, change into the Xpra installation directory before running Xpra executable.
cd /Applications/Xpra.app/Contents/MacOS
Use the client command provided by 'xpra_list_sessions' to connect while adding any local options you need to improve the viewing experience like
- Desktop scaling
- --desktop-scaling=on
- Resolution, dpi (dots per inch)
- --dpi=96
Example:
./Xpra attach ssh:test-user@i21a-s3.rc.ufl.edu:143 --desktop-scaling=on --dpi=96
or with the wrapper script in place
xpra attach ssh:test-user@i21a-s3.rc.ufl.edu:143 --desktop-scaling=on --dpi=96
Once the GUI application windows is displayed on your local computer if you close the window using the close button both the application and SLURM gui session will close. If you want to simply detach the session and come back later click on the terminal window where you ran the client command and use the 'Ctrl+c' key combination to detach the session.
Connecting from Microsoft Windows
Note: this is done ON YOUR PERSONAL COMPUTER since you will be connecting from it to HiPerGator.
Navigate to the install location of xpra (normally C:\Program Files (x86)\Xpra\) .
- In MobaXterm
cd "/drives/c/Program\ Files\ \(x86\)/Xpra/"
Alternatively, call the xpra shell script you downloaded during client software installation.
- Example
./xpra attach ssh:test-user@i21a-s3.rc.ufl.edu:143 --desktop-scaling=on --dpi=96
or with the wrapper script in place
xpra attach ssh:test-user@i21a-s3.rc.ufl.edu:143 --desktop-scaling=on --dpi=96
Once the GUI application windows is displayed on your local computer if you close the window using the close button both the application and SLURM gui session will close. If you want to simply detach the session and come back later click on the terminal window where you ran the client command and use the 'Ctrl+c' key combination to detach the session.
Application Scaling
Xpra applications can encounter scaling issues for may reasons given the complexity of different connections. If your GUI application's fonts look small, large, or distorted, here are a couple of options that might be helpful.
Desktop Scaling
You can enable desktop scaling on your client by adding a parameter to your local client command. This command is "desktop-scaling=" and can be set to: on, off, auto, or a fixed value.
- Example
Start a MATLAB GUI session:
$launch_matlab_gui
From the output copy the client command to your local machine and add the desktop scaling parameter:
$xpra attach ssh:$USER@i21a-s3.rc.ufl.edu:11764 --desktop-scaling=on
DPI
In order to help with font scaling issues, you can pass this parameter to your local installation by adding the dpi= option to your connection command. This forces a particular DPI to be used if it is supported by both server and client.
- Example
Start a MATLAB GUI session for some high-dpi screens:
$launch_matlab_gui -r 100
From the output copy the client command to your local machine and add the desktop scaling parameter:
$xpra attach ssh:$USER@i21a-s3.rc.ufl.edu:11764 --dpi=100
It can also help to match the client and server dpi settings for some applications. The -r parameter in the launch_<application>_gui script allows you to set the dpi setting on the server side and then you can connect using the same dpi from the client.