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Commit b1d5000e authored by Ben Anderson's avatar Ben Anderson
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updates iridis notes (anyone using iridis?)

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...@@ -6,10 +6,10 @@ HPC = [High Performance Computer](https://www.southampton.ac.uk/isolutions/staff ...@@ -6,10 +6,10 @@ HPC = [High Performance Computer](https://www.southampton.ac.uk/isolutions/staff
We have: We have:
* Iridis 4: https://hpc.soton.ac.uk/redmine/projects/iridis-4-support/wiki * _Iridis 4: https://hpc.soton.ac.uk/redmine/projects/iridis-4-support/wiki (**retiring February 2022**)_
* Iridis 5: https://hpc.soton.ac.uk/redmine/projects/iridis-5-support/wiki * Iridis 5: https://hpc.soton.ac.uk/redmine/projects/iridis-5-support/wiki
5 is newer, bigger & better etc etc but new projects start on 4 and, presumably when you prove you need 5, you can transfer. 5 is newer, bigger & better etc etc but new projects start on 4 (_before February 2022_) and, presumably when you prove you need 5, you can transfer.
## How to access ## How to access
Fill in the form on the [iridis page](https://www.southampton.ac.uk/isolutions/staff/iridis.page). Fill in the form on the [iridis page](https://www.southampton.ac.uk/isolutions/staff/iridis.page).
...@@ -18,30 +18,35 @@ Fill in the form on the [iridis page](https://www.southampton.ac.uk/isolutions/s ...@@ -18,30 +18,35 @@ Fill in the form on the [iridis page](https://www.southampton.ac.uk/isolutions/s
OK, so you are going to need to [get a bit friendly with unix](https://www.dummies.com/computers/operating-systems/unix/) because the Iridis service runs unix (linux). In general you will be interacting with it using a command line tool like terminal/console etc. Back to the good old days. OK, so you are going to need to [get a bit friendly with unix](https://www.dummies.com/computers/operating-systems/unix/) because the Iridis service runs unix (linux). In general you will be interacting with it using a command line tool like terminal/console etc. Back to the good old days.
You can, possibly, get iridis to [open an Xwindow on your PC](https://hpc.soton.ac.uk/redmine/projects/iridis-4-support/wiki/Connecting_to_Iridis_4#Using-GUI-programs-through-SSH-connection) but that requires fancy ssh tunneling and stuff. Assuming you want iridis 5 to start with you can login to any of:
Assuming you want iridis 4 to start with you can login to any of: * iridis5_a.soton.ac.uk
* iridis5_b.soton.ac.uk
* iridis4_a.soton.ac.uk * iridis5_c.soton.ac.uk
* iridis4_b.soton.ac.uk
* iridis4_c.soton.ac.uk
To do this: To do this:
* make sure you are running the UoS vpn * make sure you are running the UoS vpn
* open a terminal/console window on your desktop * open a terminal/console window on your desktop
* type `ssh YourUsername@iridis4_a.soton.ac.uk` (or which ever you want) & hit return. YourUsername = your UoS username obvs * type `ssh YourUsername@iridis5_a.soton.ac.uk` (or which ever you want) & hit return. YourUsername = your UoS username obvs
* type `yes` to the fingerprint question (DO NOT PANIC!). This should only happen the first time you do this * type `yes` to the fingerprint question (DO NOT PANIC!). This should only happen the first time you do this
* type your UoS password & hit return * type your UoS password & hit return
* you're in! * you're in!
## Now what? ## Now what?
R: https://hpc.soton.ac.uk/redmine/projects/iridis-4-support/wiki/R Read these first!
* https://hpc.soton.ac.uk/redmine/projects/iridis-5-support/wiki/New_User_Warnings <- **especially this one!**
* https://hpc.soton.ac.uk/redmine/projects/iridis-5-support/wiki/Getting_started
## R
https://hpc.soton.ac.uk/redmine/projects/iridis-5-support/wiki/R
After you've [loaded the R module](https://hpc.soton.ac.uk/redmine/projects/iridis-4-support/wiki/R), you can interactively run R scripts by running R. Or you can run them non-interactively using the `Rscript <yourScript.R>` command. But you probably shouldn't. After you've [loaded the R module](https://hpc.soton.ac.uk/redmine/projects/iridis-5-support/wiki/R), you can interactively run R scripts by running R. Or you can run them non-interactively using the `Rscript <yourScript.R>` command. But you probably shouldn't.
Instead you should submit your commands (e.g. `Rscript myScript.R`) to the Iridis scheduling system so it can balance everyone's needs. You need to [learn how to do this](https://hpc.soton.ac.uk/redmine/projects/iridis-4-support/wiki/Job_submission)... Instead you should submit your commands (e.g. `Rscript myScript.R`) to the Iridis scheduling system so it can balance everyone's needs. You need to [learn how to do this](https://hpc.soton.ac.uk/redmine/projects/iridis-5-support/wiki/Job_Submission)...
## How to get your code on Iridis ## How to get your code on Iridis
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