Update slides

index.qmd

@@ -60,7 +60,7 @@ my-custom-stuff:
   * Fast data storage
   * Standardised software installation
 
-## Why
+## Why?
 * Run jobs too large for desktop workstations
 * Run many jobs at once
 * Efficiency (cheaper to have central machines running 24/7)
@@ -83,11 +83,9 @@ my-custom-stuff:
 * 83 GPUs
 * ~20TB RAM
 
-## SWC HPC nodes
-
 ## Logging in
 
-Log into bastion node (not necessary within SWC)
+Log into bastion node (not necessary within SWC network)
 ```bash
 ssh <USERNAME>@ssh.swc.ucl.ac.uk
 ```
@@ -96,19 +94,22 @@ ssh <USERNAME>@ssh.swc.ucl.ac.uk
 
 Log into HPC gateway node
 ```bash
-ssh <USERNAME>@hpc-gw1.hpc.swc.ucl.ac.uk
+ssh <USERNAME>@hpc-gw1
 ```
+
 . . .
+
 This node is fine for light work, but no intensive analyses
 
 ## File systems  {.smaller}
 
-* `/nfs/nhome` or `/nfs/ghome` - "home drive" (SWC/GCNU)
-* `/nfs/winstor/<group>` - "Old" research data storage (read-only soon)
+* `/nfs/nhome/live/<USERNAME>` or `/nfs/ghome/live/<USERNAME>` 
+  * "Home drive" (SWC/GCNU), also at `~/`
+* `/nfs/winstor/<group>` - Old SWC research data storage (read-only soon)
 * `/nfs/gatsbystor` - GCNU data storage
-* `/ceph<group>` - Current research data storage
+* `/ceph/<group>` - Current research data storage
 * `/ceph/scratch` - Not backed up, for short-term storage
-* `ceph/apps` - HPC applications
+* `/ceph/apps` - HPC applications
 
 . . .
 
@@ -190,7 +191,7 @@ module list
 
 
 ## SLURM
-* Simple Linux Utility for Resource Managemen
+* Simple Linux Utility for Resource Management
 * Job scheduler
 * Allocates jobs to nodes
 * Queues jobs if nodes are busy
@@ -248,6 +249,7 @@ Start an interactive job (`bash -i`) in the cpu partition (`-p cpu`) in pseudote
 ```bash
 srun -p cpu --pty bash -i
 ```
+. . .
 
 Always start a job (interactive or batch) before doing anything intensive to spare the gateway node.
 
@@ -258,10 +260,15 @@ Clone a test script
 cd ~/
 git clone https://github.com/neuroinformatics-unit/slurm-demo
 ```
+
+. . .
+
 Check out list of available modules
 ```bash
 module avail
 ```
+. . .
+
 Load the miniconda module
 ```bash
 module load miniconda
@@ -272,13 +279,14 @@ module load miniconda
 
 Create conda environment
 ```bash
+cd slurm-demo
 conda env create -f env.yml
 ```
 
 Activate conda environment and run Python script
 ```bash
 conda activate slurm_demo
-python python multiply.py 5 10 --jazzy
+python multiply.py 5 10 --jazzy
 ```
 Stop interactive job
 ```bash