Directories

Users

This section gives a summary of the file system.

Go to CSD3 portal: https://selfservice.uis.cam.ac.uk/account/ and accept the terms and conditions. An rds/ directory should then be created with symbolic links as follows,

hpc-work -> /rds/user/$USER/hpc-work/
genetics_resources -> /rds/project/jmmh2/rds-jmmh2-genetics_resources/
legacy_projects -> /rds/project/jmmh2/rds-jmmh2-legacy_projects/
post_qc_data -> /rds/project/jmmh2/rds-jmmh2-post_qc_data/
pre_qc_data -> /rds/project/jmmh2/rds-jmmh2-pre_qc_data/
projects -> /rds/project/jmmh2/rds-jmmh2-projects/
public_databases -> /rds/project/jmmh2/rds-jmmh2-public_databases/
results -> /rds/project/jmmh2/rds-jmmh2-results
software -> /rds/project/jmmh2/rds-jmmh2-public_databases/software/

Short shorter (without rds-jmmh2- prefix) names as on Cardio can be created equivalently with

if [ ! -d /home/$USER/rds ]; then mkdir /home/$USER/rds; fi
ln -sf /rds/user/$USER/hpc-work /home/$USER/rds/hpc-work
export rt=/rds/project/jmmh2
for d in $(ls $rt | xargs -l basename | sed 's/rds-jmmh2-//g'); do ln -sf $rt/rds-jmmh2-$d /home/$USER/rds/$d; done

Note to list the directories you need postfix them with ‘/'.

On 7/5/2024, the symbolic links to the new location of data storage are as follows,

rds-jmmh2-genetics_resources -> /rds/project/rds-5WRcpwFaaWc/
rds-jmmh2-hes_data -> /rds/project/rds-fsbcZmj92Ko/
rds-jmmh2-legacy_projects -> /rds/project/rds-iH9xqwiahLo/
rds-jmmh2-post_qc_data -> /rds/project/rds-pNR2rM6BWWA/
rds-jmmh2-pre_qc_data -> /rds/project/rds-MkfvQMuSUxk/
rds-jmmh2-projects -> /rds/project/rds-zuZwCZMsS0w/
rds-jmmh2-public_databases -> /rds/project/rds-4o5vpvAowP0/
rds-jmmh2-results -> /rds/project/rds-C1Ph08tkaOA/

See "W:\Administration\CSD3 Data Users\Information for Users".

Data managers

Self-service storage, https://selfservice.uis.cam.ac.uk/storage/project/303/.

In the case of Hospital Episode Statistics (HES) data, add users from https://selfservice.uis.cam.ac.uk/storage/project/306/.

See also

Cluster monitoring

See "V:\Operations\GENERAL_CEU\CSD3\monitoring CSD3 usage".

Access