Summary for experienced HPC user

1. To access TARA, ssh to [username]@tara.nstda.or.th, where [username] is your registered TARA username.

2. Each user is allocated with 50 GB home directory ($HOME).

3. The project directory(s) (/tarafs/data/project/[projxxxx]-[short-name]/) has 200 GB of space to be shared among all users in the project; where [projxxxx] is project id and [short-name] is its short name.

4. There is a scratch directory (/tarafs/scratch/[projxxxx]-[short-name]/) which is a fast read & write via read-intensive SSD. For temporary file only, files will  be removed after 30 days of last access.

5. Software are managed as modules using Environment module system (Lmod).

6. TARA usage is subjected to fairshare policy and managed by Slurm job scheduler. Examples of Slurm batch script for specific applications can be found at การติดตั้งและการงานใช้ Application.

TARA System Overview

An up-to-date overview of TARA system can be found at Resources – ThaiSC.

Workflow

This is a suggested workflow for users when using TARA

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1. Logging in to TARA

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5. The connection between SSH session and TARA is now established. You will see the welcome message. All commands executed in this session are run on TARA.

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2. Transferring file to TARA

Each user is allocated with 50 GB home directory ($HOME) and project directory(s) (/tarafs/data/project/proj[xxxx]-[short-name]/) of 200 GB to be shared among all users in the project.

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3. Click OK, then SFTP session will start. Now, you can drag and drop files to transfer files between TARA and your local machine.

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3. Checking Software availability

TARA has reasonable number of software installed. These software are managed by module framework using Environment module system (Lmod). (YouTube : https://youtu.be/NAkJv2uVQZA)

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4. Software/Application installation (if applicable)

If TARA does not have the software(s) you need installed, you can install them by yourself in either your home directory or your project directory. Please make sure that you have the software license and the license term allows to run the software on TARA.

We support EasyBuild (https://easybuild.io/), see การใช้งาน local module ใน TARA Cluster for the step by step instruction to install software as a local module. You can also check การติดตั้งและการงานใช้ Application for some specific software installation/setup instruction.

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5. Running Jobs

Check TARA HPC status

Before submitting your job to run on TARA, you can check available computational resources or status of partitions by using sinfo command.

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6. Checking job status

Check job status

To check your job status, using squeue -u [username] myqueue command.

Example :

[hpcuser@tara-frontend-1 ~]$ squeue -u hpcusermyqueue
             JOBID PARTITION     NAME     USER ST       TIME  NODES NODELIST(REASON)
            151602   compute    test3  hpcuser PD       0:00      1 (Priority)
            140215   compute    test2  hpcuser  R   03:25:08      1 tara-c-055
            149496   compute    test1  hpcuser  R 2-02:11:27      1 tara-c-042

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To cancel the job in the queue, using scancel [JOBID] command

Example : scancel 140215

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7. Transferring files to local machine

To transfer files from TARA to your local machine, you can use FTP client such as FileZilla, WinSCP, MobaXterm, etc.. In this document, we demonstrate this process using MobaXterm.

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2. Drag file/directory from TARA and drop at your local machine

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8. Checking resource usage and remaining quota

Service Unit

You can see the usage quantity and the remaining amount of the service unit (SU) by using sbalance. You can see SU usage by users by using -d flag (i.e. sbalance -d)

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9. Removing unnecessary files

You can free up your disk space by removing unnecessary files. You can remove file by using rm [file] command and remove directory by using rm -r [directory] command.

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ls -l is the command to list files or directories in the current location

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