Attention

**ShARC will be decommissioned on the 30th of November 2023, after which time users will no longer be able to access that cluster and any jobs running or
queueing at that time will be cancelled.**

Please see our page of important info about ShARC’s decommissioning.

# Mathematica

Mathematica is a technical computing environment and programming language with strong symbolic and numerical abilities.

## Single Core Interactive Usage

After connecting to Bessemer (see Establishing a SSH connection), start an interactive session with `srun --pty bash -i`

.

Mathematica can be loaded with

```
module load MATHEMATICA/12.0.0/binary
```

Mathematica can then be started with the `mathematica`

command

```
mathematica
```

## Multicore Interactive Usage

Mathematica has extensive parallel functionality. To use it, you should request a parallel interactive session. For example, to request 2 cores

```
srun -c="2" --pty bash -i
```

Load and launch Mathematica

```
module load MATHEMATICA/12.0.0/binary
mathematica
```

In Mathematica, time how long it takes to calculate the first 20 million primes on 1 CPU core

```
AbsoluteTiming[primelist = Table[Prime[k], {k, 1, 20000000}];]
```

Now, let’s launch 2 ParallelKernels and redo the calculation in parallel

```
LaunchKernels[2]
AbsoluteTiming[primelist =
ParallelTable[Prime[k], {k, 1, 20000000},
Method -> "CoarsestGrained"];]
```

This illustrates a couple of points:-

You should always request the same number of kernels as you requested in your

`srun -c="2" --pty bash -i`

command (in this case, 2).N kernels doesn’t always translate to N times faster.

## Batch Submission

Unfortunately, it is not possible to run Mathematica notebook .nb files directly in batch. Instead, you need to create a simple text file that contains all of the Mathematica commands you want to execute. Typically, such files are given the extension .m. Let’s run the following simple Mathematica script as a batch job.

```
(*Find out what version of Mathematica this machine is running*)
Print["Mathematica version is " <> $Version]
(*Find out the name of the machine we are running on*)
Print["The machine name is " <> $MachineName]
(*Do a calculation*)
Print["The result of the integral is "]
Print [ Integrate[Sin[x]^2, x]]
```

Copy and paste the above into a text file called very_simple_mathematica.m

An example batch submission script for this file is

```
#!/bin/bash
# Request 4 gigabytes of real memory
#SBATCH --mem=4000
#SBATCH --mail-user=a.person@sheffield.ac.uk
#SBATCH --mail-type=ALL
module load MATHEMATICA/12.0.0/binary
math -script very_simple_mathematica.m
```

Copy and paste the above into a file called run_job.sh and submit with

```
sbatch run_job.sh
```

Once the job has successfully completed, the output will be in a file named like slurm-1503687.out. The number at the end refers to the job-ID given to this job by the system and will be different for you. The contents of this file is

```
more slurm-1503687.out
Mathematica version is 12.0.0 for Linux x86 (64-bit) (April 7, 2019)
The machine name is bessemer-node017
The result of the integral is
x/2 - Sin[2*x]/4
```

## Installation notes

These are primarily for administrators of the system. Download the Mathematica package, Mathematica_12.0.0_LINUX.sh, from Wolfram.

**For Version 12.0.0**

```
mkdir -p /usr/local/packages/live/noeb/MATHEMATICA/12.0.0/binary
chmod +x ./Mathematica_12.0.0_LINUX.sh
./Mathematica_12.0.0_LINUX.sh
```

The installer is interactive. Here’s the session output

```
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Wolfram Mathematica 12 Installer
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Copyright (c) 1988-2019 Wolfram Research, Inc. All rights reserved.
WARNING: Wolfram Mathematica is protected by copyright law and international treaties. Unauthorized reproduction or distribution may result in severe civil and criminal penalties and will be
prosecuted to the maximum extent possible under law.
Enter the installation directory, or press ENTER to select /usr/local/Wolfram/Mathematica/12.0.0:
> /usr/local/packages/live/noeb/MATHEMATICA/12.0.0/binary
Now installing...
Installation complete.
```

Remove the `playerpass`

file

```
rm /usr/local/packages/live/noeb/MATHEMATICA/12.0.0/binary/Configuration/Licensing/playerpass
```

Install the University network license `mathpass`

file at `/usr/local/packages/live/noeb/MATHEMATICA/12.0.0/binary/Configuration/Licensing`

. Mathpass contains the following

```
!mathlm.sheffield.ac.uk
```

The module file is
`/usr/local/modulefiles/live/noeb/MATHEMATICA/12.0.0/binary`

.