Installed software - Revision history

Daveturner: /* Jupyter */

2025-05-08T06:50:01Z

Jupyter

← Older revision		Revision as of 01:50, 8 May 2025
Line 285:		Line 285:

	You can also convert a saved Jupyter Notebook file code.ipynb to a Python code.py		You can also convert a saved Jupyter Notebook file code.ipynb to a Python code.py
	format using the commands below.		format using the commands below, where you replace '''code''' with the name of
			your saved Jupyter Notebook script.

	'''module load JupyterLab'''		'''module load JupyterLab'''

Daveturner: /* Jupyter */

2025-05-08T06:48:39Z

Jupyter

← Older revision		Revision as of 01:48, 8 May 2025
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	'''module load JupyterLab'''		'''module load JupyterLab'''

	'''jupyter nbconvert code.ipynb --to script'''		'''jupyter nbconvert code.ipynb --to script'''

Daveturner: /* Jupyter */

2025-05-08T06:12:35Z

Jupyter

@@ Line 277: / Line 277: @@
 === Jupyter ===
 [https://jupyter.org/ Jupyter] is a framework for creating and running reusable "notebooks" for scientific computing. It runs Python code by default. Normally, it is meant to be used in an interactive manner. Interactive codes can be limiting and/or problematic when used in a cluster environment. We have an example submit script available [https://gitlab.beocat.ksu.edu/Admin-Public/ondemand/job_templates/-/tree/master/Jupyter_Notebook here] to help you transition from an OpenOnDemand interactive job using Jupyter to a non-interactive job.
 === [http://spark.apache.org/ Spark] ===

Nathanrwells: /* Java */

2025-04-09T18:51:57Z

Java

← Older revision		Revision as of 13:51, 9 April 2025
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	<syntaxhighlight lang="bash">		<syntaxhighlight lang="bash">
	public class Main {		public class Main {
	static void main (String{} args) {		static void main (String[] args) {
	System.out.println(args[0]);		System.out.println(args[0]);
	}		}

Nathanrwells: /* Java */

2025-04-03T20:45:12Z

Java

← Older revision		Revision as of 15:45, 3 April 2025
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	</syntaxhighlight>		</syntaxhighlight>

	From here you can put this command inside of a slurm submit script to send off to the compute cluster just like you would with any other bash command. Note that you will need to recompile your "%filename.java" each time you make changes to it, otherwise when you execute the program, nothing will change.		From here you can put this command inside of a slurm submit script to send off to the compute cluster just like you would with any other bash command. Note that you will need to recompile your "$filename.java" each time you make changes to it, otherwise when you execute the program, nothing will change.

	Optionally, you can do all of this compilation and execution inside of your slurm submit script since the files need to have the same name.		Optionally, you can do all of this compilation and execution inside of your slurm submit script since the files need to have the same name.

Nathanrwells: /* Java */

2025-04-03T20:43:00Z

Java

← Older revision		Revision as of 15:43, 3 April 2025
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	java Main $PWD		java Main $PWD
	</syntaxhighlight>		</syntaxhighlight>
			Making sure to replace $filename with the name of your file.

	=== [http://www.python.org/about/ Python] ===		=== [http://www.python.org/about/ Python] ===

Nathanrwells: /* Java */

2025-04-03T20:42:02Z

Java

← Older revision		Revision as of 15:42, 3 April 2025
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	Once you have loaded a Java module, you can use this module to interact with Java how you would normally on your own machine.		Once you have loaded a Java module, you can use this module to interact with Java how you would normally on your own machine.

	Below Is an quick ~~exmaple~~ on how to load the Java module, then compile and run a quick java program that will print input from the ~~execution~~.		Below Is an quick example on how to load the Java module, then compile and run a quick java program that will print input from execution (which in this case is the current working directory).

	For reference, here is our java "Main.java" file. Your java filename must match the class name (meaning your file does not have to be called "Main", just make sure these names match).		For reference, here is our java "Main.java" file. Your java filename must match the class name (meaning your file does not have to be called "Main", just make sure these names match).
Line 179:		Line 179:
	<syntaxhighlight lang="bash">		<syntaxhighlight lang="bash">
	/homes/nathanrwells		/homes/nathanrwells
			</syntaxhighlight>

			From here you can put this command inside of a slurm submit script to send off to the compute cluster just like you would with any other bash command. Note that you will need to recompile your "%filename.java" each time you make changes to it, otherwise when you execute the program, nothing will change.

			Optionally, you can do all of this compilation and execution inside of your slurm submit script since the files need to have the same name.
			<syntaxhighlight lang="bash">
			#!/bin/bash
			#SBATCH --mem=4G
			#SBATCH --ntasks-per-node=1
			#SBATCH --time=0:10:00

			module load Java
			javac $filename.java
			java Main $PWD
	</syntaxhighlight>		</syntaxhighlight>

Nathanrwells: /* Java */

2025-04-03T20:32:57Z

Java

← Older revision		Revision as of 15:32, 3 April 2025
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	}		}
	}		}
			</syntaxhighlight>
			First we need to load the Java module. At the time of writing, the default Java module is "Java/11.0.20". So we can load that like this:
			<syntaxhighlight lang="bash">
			module load Java
			#or we can load it like this:
			module load Java/11.0.20
	</syntaxhighlight>		</syntaxhighlight>
	Now we need to compile our "Main.java" file into a class file.		Now we need to compile our "Main.java" file into a class file.

Nathanrwells: /* Java */

2025-04-03T20:29:29Z

Java

← Older revision		Revision as of 15:29, 3 April 2025
Line 153:		Line 153:
	Below Is an quick exmaple on how to load the Java module, then compile and run a quick java program that will print input from the execution.		Below Is an quick exmaple on how to load the Java module, then compile and run a quick java program that will print input from the execution.

	For reference, here is our java "Main.java" file. Your java filename must match the class name.		For reference, here is our java "Main.java" file. Your java filename must match the class name (meaning your file does not have to be called "Main", just make sure these names match).
	<syntaxhighlight lang="bash">		<syntaxhighlight lang="bash">
	public class Main {		public class Main {
Line 160:		Line 160:
	}		}
	}		}
			</syntaxhighlight>
			Now we need to compile our "Main.java" file into a class file.
			<syntaxhighlight lang="bash">
			javac Main.java
			</syntaxhighlight>
			This will produce a file called "Main.class". Note that "Main" will be whatever you named your file.
			Now, we can execute the file and give it something to print. In this case, I am going to print the working directory.
			<syntaxhighlight lang="bash">
			java Main $PWD
			</syntaxhighlight>
			Which has an output of wherever I ran this from in the terminal.
			<syntaxhighlight lang="bash">
			/homes/nathanrwells
	</syntaxhighlight>		</syntaxhighlight>

Nathanrwells: /* Java */

2025-04-03T20:24:10Z

Java

@@ Line 145: / Line 145: @@
 === [http://www.java.com/ Java] ===
-You can see what versions of Java we support with 'module avail Java/'
+You can see what versions of Java we support with 'module avail Java'
 === [http://www.python.org/about/ Python] ===