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Workshops/JobCheckpointing: [[PageOutline]] = HPC Workshop Spring 2026 = = Module 8 of 8 - Job ...: ... (See "backfill scheduling" in [https://slurm.schedmd.com/sched_config.html|SLURM Scheduling Configuration Guide]. * Checkpointed jobs compensate for strict walltime limits enforced by Cypress, LONI, and most other production clusters. (See see [wiki:cypress/about#SLURMr ...; By Carl Baribault — 01/22/26 12:05:22
Workshops/JobParallelism/WhileYourJobIsRunning: [[PageOutline]] = While your job is running - determining current ...: ... {{{ [tulaneID@cypress1 ~]$git clone https://hidekiCCS:@bitbucket.org/hidekiCCS/hpc-workshop.git [tulaneID@cypress1 ~]$cp -r hpc-workshop/R/* . [tulaneID@cypress1 ~]$ls bootstrap.R bootstrap.sh bootstrapWargs.R bootstrapWargs.sh myRscript.R slurmscript1 slurmscript2 ...; By Carl Baribault — 01/21/26 11:53:30
cypress/Singularity: [[PageOutline]] = Singularity = '''The current installation of ...: ... ''' == About Singularity == [https://sylabs.io/ Singularity] allows you to create and run containers that package up pieces of software in a way that is portable and reproducible. You can build a container using Singularity on your laptop, and then run it on many of ...; By Carl Baribault — 01/20/26 11:03:07
cypress/SingularityDockerhub: [[PageOutline]] = Build Singularity Containers from Dockerhub = ...: ... Build Singularity Containers from Dockerhub = [https://www.docker.com/ Docker] is a container virtualization environment that can establish development or runtime environments without modifying the environment of the base operating system. It runs on Mac and Windows. == Use CentOS 7 ...; By Carl Baribault — 01/19/26 22:45:17
cypress/SingularityRecipes: = Build Singularity Containers from Recipes = Because you do not have ...: ... * You can build a Singularity container from a recipe on [https://cloud.sylabs.io/builder Sylabs Cloud]. * On Cypress, use the provided '''singularity pull...''' command to construct the image file from the cloud such as the following. {{{ [tulaneID@cypress01-009 ~]$singularity pull --arch am ...; By Carl Baribault — 01/19/26 22:42:19
Workshops/JobParallelism/AfterYourJobHasCompleted: [[PageOutline]] = After your job has completed - determining ...: ... * '''seff''' (See [https://github.com/SchedMD/slurm/tree/master/contribs/seff seff on github].) On LONI QB4 cluster: {{{ [loniID@qbd2 ~]$ seff -h Usage: seff [Options] <Jobid> Options: -h Help menu -v Version - ...; By Carl Baribault — 01/19/26 22:03:40
cypress/R: [[PageOutline]] = Running R on Cypress = == About R == "R is ...: ... " To download and install R, etc., see https://cran.r-project.org/. == R Modules == You can list the versions of R available on Cypress as modules with the '''module avail''' command as in the following example, including the "/" character to show only R modules. {{{ [tu ...; By Carl Baribault — 01/19/26 12:45:03
Workshops/JobParallelism/BeforeRunningYourJob: [[PageOutline]] = Before running your job = Before you run your ...: ... ed Vector Extensions (AVX), 256-bit vector processor ||See [https://wiki.hpc.tulane.edu/trac/wiki/cypress#MathLibraries Math Libraries] || ||Multithreaded (shared memory) ||OpenMP ||1 Node, >=2 cores ||See [wiki:cypress/Programming/OpenMp OpenMP] || ||Problem domain decomposition ||MPI ...; By Carl Baribault — 01/18/26 13:29:39
cypress/RunningRWithSingularity: [[PageOutline]] = Running R using Singularity on Cypress = Besides ...: ... Running R using Singularity on Cypress = Besides [[https://hub.docker.com | Dockerhub ]], the [[https://rocker-project.org/ | Rocker Project]] is a website established to provide docker containers in the form of docker files specifically for the R environment. In order to use any of thos ...; By Carl Baribault — 01/15/26 11:44:12
Workshops/HowToRunPythonOnCypress2025August: [[PageOutline]] = HPC Workshop Spring 2026 = = Module 4 of 8 - How ...: ... {{{ git clone https://hidekiCCS:@bitbucket.org/hidekiCCS/hpc-workshop.git }}} == What is Python? == Python is an interpreted, object-oriented, high-level programming language with dynamic semantics. Its high-level built in data structures, combined w ...; By fuji — 01/14/26 16:50:30

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