EasyBuild
ohpc
EasyBuild | ohpc | |
---|---|---|
6 | 28 | |
461 | 851 | |
0.7% | 0.7% | |
5.6 | 9.2 | |
3 months ago | about 1 month ago | |
Shell | C | |
GNU General Public License v3.0 only | Apache License 2.0 |
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EasyBuild
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[Question] Understanding environments and libraries caching on a beowulf cluster
Use tools like easybuild or spack to maintain the software and the modules at the same time.
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I’m currently a assistant for HPC
For one nice way to install software in a reproducible way for HPC and manage it via modules check: https://easybuild.io/
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Getting started/recommendations
Get comfortable with environment modules (see e.g., lmod), and check out installation systems like EasyBuild and Spack.
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Pounding my head on the wall
Modules, in this context, refer to Environment Modules). The article would be better than any summary I could hastily provide, but I would recommend the functionally equivalent Lmod as an alternative. Furthermore, I would strongly recommend managing software installation via EasyBuild.
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HPC design choices
Software administration: https://easybuild.io/
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Central installation of Julia on an HPC
There is an Easybuild recipe available for building Julia from source (not merged into the repo yet, but it works):
ohpc
- interesting read
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Rocky strikes back at Red Hat
We have plenty of licensed RHEL, but in isolated environments the hurdle of connecting to a Satellite server or their subscription hub on the internet is too high -- at least with Rocky and the ilk available. For this set up, the licensing model doesn't match reality, at least not easily.
Are we really going to build out compatible configuration management, monitoring, logging, etc? -- it's not a seamless transition. How much time do we have to put towards this?
And yes -- there is software compatibility issues. Look at the OpenHPC software distribution, it's designed for SUSE or Enterprise Linux: https://github.com/openhpc/ohpc/wiki/2.X
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job scheduling for scientific computing on k8s?
I recommend you just stick with HPC centric tools are workflows. Your scientists aren’t going to learn k8s as you said. SLURM is the scheduler you want and if you’re new to HPC, I recommend taking a look at https://openhpc.community
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HPC usage etiquette.
the general consensus is that pam_slurm_adopt is the better module (that's just one dude's opinion but his citations are good) - the advantage is that not only will it gatekeep SSH access, it'll also drop their SSH session into the cgroups that are constraining the user's resource limits, which also means their CPU usage will show up in sacct for the job (if the user has multiple jobs running on a node their ssh session may get dropped into the wrong one, no help for that)
- HPC OS for Non-expert
- How useful/important is OpenStack for HPC?
- Wanting to setup a cluster
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Essential skills for new HPC Admin?
Check this: https://openhpc.community/ (this helped me a lot when I started. I'm no longer the admin of such systems)
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Looking to optimize research lab resources...
Overall, if you're already in a RedHat-based environment, an installation of OpenHPC is pretty straightforward. Their reference implementation assumes you have a head node for the scheduler that all other nodes NAT through, but that's not a 100% requirement as much as a common setup. It also assumes you can reformat the compute nodes and dedicate them to HPC work, so if you need to keep the systems available as normal workstations, you'll need to deviate a bit. You could also use the OpenHPC instructions as a guide for what packages to install, but it may take longer to get everything right.
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xcat education ?
https://github.com/openhpc/ohpc/wiki/1.3.X Newer versions of OpenHPC don't seem to releasing XCat guides anymore unfortunately.
What are some alternatives?
environment-modules Lmod - Lmod: An Environment Module System based on Lua, Reads TCL Modules, Supports a Software Hierarchy
spack - A flexible package manager that supports multiple versions, configurations, platforms, and compilers.
HPCBIOS - High Performance Computing for BIOinformatics Software (and beyond)
slurm - Slurm: A Highly Scalable Workload Manager
openpbs - An HPC workload manager and job scheduler for desktops, clusters, and clouds.
telegram-desktop-nemo-action - Nemo Action to integrate "Send to Telegram" for Nemo File Manager
deepops - Tools for building GPU clusters
modules - Environment Modules: provides dynamic modification of a user's environment
infrastructure - The infrastructure monorepo for the Rocky Linux project. This project will be archived/deprecated in the future.
slurm-docker-cluster - A Slurm cluster using docker-compose
almalinux.org - almalinux.org official web site sources.