The @NIH #HPC team plans, manages, & supports high-performance computing systems for the @IRPatNIH, including the @top500supercomp #Biowulf cluster
Bethesda, MD, USA
Joined February 2016
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When your pipelines generate HTML reports on #biowulf, you don't have to copy all the results back to your desktop to catch a glimpse. Use hpcdrive to locally mount your hpc storage and browse directly to it. hpc.nih.gov/docs/hpcdrive.ht… #TipTuesday
NIH HPC retweeted
Paul Gonzalez from our lab @genome_gov @IRPatNIH presenting his work on the evolution of non-coding elements associated with homeobox genes at #SICB2023 – an extremely computationally intensive study that wouldn't have been possible without being #PoweredByBiowulf! @NIH_HPC
NIH HPC retweeted
Sofia Barreira from our lab @genome_gov @IRPatNIH presenting her work on the evolutionary history of the nucleolar transcription factor at #SICB2023... sequence meets structure! #AlphaFold #ProteinFolding
@NIH_HPC #PoweredByBiowulf
Be careful about loading modules and activating conda environments in your bashrc. It's nice to have all your tools at your fingertips when you log in, but they don't always integrate well with each other. Load only what you need when you need it. #TipTuesday
If you have a lot of short (<5min) jobs, bundle them up to get a bulk discount on your scheduling time. swarm's --bundle option will group them into bundles & run each bundled command in succession within a single subjob.
See hpc.nih.gov/apps/swarm.html#…
#TipTuesday #hpctips
You: I have a lot of samples to process. I’ll just run sbatch out of a for-loop, and then I—
Us: No! Use a job array. Or even better, use swarm on #Biowulf.
hpc.nih.gov/apps/swarm.html #TipTuesday #hpctips
Do you have short ( < 4 hr) jobs that you want to start quickly on #Biowulf? Consider submitting to the 'quick' partition to get priority scheduling. #TipTuesday
There are now 5000 papers #PoweredByBiowulf! 🥳 We're proud to support the @IRPatNIH with this essential resource and looking forward to enabling many more papers to come. ☺️
Your #biowulf job is coming up on its walltime limit, but it's not done yet 😬 What do you do? Use newwall to extend your walltime*! #TipTuesday
*up to the partition time limit. other restrictions apply. see hpc.nih.gov/docs/userguide.h… for details
The user dashboard is your #Biowulf control room. See and request changes to your groups and disk quotas. Monitor your jobs and resource utilization. hpc.nih.gov/dashboard #TipTuesday
Using network storage for temp files is like making a new trip to the store for each ingredient in your sandwich. Reduce traffic 🚦. Use local scratch instead. hpc.nih.gov/docs/userguide.h… #TipTuesday
Congratulations!
Congratulations to @genome_gov’s @JulieSegre, who has been elected to @theNASciencesfor for her work in microbial genomics and human health! Her research has been crucial in tracking several skin diseases. Read more about her amazing research career: go.usa.gov/xtnsf
NIH HPC retweeted
Thanks Andy! And mark this down as another @nih_hpc success story. All the assemblies ran there and the whole consortium relied on our Globus share, all during a pandemic. Hats off to them!
GATK is one of the most-used apps on #Biowulf. Learn how to use GATK4 for your genomic variant analyses--and efficiently on the cluster!--in our new tutorial hpc.nih.gov/training/gatk_tu… @gatk_dev @IRPatNIH
Congrats to Guojie Zhang and co. on this lovely platypus & echidna genome paper, and to the @genomeark team for the great assemblies including all 10(!) platypus sex chromosomes 👏 nature.com/articles/s41586-0…
October's NIH/FDA COVID-19 Research Workshop featured work #PoweredByBiowulf irp.nih.gov/catalyst/v29i1/a…
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