Category: Hiring

Slurm environment variable for requested time

For a slurm job, the environment variable $SLURM_JOB_NUM_NODES gives the number of nodes requested. Is there a similar variable that gives the run time requested? I couldn’t find the answer and I have tried $SLURM_JOB_TIME, $SLURM_TIME and $SLURM_SUBMIT_TIME, but none of these works. Ultimate goal is to let the script…

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Assistant Professor of bioinformatics and ancient metagenomics – University of Copenhagen – job portal

Job Portal The GLOBE Institute at the Faculty of Health and Medical Sciences, University of Copenhagen seeks to appoint a temporary assistant professor of bioinformatics and ancient metagenomics to commence 1 May 2022 or soon as possible thereafter. Information on the department can be found at: ?url=https%3A%2F%2Fglobe.ku.dk&module=jobs&id=2223594″ target=”_blank” rel=”nofollow”>globe.ku.dk Job…

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Bioinformatics Scientist Job Opening in Seattle, WA at Alpine Immune Sciences

Job Posting for Bioinformatics Scientist at Alpine Immune Sciences Alpine Immune Sciences is applying our platform discovery technology to bring innovative new therapies to people living with serious or life-threatening illnesses or conditions, such as cancer and autoimmune/inflammatory diseases. Exciting challenges lie ahead—guided by our core values, we’ll…

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UMItools dedup deduplication taking too much time + RAM

I have some RNAseq data from miRNAs that I have processed with Bowtie2 (aligning to miRBase). Now, when doing the deduplication with umi_tools dedup I find that some of the files take a lot of time+RAM to finish (some files take around 3-4 minutes and 4-5GB of RAM and some…

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parallel processing – Forcing subsequent SLURM jobs to wait until first job is done?

I am running 1000 jobs on a cluster, using a sbatch job array. I’ve set up my code such that if the job array index is set to 0, precomputations are executed and saved to file; the jobs 1-999 then access these precomputations. The precomputations in job 0 take much…

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Petabase-scale sequence alignment catalyses viral discovery

Serratus alignment architecture Serratus (v0.3.0) (github.com/ababaian/serratus) is an open-source cloud-infrastructure designed for ultra-high-throughput sequence alignment against a query sequence or pangenome (Extended Data Fig. 1). Serratus compute costs are dependent on search parameters (expanded discussion available: github.com/ababaian/serratus/wiki/pangenome_design). The nucleotide vertebrate viral pangenome search (bowtie2, database size: 79.8 MB) reached processing rates…

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python – How can I fix the dash bio error: devtools cannot load source map dashbio@1.0.1 bundle.js.map?

I am implementing a website in Python with Django framework and using django-plotly-dash to display data. I am trying to use dash_bio’s IGV feature to display some chromosome data, but when I attempt to call the functionality, I receive the following errors and the callback that returns ‘dashbio.igv’ is unable…

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Data Scientist – Molecular Biology job with SRG

Data Scientist London (hybrid, some remote working is possible) Permanent Up to £40k per annum I’m partnering with an exciting and revolutionary MedTech organisation based in London who are hiring for a Data Scientist to join their assay development team. The organisation has developed unique wearable, personalised technology to inform…

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Postdoctoral Fellow (Bioinformatics) – Jos Melenhorst Lab

Highly motivated individuals with a PhD or MD/PhD in relevant area are encouraged to apply. This training position, under the direct supervision of a Cleveland Clinic Principal Investigator will provide practical training and experience in a research setting. This position is appointed through the Lerner Research Institute. The successful applicant…

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Seven technologies to watch in 2022

The Telomere-to-Telomere Consortium is sequencing whole chromosomes.Credit: Adrian T. Sumner/SPL From gene editing to protein-structure determination to quantum computing, here are seven technologies that are likely to have an impact on science in the year ahead. Fully finished genomes Roughly one-tenth of the human genome remained uncharted when genomics researchers…

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Discovery Life Sciences hiring Bioinformatics Scientist in Huntsville, Alabama, United States

The Bioinformatics Scientist will take lab-generated data and create computational models that allow further manipulation and experimentation, perform incremental analysis required to process large amounts of data generated in a high-throughput Next Generation Sequencing (NGS) laboratory devoted to analysis of genomics data with a focus on long- and short-read sequencing…

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Flow Cytometry Technique Enables High-Speed Cell Sorting | Research & Technology | Jan 2022

FRANKLIN LAKES, N.J., Jan. 24, 2022 — A study led by global medical technology company BD (Becton, Dickinson, and Co.), in collaboration with the European Molecular Biology Laboratory (EMBL), has demonstrated an innovation in flow cytometry that adds fluorescence imaging and image-based fluorescence to sort individual cells at exceptionally high…

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UC San Diego’s Jupyterhub Platform Aids Students With Data-Intensive Computing Needs | Computing

Jan. 24, 2022 — In basic UC San Diego trend, an overheard dialog at a campus espresso cart has changed into an interdisciplinary mission that’s making computing-intensive coursework extra thrilling whereas saving properly over $1 million {dollars} thus far. The effort offers UC San Diego graduate and undergraduate college students—and…

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Increasingly efficient production of human pluripotent stem cells

Reliable production of high-quality iPS cells enables their increasingly efficient utilization in biomedical applications. Credit: Ras Trokovic, University of Helsinki Researchers at the University of Helsinki have developed a new, faster and more reliable technique for reverting human cells to the stem cell state. Pluripotent stem cells are a key…

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Bonnie Regalia found her niche selling bird seed, and much more

By Joanne Engelhardt More than 30 years ago, Birder’s Garden owner Bonnie Regalia found her true calling: as a small businesswoman. Not that she knew it then, of course. At that time Birder’s Garden was owned by Rich and Marsha Held who had the San Carlos franchise of a company…

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Executive Search Firm – Recruitment Agenciespinpoint one

Our assignments are continuously exciting and relevant in this consistently challenging economy. our story A story that goes back to the 1st of May 1999 – “International Workers’ Day”as the world was nervous about the possible chaos of Y2K, we instead were confident about our business being an entrepreneurial business…

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Zachary Piper Solutions hiring 100% Remote Senior Bioinformatician in United States

Job DescriptionZachary Piper Solutions is looking for a Senior Bioinformatician supporting the Centers for Disease Control and Prevention (CDC). The ideal candidate would prepare for, prevent, and respond to infectious diseases, including outbreaks, bioterrorism, and other public health emergencies. Responsibilities: Experience with genomic epidemiology, genomic sequencing, identifying pathogen clusters and…

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Xenotransplantation: Argentina is about to produce genetically modified animals for human transplants

While the international medical community celebrates the first successful xenotransplantation, in Argentina two research teams from public universities are preparing to produce genetically modified animals so that their organs are suitable for human transplants and the first pigs of this type would be obtained at the end of this year…

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Senior Biocurator (LIPID MAPS) at Cardiff University

Division of Infection and ImmunitySchool of MedicineCollege of Biomedical and Life Sciences We have an exciting opportunity to join the LIPID MAPS team, as a Biocurator.  You will be based at Cardiff University, and will provide core support for a new curation project, building lipid biochemical pathways in LIPID MAPS (www.lipidmaps.org) and…

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Bioinformatician job with EMBL | 1401746299

Are you creative, curious, and ambitious and like to tackle challenging biological data analysis problems? We have an exciting opportunity for a bioinformatician interested in structural biological data and functional annotations to work within the Protein Data Bank in Europe Team (PDBe) at the European Bioinformatics Institute (EMBL-EBI). In this…

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Post-doctoral Fellow – Analyst Bioinformatics in Oklahoma City, OK for Oklahoma Medical Research Foundation

Details Posted: 20-Jan-22 Location: Oklahoma City, Oklahoma Type: Full Time Required Education: Doctorate Categories: Biomedical Engineering Years of Experience: Less than 2 Post-doctoral Fellow – Analyst Bioinformatics OverviewOMRF is an independent, not-for-profit biomedical research institute adjacent to the University of Oklahoma Health Sciences Center (OUHSC) campus in Oklahoma City. Oklahoma…

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Guardant Health Staff Site Reliability Engineering / DevOps: Bioinformatics

Covid Vaccination Policy:  Starting January 7, 2022, Guardant Health will require all employees to be fully vaccinated to either (a) establish that they have been fully vaccinated against COVID-19; or (b) request and obtain an approved exemption from Guardant’s COVID-19 U.S. Vaccination Policy as a reasonable accommodation, as consistent with applicable…

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BD unveils high-throughput cell sorter that merges fluorescence with visual imaging

For researchers trying to find a single type of cell among tens of thousands, BD has outlined a new high-speed sorting technology that could help do more than just find the proverbial needle in the haystack, but also categorize each individual strand of hay itself. By combining flow cytometry methods…

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r – How to parallelize future_pmap() across multiple slurm nodes

I have access to a large computing cluster with many nodes each of which has >16 cores, running Slurm 20.11.3. I want to run a job in parallel using furrr::future_pmap(). I can parallelize across multiple cores on a single node but I have not been able to figure out the…

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Senior Bioinformatics Scientist, Assay Development Analytics Job in California

About KariusKarius is a venture-backed life science startup focused on transforming the way infectious diseases are diagnosed. Combining Next-Generation Sequencing and proprietary data analysis, we can identify over 1,000 pathogens from a single blood sample with typical turnaround time in one business day. By unlocking the information present in…

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Postdoc bad for industry? : bioinformatics

I have a postdoc offer from a national lab but my goal is to eventually go to industry (software and AI research in the molecular bio/drug discovery area). The reason I like this postdoc is because my role is developing open-source AI software, with a big focus on accelerators like…

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Are you looking for a job? These are the six most requested items in 2022

1.Fintech With sustained growth, driven by a digital finance and payment market in the midst of a revolution, fintech companies are showing their full potential for development, driving more and more employment in the professional segment. In this context, fintech companies continue to open more and more searches since many…

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Simplify your life with SLURM and sync

For my first blog post of the year, we’re talking about SLURM, everyone’s favorite job manager. If like me, you have the joy of running a literal boat-load of jobs with all kinds of parameters and command-line arguments you’ll know there are a few tips and tricks that make the…

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Software Engineer – Python and Pytorch

Computer Vision Researcher / Research Scientist – 12 month contract This is a unique opportunity to snap up very quickly. Our client is a leading technology firm looking to hire a recent graduate / post doc graduate. An ideal role for a newly qualified individual looking to gain experience within…

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[slurm-users] Questions about scontrol reconfigure / reconfig

Hello, I have some questions about adding nodes in configless mode. My version of SLURM is 21.08.5. I gave logs below to ease the read of the message. First, is “scontrol reconfigure” equal to “scontrol reconfig” ? Then, I have a strange behaviour at node addition. I have an healthy…

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Senior Manager, Bioinformatics and Genomics Data Scientist

Job Description Do you want to be part of an inclusive team that works to develop innovative therapies for patients? Every day, we are driven to develop and deliver innovative and effective new medicines to patients and physicians. If you want to be part of this exciting work, you belong…

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Openings in Medical Coding For Biomed, Biotech & Bioinformatics Grads | Yamunai Nagar, Chennai

Job Details LocalitiesYamunai Nagar, Wimco Nagar, West Tambaram, Karappakam, Kaladipet Sub RolesBio-Technology Job ID357911341 RoleMicrobiologist Hiring Company NameAchievers Spot Max Experience1 Min Experience0 Description Medical Coding is the process of converting Verbal Descriptions into numeric or alpha numeric by using ICD 10-CM, CPT & HCPCS. As per HIPAA rules healthcare…

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Postdoctoral Fellow – Plant Genomics & Bioinformatics – Fort Collins

Working Title Postdoctoral Fellow – Plant Genomics & Bioinformatics Position Location Fort Collins, CO Research Professional Position Yes Posting Number 202101543AP Position Type Admin Professional/ Research Professional Classification Title Postdoctoral Fellows Number of Vacancies Work Hours/Week 40 Proposed Annual Salary Range $50,000-$59,000. Salary is commensurate with experience and qualifications. Employee…

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Intern- Bioinformatics – Foster City

Gilead Sciences is continuing to hire for all open roles. Our interview process may be conducted virtually and some roles will be asked to temporarily work from home. Over the coming weeks and months, we will be implementing a phased approach to bringing employees back to site to ensure the…

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[slurm-users] Strange sbatch error with 21.08.2&5

Running test job with srun works: wayneh@login:~$ srun -G16 -p v100 /home/wayne.hendricks/job.sh 179851 Linux dgx1-1 5.4.0-94-generic #106-Ubuntu SMP Thu Jan 6 23:58:14 UTC 2022 x86_64 x86_64 x86_64 GNU/Linux 179851 Linux dgx1-2 5.4.0-94-generic #106-Ubuntu SMP Thu Jan 6 23:58:14 UTC 2022 x86_64 x86_64 x86_64 GNU/Linux Submitting the same with sbatch does…

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Job Application for Director, Bioinformatics Applications at Recursion

Recursion is a clinical-stage biotechnology company decoding biology by integrating technological innovations across biology, chemistry, automation, data science and engineering to radically improve the lives of patients and industrialize drug discovery. Our team is working to solve some of the hardest, most meaningful problems facing human health today. Come join…

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Top Quantum Computing Jobs to Apply for in January 2022

Quantum computing has emerged as an interesting career option in recent years Experts believe that quantum computing can change the world. It possesses the capabilities of revolutionizing the drug discovery process, facilitating deciphering codes for security purposes, and so much more. Currently, it is safe to say that quantum computing…

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Postdoctoral Position, PostDoc II in Evolutionary Ecology job with MASARYK UNIVERSITY

Department: Department of Botany and Zoology – Faculty of Science Deadline: 6 Feb 2022 Start date: 1.3.2022 (date is negotiable) Job type: full-time Job field: Science and research Bursar of the Faculty of Science, Masaryk University announces an open competition for the position Postdoctoral position (PostDoc II) in Evolutionary Ecology, Department of Botany and Zoology, Faculty of Science,…

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Bioinformatics Specialist Job Opening in Aliso Viejo, CA at Ambry Genetics

JOB OVERVIEW: The main role of this position is project coordination, timeline management, and requirement gathering. To this end, the Bioinformatics Specialist analyzes and refines business and user requirements, and coordinates with developers to facilitate bioinformatics solutions through the entire SDLC, from discovery, design, development, and validation. The Bioinformatics Specialist…

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Research Manager Jobs – Apply Online at jobs.ac.uk

From academic, teaching and research jobs to managerial and support roles, jobs.ac.uk advertises for over 7,000 organisations worldwide including: universities, research institutes, colleges, charities and commercial organisations. Refine your Research Manager jobs search This is just a selection of jobs that are currently available on jobs.ac.uk, to see all a…

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a Rust-backed Python library for DNA translation that is up to 100x faster than Biopython : bioinformatics

Background: I work at SecureDNA1, where we use Biopython pretty extensively. It’s a great library, but often quite slow, and we’ve run into bottlenecks in our processing pipelines around Biopython’s translation speed. I wrote this library to augment Biopython — you can read your sequences out of FASTA files with…

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MICROBIOLOGIST JOBS – 27021 ACTIVE MICROBIOLOGIST OPENINGS (JAN 2022)

Hot1 day ago Microbiologist RK Growing Career Solutions Be an Early Applicant Regular ApplyMax Apply 4 similar jobs will be applied if you click Max Apply 5 days ago Microbiologist Analyst – Vatva Cadila Healthcare Ltd Be an Early Applicant Regular ApplyMax Apply 7 similar jobs will be applied if…

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Bioinformatics Full Time jobs in Czech Republic

Broaden your search Refine your search To see more jobs like this, please sign up for Job Alerts Found 1 job Postdoctoral position to develop new RNA vaccines and gene therapies, discover new mechanisms in immunotherapy, RNA modifications, and…

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Head of bioinformatics – Lausanne

Head of bioinformatics Introduction UNIL is a leading international teaching and research institution, with over 5,000 employees and 17,000 students split between its Dorigny campus, CHUV and Epalinges. As an employer, UNIL encourages excellence, individual recognition and responsibility. The Lausanne Genomic Technologies Facility (GTF) is a service platform working for…

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Genome research: Finding the invisible

Fig. 1: Ladder-seq uses mRNA length information to aid transcriptome reconstruction. Credit: DOI: 10.1038/s41587-021-01136-7 LMU researchers have developed a method to extract more information from sequencing data. This will afford deeper insights into biology. Higher organisms store their genetic material in the nuclei of cells as deoxyribonucleic acid (DNA). In…

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Phase 3 Telecom Limited hiring Satellite Sales Engineer at Phase 3 Telecom Limited in Abuja, Federal Capital Territory, Nigeria

Never Miss a Job Update Again. Company: Location: Nigeria State: Job type: Full-Time Job category: Job DescriptionPhase3 Telecom is an aerial fibre optic network infrastructure provider, providing connectivity, network management and data storage services to wholesale, enterprise and retail customers across West Africa. The company was incorporated in 2003 and…

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Assistant Professor of bioinformatics and metagenomics at Novo Nordisk Foundation Center for Protein Research

Job title: Assistant Professor of bioinformatics and metagenomics at Novo Nordisk Foundation Center for Protein Research Company: Workscout Job description Job beskrivelse We are looking for a highly motivated and dynamic Assistant Professor for a 4-year position to commence on the 1st of April 2022 or soon hereafter. The position…

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Running Jobs on Titan

Running Jobs on Titan Table of Contents Titan’s Job Scheduler – SLURM Documentation Translating to SLURM commands from other workload managers Basic SLURM Commands squeue sinfo scontrol sbatch scancel Titan’s Environment Module System – LMOD Listing all available modules on Titan Loading a module into your environment Listing all modules…

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Roche hiring Sr Bioinformatics Scientist in Cambridge, Massachusetts, United States

SUMMARY We are seeking a talented and motivated Senior Bioinformatics Scientist who will be an integral member of the Sequencing team contributing to the support and development of ground-breaking next-generation sequencing (NGS) products. As a member of Roche’s Sequencing and Life Science (SLS), Scientific Support and Applications team, you will…

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Assistant Professor Job – Bioinformatics and Metagenomics, UCPH, Denmark, Jan 2022

The University of Copenhagen invites applications for an Assistant Professor position will be in the Human Proteome Variation group at The Novo Nordisk Foundation Center for Protein Research, Denmark – Jan 2022 Qualification Details Six overall criteria apply for Assistant Professor appointments at the University of Copenhagen. The six criteria…

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The membrane structure of inner ear protein prestin is revealed

Force spectroscopy of prestin, the motor protein in the inner ear. Credit: Kanazawa University As mammals, we have very sensitive hearing, thanks to a process known as cochlear amplification. This amplification is down to sensory cells in the inner ear called outer hair cells (OHCs), and it is thought to…

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Bio/pharma vs. materials – can anyone speak of specializing in either of these? : comp_chem

It seems like most comp chemists lie on the spectrum in terms of their research application, which spreads from biochemical (proteins, drug design, biomolecular simulations, etc.) to inorganic materials (semiconductors, minerals/crystals, battery/electrolytes, alloys, metals, etc.). I think it’s a notable spectrum because these fields have entirely different software suites dedicated…

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runing a command multiple times in different nodes in SLURM

I want to run three instances of GROMACS mdrun on three different nodes. I have three temperatures 200,220 and 240 K and I want to run 200 K simulation on node 1, 220 K simulation on node 2 and 240 K simulation on node 3. I need to do all…

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[gmx-users] abnormal stop of job

In tis case it must have been your sysadmin or your queueing system. Check the other answers in this thread. Post by Samrat PalHi Elton,But I have neither killed the job nor I pressed Ctrl-C in the foreground.The job was practically running background.ThanksAtanu________________________________From: Elton Carvalho To: Discussion list for GROMACS…

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Exact Sciences hiring Director, Bioinformatics in San Diego Metropolitan Area

Summary Of Major ResponsibilitiesThe Director, Bioinformatics is self-driven, working on multiple projects that are extremely complex in scope. As a thought leader, the Director, Bioinformatics brings their knowledge and expertise to bear in planning, design, and execution to ensure successful and timely completion of large or complex projects. The Director,…

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Postdoctoral Scientist – Knott Lab – Bioinformatics & Functional Genomics

Requisition # HRC0544032C Principal Investigator, Simon Knott, PhD is looking for a Postdoctoral Scientist to join the team! The Cedars-Sinai Center for Bioinformatics and Functional Genomics (CBFG) is an integrated, interdisciplinary research group with the common goal of developing end-to-end research workflows for genomic and high-throughput functional analysis of patient…

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Intern with UCSB IT | UC Santa Barbara Information Technology

All of our UCSB IT internships are now full. Please check back for future internship opportunities.  UCSB IT offers student interns a paid opportunity to complement their academic training by learning practical skills in a high demand field. UCSB IT values our students’ opinions and believes their ideas drive the successful…

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Nutritionally charged lettuce developed with CRISPR/Cas gene editing tech – CNW News – Breaking News & Top Stories – Latest World, US & Local News

The concept of genetic modification can be described as polarizing. Some people believe that both traditional and modern plant breeding techniques are unsafe and unnatural. Others see the potential for greater yields and better nutrition. Yarin LIVNEH, a PhD student at Hebrew University in Israel, is part of the second…

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Comp chem career path advice? : comp_chem

I’m about to get my PhD in computational chemistry from Stanford. My thesis involved machine learning to make accurate force fields, mainly for materials science applications. But I have some experience with biology as well. I’ve been interviewing for comp chem/research jobs and I’m looking for advice in case others…

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Researchers identify new bacteria and viruses in human skin

Data representing a variety of microorganisms found in the human skin microflora. Credits: Karen Arnott / EMBL Researchers and colleagues at EMBL’s European Bioinformatics Institute (EMBL-EBI), National Institutes of Health (NIH) National Institute for Human Genome (NHGRI), NIH National Institute for Arthritis, Musculoskeletal and Skin Diseases are new bacteria and…

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Extended Features of the SageMaker Model Parallel Library for PyTorch

In addition to its core features, the SageMaker distributed model parallel library offers memory-saving features for training deep learning models with PyTorch: tensor parallelism, optimizer state sharding, activation checkpointing, and activation offloading. Note Extended memory-saving features are available through Deep Learning Containers for PyTorch, which implements the SageMaker distributed model…

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Associate Director, Bioinformatics Job Opening in Wilmington, DE at Incyte Corporation

Incyte is a biopharmaceutical company focused on the discovery, development, and commercialization of novel medicines to meet serious unmet medical needs in oncology and inflammation and autoimmunity. Incyte is committed to the rigorous pursuit of research and development excellence to improve the lives of patients, make a difference in health…

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okay to run docker build test only on changes to Dockerfiles ?

I’d like to see a quicker response from the CI system when we make a pull request etc. I’ve opened this issue to ask if you agree to only run the job testing the build of the Dockerfiles when we change the Dockerfiles. Would that be reasonable? If so, I’ll…

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Need A Job Now

Need A Job Now Page not found The page you are looking for, needajobnow.usnlx.com/new-york-ny/postdoctoral-research-scientist/D409E8A9DA9B4E269280D86BCF12EC64/job/?vs=28, does not exist. If you found this page from a job link, then that job is expired. Where can you go from here? Read more here:…

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Stan vs PyMC3 vs Bean Machine

I have been a light user of Stan and RStan for some time and while there are a lot of things I really like about the language (such as the awesome community you can turn to for support and ShinyStan for inspecting Stan output) there are also a few things…

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UMass Chan Medical School hiring Research Lab Tech I – Neurogenerative Disease (CRISPR-Cas gene editing) in Worcester, Massachusetts, United States

OverviewGENERAL SUMMARY OF POSITION: We are seeking a Research Technician to work collaboratively on CRISPR-Cas gene editing of the Huntington’s Disease (HD) gene. HD is a devasting neurodegenerative disease that currently has no effective treatment. Our goal is to develop gene editing methods to inactivate or correct the disease-causing version…

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CRISPR/Cas12a-based biosensors for ultrasensitive tobramycin detection with single- and double-stranded DNA activators

Dawei Li received his Bachelor’s degree (2003) and Master’s degree (2006) from Lanzhou University and PhD (2013) from Nanyang Technological University. At present he is an associate professor in college of biology and the environment at Nanjing Forestry University. His current research interests mainly focus on the design and synthesis…

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BLAST | ICGRC

In bioinformatics, BLAST (Basic Local Alignment Search Tool) is an algorithm for comparing primary biological sequence information, such as the amino-acid sequences of different proteins or the nucleotides of DNA sequences. A BLAST search enables a researcher to compare a query sequence with a library or database of sequences, and…

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Gilead Sciences hiring Intern – Bioinformatics in Foster City, California, United States

Gilead Sciences is continuing to hire for all open roles. Our interview process may be conducted virtually and some roles will be asked to temporarily work from home. Over the coming weeks and months, we will be implementing a phased approach to bringing employees back to site to ensure the…

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Python scikit learn n_jobs – Stackify

what is the point of using n-jobs (and joblib) if the the library uses all cores anyway? It does not, if you specify n_jobs to -1, it will use all cores. If it is set to 1 or 2, it will use one or two cores only (test done scikit-learn…

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Anyone know any clever snakemake/SLURM tricks to run a big analysis with limited storage?

Anyone know any clever snakemake/SLURM tricks to run a big analysis with limited storage? 1 I am using a SLURM HPC to run jobs and have ran into issues with storage. I have 3TB storage, and want to run over 1000 publicly available RNAseq data through my pipeline, which includes…

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Postdoctoral Scholar – Bioinformatics/Biomedical Data Science

The University of Nevada, Reno (UNR) appreciates your interest in employment at our growing institution. We want your application process to go smoothly and quickly. Final applications must be submitted prior to the close of the recruitment. If you need assistance or have questions regarding the application process, please contact…

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Elucidata Corporation hiring Bioinformatics Scientist in Remote

About Elucidata Corporation Provider of cloud-based data analytics platform designed to analyze omics datasets to understand the molecular basis of cellular phenotypes. Job Description About Elucidata:    Elucidata has assembled an elite group of scientists, engineers, and business development professionals to create technologies and products that will shape the future…

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Jobs For Bioinformatics,Biochemistry,Microbiology,Botany,zoology freshers | Jeyachandran Nagar, Chennai

Job Details LocalitiesJeyachandran Nagar, Kamarajar Salai, Kellys, Krishnamoorthy Nagar, Madipakkam Sub RolesBiology, Botany, Chemistry, Zoology Job ID357703695 RoleTeacher Hiring Company NameAchievers Spot Max Experience1 Min Experience0 Description Good organization skills demonstrating the ability to execute timely follow-upWillingness to be a team player and show initiative where needed.Ready to work in…

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Associate Scientist, Bioinformatics – jobRxiv

Are you interested in being a key member of a bioinformatics team in a shared resource at a major cancer center?  This Associate Scientist position will support a wide array of bioinformatics research services in the Sylvester Comprehensive Cancer Center (SCCC) Biostatistics and Bioinformatics Shared Resource (BBSR) at the University…

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Medical Coding Jobs For Microbiology Mlt Biochemistry 17 To 21 Grad at I skills Medical Coding Solutions

Job Description IskillsSolutions HR Nandhini 7358407557(whatsapp) [email protected] Job Description: Position: Medical Coder. Medical Coding is the process of converting Verbal Descriptions into numeric or alpha numeric by using ICD 10-CM, CPT && HCPCS . Eligibility: All (UG/PG) Life Science& Paramedical Graduates Bsc Msc Dip Medical Lab Tech Nursing GNM/DGNM Biomedical…

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Postdoc Position in Bioinformatics in Stem Cell Neurobiology

DepartmentDepartment of Histology and Embryology  – Faculty of MedicineDeadline 28 Feb 2022Start date Jully 2022Job type full-timeJob field Science and research Medical Faculty of Masaryk University, Brno, Czech Republic, invites excellent scientists to apply for Postdoc position in Bioinformatics in Stem Cell Neurobiology   Description: The Department of Histology and Embryology is…

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NIH-SOAR-NCI-Bioinformatics Scientist in Rockville, MD

Axle Informatics is a bioscience and information technology company that offers advancements in translational research, biomedical informatics, and data science applications to research centers and healthcare organizations around the globe. With experts in biomedical science, software engineering, and program management, we focus on developing and applying research tools and techniques…

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Top 5 scikit-learn Code Examples

def __init__(self, loss=”hinge”, penalty=’l2′, alpha=0.0001, l1_ratio=0.15, fit_intercept=True, n_iter=5, shuffle=True, verbose=0, epsilon=DEFAULT_EPSILON, n_jobs=1, random_state=None, learning_rate=”optimal”, eta0=0.0, power_t=0.5, class_weight=None, warm_start=False, average=False): super(SGDClassifier, self).__init__( loss=loss, penalty=penalty, alpha=alpha, l1_ratio=l1_ratio, fit_intercept=fit_intercept, n_iter=n_iter, shuffle=shuffle, verbose=verbose, epsilon=epsilon, n_jobs=n_jobs, random_state=random_state, learning_rate=learning_rate, eta0=eta0, power_t=power_t, class_weight=class_weight, warm_start=warm_start, average=average) Read more here: Source link

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LAMMPS failed to install with Intel compiler due to cpio and diffutils

$ spack install lammps%intel +asphere +class2 +kspace +manybody +misc +molecule +mpiio +opt +replica +rigid +user-omp +user-intel ^intel-mkl ^intel-mpi (base) bash-4.2$ spack install lammps%intel +asphere +class2 +kspace +manybody +misc +molecule +mpiio +opt +replica +rigid +user-omp +user-intel ^intel-mkl ^intel-mpi [+] /opt/intel/cmake (external cmake-3.20.0-3teotjsa6webcsazofydfkk2v3pn2hb6) [+] /nfs/pdx/home/sdouyeb/spack/opt/spack/linux-centos7-skylake_avx512/intel-19.1.3.304/alsa-lib-1.2.3.2-yctbppr2tcdayclbt32xjgagmmwbct2v [+] /nfs/pdx/home/sdouyeb/spack/opt/spack/linux-centos7-skylake_avx512/intel-19.1.3.304/libiconv-1.16-ilxedtsoqggtmtbrjxehh6ojznmtdni3 [+] /nfs/pdx/home/sdouyeb/spack/opt/spack/linux-centos7-skylake_avx512/intel-19.1.3.304/yasm-1.3.0-7y4fvxshqkmikii3cvelccaiajj4dboc [+] /nfs/pdx/home/sdouyeb/spack/opt/spack/linux-centos7-skylake_avx512/intel-19.1.3.304/zlib-1.2.11-k24vg36ubsrvwfgrdipndmpqn4eo5jq7 ==>…

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Bioinformatics Analyst – Emory Healthcare/Emory University

Discover Your Career at Emory University Emory University is a leading research university that fosters excellence and attracts world-class talent to innovate today and prepare leaders for the future.We welcome candidates who can contribute to the diversity and excellence of our academic community. Description JOB DESCRIPTION: + Maintains software, hardware…

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Bioinformatics Engineer/Senior Engineer – Cambridge Massachusetts

Flagship Pioneering has launched a privately held, biotechnology company that is pioneering novel diagnostics for cancer. This new company, Harbinger Oncology, is a highly dynamic, entrepreneurial, and innovation-driven organization seeking to hire a Bioinformatics Engineer/Senior Engineer to join our team. Flagship Pioneering conceives, creates, resources, and grows first-in-category life sciences…

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Postdoc Position in Bioinformatics in Stem Cell Neurobiology job with MASARYK UNIVERSITY

Department Department of Histology and Embryology – Faculty of Medicine Deadline 28 Feb 2022 Start date Jully 2022 Job type full-time Job field Science and research Medical Faculty of Masaryk University, Brno, Czech Republic, invites excellent scientists to apply for Postdoc position in Bioinformatics in Stem Cell Neurobiology   Description: The Department of…

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Linear Classifier Sklearn – December 2021

sklearn.linear_model.LogisticRegression — scikit-learn 1.0 … Posted: (8 days ago) class sklearn.linear_model.LogisticRegression(penalty=’l2′, *, dual=False, tol=0.0001, C=1.0, fit_intercept=True, intercept_scaling=1, class_weight=None, random_state=None, solver=”lbfgs”, max_iter=100, multi_class=”auto”, verbose=0, warm_start=False, n_jobs=None, l1_ratio=None) [source] ¶ Logistic Regression (aka logit, MaxEnt) classifier. Course Detail Scikit-learn.org Course View All Course Read more here: Source link

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CSIRO Postdoctoral Fellowship in Pathogen Genomics and Bioinformatics

CSIRO Postdoctoral Fellowship in Pathogen Genomics and Bioinformatics – Job posted on PostdocJobs.com CONNECT WITH US :    CSIRO Postdoctoral Fellowship in Pathogen Genomics and Bioinformatics Job Number: Date Posted: Dec 23, 2021 Application Deadline: Open Until Filled Job Description Acknowledgment of Country   CSIRO acknowledges the Traditional Owners of the…

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Bioinformatician – qPCR and annotation directions Jobs at Nalagenetics, Jakarta

We are hiring a bioinformatics specialist interested in developing a clinical decision support for implementation of genetics in clinical settings. The person will be responsible of building analytical pipelines forpatients’ genomic, demographic, and individual data, as well as working with our senior software engineer tointegrate our knowledge base with existing…

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Recovering Bimodal distribution parameters using pymc3

{“container_id”:”1d9e5ad015e2e03cef94e691be4438b53a70630ff139319b924402f64bf7f381″,”severity”:”INFO”,”time”:”2021/12/23 16:28:39.257154″,”line”:”java_template.go:63″,”message”:”Using launch args: [-cp /template/datastream-to-spanner/*:/template/datastream-to-spanner/libs/*:/template/datastream-to-spanner/classes com.google.cloud.teleport.v2.templates.DataStreamToSpanner –tempLocation=gs://dataflow-staging-us-central1-664290125703/tmp –labels={n “goog-dataflow-provided-template-name” : “cloud_datastream_to_spanner”,n “goog-dataflow-provided-template-type” : “flex”n}n [email protected]com –streamName=ora2span1 –databaseId=quiz-database –inputFilePattern=gs://shailesh-ds1/data1/ –runner=DataflowRunner –project=shailesh-1 –jobName=daedwedfwedfeadfsedfesd –templateLocation=gs://dataflow-staging-us-central1-664290125703/staging/template_launches/2021-12-23_08_27_41-9888970193837049959/job_object –stagingLocation=gs://dataflow-staging-us-central1-664290125703/staging –region=us-central1 –instanceId=quiz-instance]”} {“container_id”:”1d9e5ad015e2e03cef94e691be4438b53a70630ff139319b924402f64bf7f381″,”severity”:”INFO”,”time”:”2021/12/23 16:28:39.257196″,”line”:”exec.go:38″,”message”:”Executing: java -cp /template/datastream-to-spanner/*:/template/datastream-to-spanner/libs/*:/template/datastream-to-spanner/classes com.google.cloud.teleport.v2.templates.DataStreamToSpanner –tempLocation=gs://dataflow-staging-us-central1-664290125703/tmp –labels={n “goog-dataflow-provided-template-name” : “cloud_datastream_to_spanner”,n “goog-dataflow-provided-template-type” : “flex”n}n [email protected]com –streamName=ora2span1 –databaseId=quiz-database –inputFilePattern=gs://shailesh-ds1/data1/ –runner=DataflowRunner –project=shailesh-1 –jobName=daedwedfwedfeadfsedfesd –templateLocation=gs://dataflow-staging-us-central1-664290125703/staging/template_launches/2021-12-23_08_27_41-9888970193837049959/job_object –stagingLocation=gs://dataflow-staging-us-central1-664290125703/staging –region=us-central1…

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Clinical Bioinformatics Analyst (m/w/d) – Foundation Medicine GmbH – Biology & Life Sciences

Clinical Bioinformatics Analyst (m/w/d) PENZBERG, GERMANY Foundation Medicine is leading a transformation in cancer care, where each patient’s treatment is informed by a deep understanding of the molecular changes that contribute to their disease. As a molecular information company, we are focused on fundamentally changing the way in which patients…

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Bioinformatics Associate Jobs | Search & Apply Today

I am currently partnered with a large biotech that is based in the San Francisco Bay Area. They are seeking a Bioinformatics Associate to join the team researching human genetics. This position would report directly into the Scientists and will be responsible for analyzing genome scale data through in-depth longitudinal…

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Scientific Officer – Protein Expression and Purification Core Facility at European Molecular Biology Laboratory (EMBL)

About the team/job The EMBL Protein Expression and Purification Core Facility provides support regarding all types of experiments related to advanced protein expression, purification and biophysical characterization. The facility offers a service for high-quality protein production in E. coli, insect and mammalian cells, whilst also maintaining a state-of-the-art biophysics platform…

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Principal Scientist, Disease Strategy (Translational bioinformatics) on beHired.in

At Bristol Myers Squibb, we are inspired by a single vision – transforming patients’ lives through science. In oncology, hematology, immunology and cardiovascular disease – and one of the most diverse and promising pipelines in the industry – each of our passionate colleagues contribute to innovations that drive meaningful change. We…

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Guardant Health Senior DevOps Engineer: Bioinformatics

Covid Vaccination Policy:  Starting January 7, 2022, Guardant Health will require all employees to be fully vaccinated to either (a) establish that they have been fully vaccinated against COVID-19; or (b) request and obtain an approved exemption from Guardant’s COVID-19 U.S. Vaccination Policy as a reasonable accommodation, as consistent with applicable…

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Excelraise, LLC DataBase Programmer / DataBase Analyst (ETL / Salesforce CRM / RStudio / SQL) 100% Remote

Job Detail Job Description Excelraise, LLC is a rapidly growing full service IT solutions integrator and talent management company headquartered in Denver, CO. Our valued client*s includes fortune 500 companies, Government Agencies. Currently we are looking for a qualified individual to work as a DataBase Programmer / DataBase Analyst (ETL…

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AI-sparked life sciences revolution, greatest scientific achievement of 2021

The revolution that Artificial Intelligence has brought about for the life sciences has been considered by Science magazine the main scientific advance of the year 2021. The prestigious journal highlights the feat carried out by the DeepMind research laboratory, in association with the EMBL European Bioinformatics Institute (EMBL-EBI), which has…

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SLURM and tailoring walltime for different jobs –

Hi, so finally, I have access to a big cluster that uses SLURM as scheduler for Matlab. So far so good. Now, I would need to understand if I am planning the execution of my program properly. I have a Main file, with several batch jobs. At the moment, it…

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main-armv7-default][science/cp2k-data] Failed for cp2k-data-7.1.0 in stage

You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: y…@freebsd.org Log URL: beefy12.nyi.freebsd.org/data/main-armv7-default/p772274a15b8b_s0630a06b2a/logs/cp2k-data-7.1.0.log Build URL: beefy12.nyi.freebsd.org/build.html?mastername=main-armv7-default&build=p772274a15b8b_s0630a06b2a Log: =>> Building science/cp2k-data build started at Sun Dec 19…

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BioSpace hiring Scientist II – Bioinformatics in Cambridge, Massachusetts, United States

Job DescriptionJob SummaryThis position will be responsible for computational analyses on our novel mRNA vaccine platform to characterize novel antigens and evaluate subsequent vaccine responses. This position will work to analyses complex datasets and assist in experimental design to ensure rigorous statistical integrity. This position work collaboratively with other computational…

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faq – What should I do when my neural network doesn’t learn?

There’s a saying among writers that “All writing is re-writing” — that is, the greater part of writing is revising. For programmers (or at least data scientists) the expression could be re-phrased as “All coding is debugging.” Any time you’re writing code, you need to verify that it works as…

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Bioconductor – ProteoDisco

DOI: 10.18129/B9.bioc.ProteoDisco     Generation of customized protein variant databases from genomic variants, splice-junctions and manual sequences Bioconductor version: Release (3.14) ProteoDisco is an R package to facilitate proteogenomics studies. It houses functions to create customized (mutant) protein databases based on user-submitted genomic variants, splice-junctions, fusion genes and manual transcript…

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Install Slurm 19.05 on a standalone machine running Ubuntu 20.04

Use apt to install the necessary packages: sudo apt install -y slurm-wlm slurm-wlm-doc Load file:///usr/share/doc/slurm-wlm/html/configurator.html in a browser (or on WSL2), and: 1. Set your machine’s hostname in `SlurmctldHost` and `NodeName`. 2. Set `CPUs` as appropriate, and optionally `Sockets`, `CoresPerSocket`, and `ThreadsPerCore`. Use command `lscpu` to find what you…

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