Commit 03267d88 authored by Gökçe Aydos's avatar Gökçe Aydos 🎨
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Update README.md

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# gofa
# 2021-06-16
- slurm srun funktioniert
- FASTQ samples available on https://www.internationalgenome.org/data-portal/sample
- Ideen
- sinnvolle Slurm Installation
- Wie die Partitionierung
- NFS
- Nextcloud-Anbindung
# 2021-06-11
- Blast finds regions of local similarity https://github.com/ncbi/blast_plus_docs
- STAR is RNA seq aligner tutorial: https://github.com/hbctraining/Intro-to-rnaseq-hpc-salmon-flipped/blob/main/lessons/2day_rnaseq_workflow.md
- Human genome reference: https://hbctraining.github.io/Accessing_public_genomic_data/lessons/accessing_genome_reference_data.html
-
- http://ftp.ensembl.org/pub/release-104/fasta/homo_sapiens/dna/Homo_sapiens.GRCh38.dna.chromosome.1.fa.gz
- annotated genes http://ftp.ensembl.org/pub/release-104/gtf/homo_sapiens/Homo_sapiens.GRCh38.104.gtf.gz
- 104 is the current release
- created makefile
- kubernetes archlinux https://dnaeon.github.io/install-and-configure-k8s-on-arch-linux/
# 2021-06-02
- STAR supports only OpenMP but not OpenMPI
- Unix as host, because clustering using the kernel is easier
- Server Modell: S2600CP
## Goal
- specs for hardware
## use case
priority:
- the students should be able to reserve nodes and run STAR by themselves
- students can use shell
else:
- 3DSMAx for animation rendering (Windows support)
## requirements
there are two tracks for users
- batch queue
- interactive
- supports Xpra for remote desktop
Slurm has already the ability to differentiate between these tracks
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