FSU Biology - Computer Support Facilities - Pauper Cluster
Pauper Nodes Hardware/Software Specs:
- Pauper - (pauper.bio.fsu.edu → 128.186.176.80)
- 56 CPU Cores - 1.2 TB RAM - GTX1080 GPU (8GB vRAM, 2560 GPU Cores, 6,500 Gflop/s)
- CUDA 11.4 - R 3.6.3
- Pauper2 - (pauper2.bio.fsu.edu → 128.186.176.81)
- 144 CPU Cores - 768 GB RAM
- R 3.6.3
- Pauper3 - (pauper3.bio.fsu.edu → 128.186.176.76)
- 24 CPU Cores - 256 GB RAM - GT760 GPU (2GB vRAM, 1152 GPU Cores)
- CUDA 11.4 - R 4.4.1
- Pauper4 - (pauper4.bio.fsu.edu → 128.186.177.196)
- 48 CPU Cores - 768 GB RAM - RTX3050 GPU (8GB vRAM, 2560 GPU Cores, 6,050 Gflop/s)
- CUDA 12.2 - R 4.4.1
- Pauper5 - (pauper5.bio.fsu.edu → 128.186.177.197)
- 12 CPU Cores - 128 GB RAM - GTX1660 GPU (6GB vRAM, 1408 GPU Cores, 4,300 Gflop/s)
- CUDA 11.4 - R 3.6.3
- Pauper6 - (pauper6.bio.fsu.edu → 128.186.177.198)
- 128 CPU Cores - 512 GB RAM - RTX A6000 GPU (48GB vRAM, 10,752 GPU Cores, 24,000 Gflop/s)
- CUDA 12.6 - R 4.4.2
- Data storage - 250 TB General use storage, 112 TB Private storage
Database, Library Mounts:
- All pauper nodes - /home/alphafold2 (AlphaFold 2)
- pauper.bio.fsu.edu - /alphafold (AlphaFold Protein Structure Database)
- pauper2.bio.fsu.edu - /blast/blastdb (NIH Blast Database)
Pauper Nodes Installed Software:
INSTALLED FROM REPOSITORIES:
- augustus
- automake
- bcftools
- bedtools
- bioperl
- bioperl-run
- blast2
- bowtie
- bowtie2
- build-essential
- bzip2
- canu
- cd-hit
- cmake
- cowsay
- cpp
- curl
- dialign
- dos2unix
- emacs
- fastdnaml
- fastp
- fastqc
- fasttree
- file
- firefox
- flexbar
- g++
- gcc
- gdebi
- gdebi-core
- git
- gzip
- hisat2
- htop
- imagej
- jellyfish
- kallisto
- libcurl4-openssl-dev
- libssl-dev
- libvcflib-tools
- libxml2-dev
- mafft
- make
- minimap
- minimap2
- mpich
- mrbayes
- mysql-server
- net-tools
- nfs-common
- nginx
- njplot
- openjdk-8-jdk
- openjdk-11-jre
- openssh-client
- openssh-server
- openssl
- parallel
- perl
- python3-pip
- primer3
- pymol
- python
- r-base version 3: pauper, pauper2, pauper5
- r-base version 4: pauper3, pauper4, pauper6
- rasmol
- raxml
- samtools
- screen
- snp-sites
- ssh
- stringtie
- tmux
- trimmomatic
- vcftools
- vim
INSTALLED FROM SOURCE:
- sratoolkit.2.9.6-ubuntu64
- tabix-0.2.6
- bedops_linux_x86_64-v2.4.39
- bam-readcount
- Geneious Prime
- gffcompare
- KAT
INSTALLED R PACKAGES:
- openssl
- credentials
- httr
- gert
- gh
- usethis
- covr
- xml2
- roxygen2
- rversions
- devtools
- conifur
- gyro
- converge
- travis
- genmat
- genefilter
- ballgown
- BiocManager
- edgeR
- S4Vectors
- GenomicRanges
- rhdf5
- biomaRt
NOT INSTALLED GLOBALLY, BUT USER CAN INSTALL IN /HOME:
- miniconda :
Run "install_miniconda" and follow the prompts. - alphafold : Instructions. If you have installed miniconda all ready you can omit the first step.
MISC. SOFTWARE:
- cuda (nvidia) - on Pauper, Pauper3, Pauper4, Pauper5, Pauper6
- rstudio-server-1.4.1106-amd64 - on all Paupers
Instructions for connecting to the Pauper cluster: