dib-lab/farm-notes

Issues

• Managing home directories and project space on farm's disks

  #72 opened 2 months ago by ctb
  1

• Farm status webpage link and subscription for updates

  #71 opened 2 months ago by ccbaumler
  0

• putting conda environments outside your home directory

  #70 opened 2 months ago by ctb
  3

• useful disk usage commands

  #65 opened a year ago by ctb
  4

• attaching to a node running a job in order to inspect processes, e.g. `top`

  #68 opened 7 months ago by ctb
  0

• additional guide and steps to make installing conda more accessible for beginner

  #66 opened a year ago by yuenchingshen
  2

• running jupyter notebooks on farm

  #51 opened 2 years ago by ctb
  5

• running RStudio Server on farm using R as installed in a conda environment

  #44 opened 2 years ago by ctb
  15

• See your farm account associations

  #67 opened a year ago by ccbaumler
  0

• update farm account request information

  #60 opened a year ago by bluegenes
  1

• how to debug ssh login issues on farm

  #62 opened a year ago by ctb
  0

• serving files from farm via https

  #43 opened 2 years ago by ctb
  6

• Using Singularity and Nextflow in the Farm

  #59 opened 2 years ago by ccbaumler
  1

• A basic intro to HPC and the Farm Cluster

  #58 opened 2 years ago by ccbaumler
  0

• Make your terminal colorful

  #57 opened 2 years ago by hehouts
  0

• remote ssh access to on-campus desktop computers

  #56 opened 2 years ago by ctb
  0

• Binder quick-start

  #55 opened 2 years ago by hehouts
  1

• how farm queue priorities work

  #54 opened 2 years ago by ctb
  0

• use seqtk to extract subsequences from FASTA files

  #53 opened 2 years ago by ctb
  0

• automating and running things in parallel on farm

  #50 opened 2 years ago by ctb
  0

• hosting mkdocs sites on farm

  #49 opened 2 years ago by ctb
  0

• setting up authentication for static files on farm

  #48 opened 2 years ago by ctb
  0

• Ross-Ibarra lab docs

  #47 opened 2 years ago by ctb
  0

• installing python projects from git/github using `pip`

  #46 opened 2 years ago by ctb
  2

• some snakemake principles -

  #45 opened 2 years ago by ctb
  3

• some mamba stuff - minimamba, and `MAMBA_ROOT_PREFIX`

  #42 opened 2 years ago by ctb
  0

• Farm resources we have access to

  #41 opened 2 years ago by SichongP
  0

• ssh tunneling instructions

  #25 opened 3 years ago by ctb
  5

• cloning repos from github to your farm account with your github access credentials

  #40 opened 2 years ago by ctb
  0

• commands to examine ctbrowngrp queue

  #39 opened 2 years ago by ctb
  0

• bml and bmm time limits

  #36 opened 3 years ago by ctb
  0

• update docs to make clear backups are not available

  #35 opened 3 years ago by ctb
  0

• lessons from charcoal - running big snakemake on farm

  #34 opened 3 years ago by ctb
  0

• Managing scratch data [Discussion]

  #30 opened 3 years ago by mr-eyes
  12

• snakemake `--cluster-config` is deprecated.

  #32 opened 3 years ago by mr-eyes
  1

• Running GPU jobs

  #19 opened 4 years ago by luizirber
  1

• command to get directory sizes for the current directory you are in

  #24 opened 3 years ago by taylorreiter
  1

• instructions for transferring or downloading files from farm

  #23 opened 4 years ago by ctb
  0

• slurm env variables

  #22 opened 4 years ago by ctb
  0

• ssh disconnect problems

  #21 opened 4 years ago by ctb
  1

• checking resource consumption of a specific batch job

  #20 opened 4 years ago by ctb
  0

• add documentation for how to integrate github username and password

  #16 opened 5 years ago by shannonekj
  0

• note common location for shared collections

  #15 opened 5 years ago by ctb
  0

• add resources for using slurm with snakemake

  #13 opened 5 years ago by shannonekj
  4

• add .bashrc info for conda install

  #12 opened 5 years ago by ctb
  1

• add queue guidance: bml, bmm, bmh

  #8 opened 5 years ago by ctb
  0

• submitting a job via snakemake

  #2 opened 5 years ago by taylorreiter
  0