Last updated: 2020-01-15
Checks: 7 0
Knit directory: misc/
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Modified: analysis/index.Rmd
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| File | Version | Author | Date | Message |
|---|---|---|---|---|
| Rmd | cfac861 | Dongyue Xie | 2020-01-15 | wflow_publish(“analysis/command.Rmd”) |
| html | 1313b6f | Dongyue Xie | 2019-12-12 | Build site. |
| Rmd | c07c0dc | Dongyue Xie | 2019-12-12 | wflow_publish(“analysis/command.Rmd”) |
cd $SCRATCH
htop: check login mode cpu use
Get compute node:
sinteractive --time=10:00:00 --mem=8G -c 4 -p mstephens --account=pi-mstephens
--exclusive:
squeue -u dyxie : see job status
squeue -p mstephens: see who’s using nodes.
scontrol show node=midway2-0437
squeue -p broadwl | less -S
export OPENLABS_NUM_THREADS=4: use 4 cpus to compute
Open another command window, login to midway2 then ssh midway2-0437, htop --user=dyxie monitor the computations on the other command window.
Use screen to back up screens.
nano myscript.R to write an R script.
module load R then Rscript myscript.R
sbatch myscript.sbatch
sessionInfo()R version 3.6.1 (2019-07-05)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS High Sierra 10.13.6
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] workflowr_1.5.0 Rcpp_1.0.2 rprojroot_1.3-2 digest_0.6.21
[5] later_1.0.0 R6_2.4.0 backports_1.1.5 git2r_0.26.1
[9] magrittr_1.5 evaluate_0.14 stringi_1.4.3 rlang_0.4.0
[13] fs_1.3.1 promises_1.1.0 whisker_0.4 rmarkdown_1.16
[17] tools_3.6.1 stringr_1.4.0 glue_1.3.1 httpuv_1.5.2
[21] xfun_0.10 yaml_2.2.0 compiler_3.6.1 htmltools_0.4.0
[25] knitr_1.25