News

rslurm 0.3.1

2016-06-18

• Minor bug fix: specify full path of 'Rscript' when running batch scripts.

rslurm 0.3.0

2016-05-27

First version on CRAN

Major update to the package interface and implementation:

• Added a submit argument to slurm_apply and slurm_call. If submit = FALSE, the submission scripts are created but not run. This is useful if the files need to be transferred from a local machine to the cluster and run at a later time.

• Added new optional arguments to slurm_apply and slurm_call, allowing users to give informative names to SLURM jobs (jobname) and set any options understood by sbatch (slurm_options).

• The data_file arugment to slurm_apply and slurm_call is replaced with add_objects, which accepts a vector of R object names from the active workspace and automatically saves them in a .RData file to be loaded on each node.

• slurm_apply and slurm_call now generate R and Bash scripts through whisker templates. Advanced users may want to edit those templates in the templates folder of the installed R package (e.g. to set default SBATCH options in submit.sh).

• Files generated by the package (scripts, data files and output) are now saved in a subfolder named _rslurm_[jobname] in the current working directory.

• Minor updates, including reformatting the output of print_job_status and removing this package's dependency on stringr.

rslurm 0.2.0

2015-11-23

• Changed the slurm_apply function to use parallel::mcMap instead of mcmapply, which fixes a bug where list outputs (i.e. each function call returns a list) would be collapsed in a single list (rather than returned as a list of lists).

• Changed the interface so that the output type (table or raw) is now an argument of get_slurm_out rather than of slurm_apply, and defaults to raw.

• Added cpus_per_node argument to slurm_apply, indicating the number of parallel processes to be run on each node.

rslurm 0.1.3

2015-07-13

• Added the slurm_call function, which submits a single function evaluation on the cluster, with syntax similar to the base function do.call.

• get_slurm_out can now process the output even if some filese are missing, in which case it issues a warning.

rslurm 0.1.2

2015-06-29

• Added the optional argument pkgs to slurm_apply, indicating which packages should be loaded on each node (by default, all packages currently attached to the user's R session).

rslurm 0.1.1

2015-06-24

• Added the optional argument output to slurm_apply, which can take the value table (each function evaluation returns a row, output is a data frame) or raw (each function evaluation returns an arbitrary R object, output is a list).

• Fixed a bug in the chunk size calculation for slurm_apply.

rslurm 0.1.0

2015-06-16

• First version of the package released on Github.

Reference manual