Changes in version 0.6.2 (2023-02-24) - rslurm was adopted by the University of Colorado Boulder's Earth Lab - All future maintenance will be done by Earth Lab Changes in version 0.6.1 (2021-11-15) This is a patch release to initiate automatic generation of DOIs by Zenodo with each future release. New features and fixes - Argument job_array_task_limit included in slurm_*() functions to allow the user to set JobArrayTaskLimit (#70). - get_job_status() now checks whether slurm_*.out files exist before attempting to open them, avoiding an error (#72). Changes in version 0.6.0 (2021-04-22) New features and fixes - New function slurm_map() with similar syntax to lapply() (#48). - Better handling of additional arguments to f in slurm_apply(), and of how R objects are made available to the Slurm jobs (#48). - Slurm jobID added to slurm_job objects (#55). - processes_per_node argument added to support hyperthreading (#57). - get_slurm_out()) is now compatible with partitions that cannot accept interactive jobs and with newer releases of Slurm, though there is a potential incompatibility with versions of Slurm older than 16.05.0, which was released on May 2016 (#65). - Miscellaneous minor bug fixes (#49, #51, #53). Changes in version 0.5.0 (2019-11-15) New features and fixes - Improved status with get_job_status, deprecating print_job_status (#37). - Use mclapply within get_slurm_out to gather results (#30). - Allow user to provide custom .R and .sh templates (#47). - Allow user to specify path to Rscript (#45) and number of CPUS per task (#36). - Allow user to disable core prescheduling if tasks have high variance in completion time (816b40e). Changes in version 0.4.0 (2017-10-19) New features and fixes - Pass (serialized) functions to Slurm nodes without stringifying. - Save add_objects objects from correct environment. - Package tests evaluate on a cluster when available. - Include reverse dependency check in release process. Reversions - README now separate from package documentation. - Vignette can be built on CRAN tests again (no slurm submissions). - Returned to parallel::mcmapply, without SIMPLIFY, to prevent mc.cores error when checking on Windows. Changes in version 0.3.3 (2017-04-09) New features and fixes - Create README from R/slurm.R. Changes in version 0.3.2 (2017-04-07) New features and fixes - wait argument adds option to slurm_apply and slurm_call to block the calling script until the submitted job completes. This option can be used to allow immediate processing of a submitted job's output (#2). - Use ".RDS" file extension, rather than ".RData", for serialized objects (#4). - Minor bug fixes (#4). Changes in version 0.3.1 (2016-06-18) New features and fixes - Minor bug fix: specify full path of 'Rscript' when running batch scripts. Changes in version 0.3.0 (2016-05-28) First version on CRAN New features and fixes - 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 argument 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. Changes in version 0.2.0 2015-11-23 New features and fixes - 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. Changes in version 0.1.3 2015-07-13 New features and fixes - 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 files are missing, in which case it issues a warning. Changes in version 0.1.2 2015-06-29 New features and fixes - 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). Changes in version 0.1.1 2015-06-24 New features and fixes - 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. Changes in version 0.1.0 2015-06-16 Initial release - First version of the package released on GitHub.