bot-package: bot
In fchuffar/bot: bot
Description
BoT (stands for Bag Of Tasks) is an R package allowing to distribute independent tasks over many cores and many computing nodes. The simple fact that BoT is based on the process forking feature and task locking over file system makes BoT compatible with most of computing infrastructures (multicore, clusters, grids, clouds). Using BoT, each task is a set of parameters associated with a user-defined function built on an R process. Next step consists in forking this R process for each core of the computing node. Finally, the forked set of tasks is randomized and executed in a parallel way. When a task starts a distributed lock is taken. This avoids redundant task execution. When a task is ended, result is dumped into a file. BoT is used to compute NGS data in the SiGHT project context (ERC-StG2011-281359). BoT has been tested on two infrastructures: Grid'5000 experimental testbed (https://www.grid5000.fr) and PSMN computing center of ENS de Lyon (http://www.ens-lyon.fr/PSMN). For more information on how to use bot, have a look on the example of the help ?bot::run_engine.
Details
Package: bot
Maintainer: Florent Chuffart <florent.chuffart@ens-lyon.fr>
Author: Florent Chuffart
Version: 0.9
License: CeCILL
Title: bot
Depends: fork
URL: http://www.ens-lyon.fr/LBMC/gisv/index.php/en/protocols/bioinformatics http://www.ens-lyon.fr/LBMC/gisv
Author(s)
Florent Chuffart
fchuffar/bot documentation built on May 16, 2019, 12:06 p.m.
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Description
BoT (stands for Bag Of Tasks) is an R package allowing to distribute independent tasks over many cores and many computing nodes. The simple fact that BoT is based on the process forking feature and task locking over file system makes BoT compatible with most of computing infrastructures (multicore, clusters, grids, clouds). Using BoT, each task is a set of parameters associated with a user-defined function built on an R process. Next step consists in forking this R process for each core of the computing node. Finally, the forked set of tasks is randomized and executed in a parallel way. When a task starts a distributed lock is taken. This avoids redundant task execution. When a task is ended, result is dumped into a file. BoT is used to compute NGS data in the SiGHT project context (ERC-StG2011-281359). BoT has been tested on two infrastructures: Grid'5000 experimental testbed (https://www.grid5000.fr) and PSMN computing center of ENS de Lyon (http://www.ens-lyon.fr/PSMN). For more information on how to use bot, have a look on the example of the help ?bot::run_engine.
Details
| Package: | bot |
| Maintainer: | Florent Chuffart <florent.chuffart@ens-lyon.fr> |
| Author: | Florent Chuffart |
| Version: | 0.9 |
| License: | CeCILL |
| Title: | bot |
| Depends: | fork |
| URL: | http://www.ens-lyon.fr/LBMC/gisv/index.php/en/protocols/bioinformatics http://www.ens-lyon.fr/LBMC/gisv |
Author(s)
Florent Chuffart
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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