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Remove two packages, roll date
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HighPerformanceComputing.md

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@@ -3,7 +3,7 @@ name: HighPerformanceComputing
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topic: High-Performance and Parallel Computing with R
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maintainer: Dirk Eddelbuettel
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version: 2024-05-13
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version: 2024-11-09
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source: https://github.com/cran-task-views/HighPerformanceComputing/
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---
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incorporating (slightly revised) copies of packages multicore and `r pkg("snow", priority =
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"core")`. Some types of clusters are not handled directly by the base package 'parallel'. However,
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and as explained in the package vignette, the parts of parallel which provide `r pkg("snow")` -like
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functions will accept `r pkg("snow")` clusters including MPI clusters. Use `vignette("parallel", package="parallel")` to
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view the package vignette.\ The **parallel** package also contains support for multiple RNG streams
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following L'Ecuyer et al (2002), with support for both mclapply and snow clusters.\ The version
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released for R 2.14.0 contains base functionality: higher-level convenience functions are planned
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for later R releases.
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functions will accept `r pkg("snow")` clusters including MPI clusters. Use `vignette("parallel",
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package="parallel")` to view the package vignette. The **parallel** package also contains support
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for multiple RNG streams following L'Ecuyer et al (2002), with support for both mclapply and snow
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clusters.\ The version released for R 2.14.0 contains base functionality: higher-level convenience
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functions are planned for later R releases.
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### Parallel computing: Explicit parallelism
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and SSH systems are also supported. The `r pkg("BatchExperiments")` package extends it with an
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abstraction layer for running statistical experiments. Package `r pkg("batchtools")` is a
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successor / extension to both.
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- The `r pkg("flowr")` package offers a scatter-gather approach to submit jobs lists (including
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dependencies) to the computing cluster via simple data.frames as inputs. It supports LSF, SGE,
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Torque and SLURM.
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- The `r pkg("clustermq")` package sends function calls as jobs on LSF, SGE and SLURM via a single
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line of code without using network-mounted storage. It also supports use of remote clusters via
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SSH.
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recurrent networks, any combination of both, and custom neural network architectures.
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- The `r pkg("mvnfast")` uses the sumo random number generator to generate multivariate and normal
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distribtuions in parallel.
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- The `r pkg("rxode2random")` uses the `r pkg("sitmo")` package to generate either truncated or non-truncated
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multivariate normal distributions in parallel. The pacakge also generates many other common distributions in parallel (like
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- The `r pkg("rxode2random")` uses the `r pkg("sitmo")` package to generate either truncated or
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non-truncated multivariate normal distributions in parallel. The pacakge also generates many
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other common distributions in parallel (like
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binomial, t-distribution etc).
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- The `r pkg("rxode2")` uses parallel processing (via `OpenMP`) for faster solving of ordinary differential
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equations (ODEs) over multiple units (grouped by `ID`) and can generate random numbers for each ODE simulation problem (done
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automatically with the support package `r pkg("rxode2random")`).
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- The `r pkg("nlmixr2")` uses parallel ODE solving from `rxode2` to solve nonlinear mixed effects models
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in parallel (for the algorithm `"saem"`).
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- The `r pkg("rxode2")` uses parallel processing (via `OpenMP`) for faster solving of ordinary
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differential equations (ODEs) over multiple units (grouped by `ID`) and can generate random
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numbers for each ODE simulation problem.
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- The `r pkg("nlmixr2")` uses parallel ODE solving from `rxode2` to solve nonlinear mixed effects
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models in parallel (for the algorithm `"saem"`).
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### Parallel computing: GPUs
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