Supported by Dr. Osamu Ogasawara and  providing  . |
|
Last data update: 2014.03.03 |
Get variable groups of reduced results.DescriptionUseful helper for e.g. package plyr and such. UsagegetResultVars(data, type = "group") Arguments
Value[ Examples
reg = makeExperimentRegistry("BatchExample", seed = 123, file.dir = tempfile())
addProblem(reg, "p1", static = 1)
addProblem(reg, "p2", static = 2)
addAlgorithm(reg, id = "a1",
fun = function(static, dynamic, alpha) c(y = static*alpha))
addAlgorithm(reg, id = "a2",
fun = function(static, dynamic, alpha, beta) c(y = static*alpha+beta))
ad1 = makeDesign("a1", exhaustive = list(alpha = 1:2))
ad2 = makeDesign("a2", exhaustive = list(alpha = 1:2, beta = 5:6))
addExperiments(reg, algo.designs = list(ad1, ad2), repls = 2)
submitJobs(reg)
data = reduceResultsExperiments(reg)
library(plyr)
ddply(data, getResultVars(data, "group"), summarise, mean_y = mean(y))
Results
R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(BatchExperiments)
Loading required package: BatchJobs
Loading required package: BBmisc
Sourcing configuration file: '/home/ddbj/local/lib64/R/library/BatchJobs/etc/BatchJobs_global_config.R'
BatchJobs configuration:
cluster functions: Interactive
mail.from:
mail.to:
mail.start: none
mail.done: none
mail.error: none
default.resources:
debug: FALSE
raise.warnings: FALSE
staged.queries: TRUE
max.concurrent.jobs: Inf
fs.timeout: NA
> png(filename="/home/ddbj/snapshot/RGM3/R_CC/result/BatchExperiments/getResultVars.Rd_%03d_medium.png", width=480, height=480)
> ### Name: getResultVars
> ### Title: Get variable groups of reduced results.
> ### Aliases: getResultVars
>
> ### ** Examples
>
> reg = makeExperimentRegistry("BatchExample", seed = 123, file.dir = tempfile())
Creating dir: /tmp/RtmpXmViiM/file39a65deb5214
Saving registry: /tmp/RtmpXmViiM/file39a65deb5214/registry.RData
> addProblem(reg, "p1", static = 1)
Writing problem files: /tmp/RtmpXmViiM/file39a65deb5214/problems/p1_static.RData, /tmp/RtmpXmViiM/file39a65deb5214/problems/p1_dynamic.RData
> addProblem(reg, "p2", static = 2)
Writing problem files: /tmp/RtmpXmViiM/file39a65deb5214/problems/p2_static.RData, /tmp/RtmpXmViiM/file39a65deb5214/problems/p2_dynamic.RData
> addAlgorithm(reg, id = "a1",
+ fun = function(static, dynamic, alpha) c(y = static*alpha))
Writing algorithm file: /tmp/RtmpXmViiM/file39a65deb5214/algorithms/a1.RData
> addAlgorithm(reg, id = "a2",
+ fun = function(static, dynamic, alpha, beta) c(y = static*alpha+beta))
Writing algorithm file: /tmp/RtmpXmViiM/file39a65deb5214/algorithms/a2.RData
> ad1 = makeDesign("a1", exhaustive = list(alpha = 1:2))
> ad2 = makeDesign("a2", exhaustive = list(alpha = 1:2, beta = 5:6))
> addExperiments(reg, algo.designs = list(ad1, ad2), repls = 2)
Adding 12 experiments / 24 jobs to DB.
> submitJobs(reg)
Saving conf: /tmp/RtmpXmViiM/file39a65deb5214/conf.RData
Submitting 24 chunks / 24 jobs.
Cluster functions: Interactive.
Auto-mailer settings: start=none, done=none, error=none.
Writing 24 R scripts...
SubmitJobs |+ | 0% (00:00:00) SubmitJobs |+ | 0% (00:00:00) SubmitJobs |++ | 4% (00:00:00) SubmitJobs |++++ | 8% (00:00:00) SubmitJobs |++++++ | 12% (00:00:00) SubmitJobs |++++++++ | 17% (00:00:00) SubmitJobs |++++++++++ | 21% (00:00:03) SubmitJobs |++++++++++++ | 25% (00:00:03) SubmitJobs |++++++++++++++ | 29% (00:00:02) SubmitJobs |++++++++++++++++ | 33% (00:00:02) SubmitJobs |++++++++++++++++++ | 38% (00:00:01) SubmitJobs |++++++++++++++++++++ | 42% (00:00:01) SubmitJobs |++++++++++++++++++++++ | 46% (00:00:01) SubmitJobs |++++++++++++++++++++++++ | 50% (00:00:02) SubmitJobs |+++++++++++++++++++++++++++ | 54% (00:00:01) SubmitJobs |+++++++++++++++++++++++++++++ | 58% (00:00:01) SubmitJobs |+++++++++++++++++++++++++++++++ | 62% (00:00:01) SubmitJobs |+++++++++++++++++++++++++++++++++ | 67% (00:00:01) SubmitJobs |+++++++++++++++++++++++++++++++++++ | 71% (00:00:00) SubmitJobs |+++++++++++++++++++++++++++++++++++++ | 75% (00:00:00) SubmitJobs |+++++++++++++++++++++++++++++++++++++++ | 79% (00:00:00) SubmitJobs |+++++++++++++++++++++++++++++++++++++++++ | 83% (00:00:00) SubmitJobs |+++++++++++++++++++++++++++++++++++++++++++ | 88% (00:00:00) SubmitJobs |+++++++++++++++++++++++++++++++++++++++++++++ | 92% (00:00:00) SubmitJobs |+++++++++++++++++++++++++++++++++++++++++++++++ | 96% (00:00:00) SubmitJobs |+++++++++++++++++++++++++++++++++++++++++++++++++| 100% (00:00:00)
Sending 24 submit messages...
Might take some time, do not interrupt this!
> data = reduceResultsExperiments(reg)
Syncing registry ...
Reducing 24 results...
reduceResultsExperiments |+ | 0% (00:00:00) reduceResultsExperiments |+++++++++++++++++++++++++++++++++++| 100% (00:00:00)
> library(plyr)
> ddply(data, getResultVars(data, "group"), summarise, mean_y = mean(y))
prob algo alpha beta mean_y
1 p1 a1 1 NA 1
2 p1 a1 2 NA 2
3 p1 a2 1 5 6
4 p1 a2 1 6 7
5 p1 a2 2 5 7
6 p1 a2 2 6 8
7 p2 a1 1 NA 2
8 p2 a1 2 NA 4
9 p2 a2 1 5 7
10 p2 a2 1 6 8
11 p2 a2 2 5 9
12 p2 a2 2 6 10
>
>
>
>
>
> dev.off()
null device
1
>
|
Created & Maintained by Osamu Ogasawara (osamu.ogasawara@gmail.com) and