labkey.saveBatch: Save an assay batch object to a labkey database
In Rlabkey: Data Exchange Between R and 'LabKey' Server

labkey.saveBatch

R Documentation

Save an assay batch object to a labkey database

Description

Save an assay batch object to a labkey database

Usage

labkey.saveBatch(baseUrl, folderPath, assayName, resultDataFrame,
    batchPropertyList=NULL, runPropertyList=NULL)

Arguments

`baseUrl`	a string specifying the `baseUrl`for the labkey server
`folderPath`	a string specifying the `folderPath`
`assayName`	a string specifying the name of the assay instance
`resultDataFrame`	a data frame containing rows of data to be inserted
`batchPropertyList`	a list of batch Properties
`runPropertyList`	a list of run Properties

Details

This function has been deprecated and will be removed in a future release, please use labkey.experiment.saveBatch instead as it supports the newer options for saving batch objects.

To save an R data.frame an assay results sets, you must create a named assay using the "General" assay provider. Note that saveBatch currently supports only a single run with one result set per batch.

Value

Returns the object representation of the Assay batch.

Author(s)

Peter Hussey

References

https://www.labkey.org/Documentation/wiki-page.view?name=createDatasetViaAssay

Examples

## Not run: 

## Very simple example of an analysis flow:  query some data, calculate
## some stats, then save the calculations as an assay result set in
## LabKey Server
##  Note this example expects to find an assay named "SimpleMeans" in
##  the apisamples project
# library(Rlabkey)

simpledf <- labkey.selectRows(
	baseUrl="http://localhost:8080/labkey",
	folderPath="/apisamples",
	schemaName="lists", 
	queryName="AllTypes")

## some dummy calculations to produce and example analysis result
testtable <- simpledf[,3:4]
colnames(testtable) <- c("IntFld", "DoubleFld")
row <- c(list("Measure"="colMeans"), colMeans(testtable, na.rm=TRUE))
results <- data.frame(row, row.names=NULL, stringsAsFactors=FALSE)
row <- c(list("Measure"="colSums"), colSums(testtable, na.rm=TRUE))
results <- rbind(results, as.vector(row))

bprops <- list(LabNotes="this is a simple demo")
bpl <- list(name=paste("Batch ", as.character(date())),properties=bprops) 
rpl <- list(name=paste("Assay Run ", as.character(date())))

assayInfo<- labkey.saveBatch(
	baseUrl="http://localhost:8080/labkey",
	folderPath="/apisamples",
	"SimpleMeans", 
	results, 
	batchPropertyList=bpl,
	runPropertyList=rpl
)


## End(Not run)

Rlabkey documentation built on Oct. 23, 2024, 5:06 p.m.