Save an assay batch object to a labkey database
Save an assay batch object to a labkey database
labkey.saveBatch(baseUrl, folderPath, assayName, resultDataFrame,
batchPropertyList=NULL, runPropertyList=NULL)baseUrl |
a string specifying the |
folderPath |
a string specifying the |
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 |
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. Detailed instructions are available in the Rlabkey Users Guide, accessible by entering RlabkeyUsersGuide() at the R command prompt. Note that saveBatch currently supports only a single run with one result set per batch.
Returns the object representation of the Assay batch.
Peter Hussey
https://www.labkey.org/Documentation/wiki-page.view?name=createDatasetViaAssay
## 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
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