query: query bfabric

In fgcz/bfabricShiny: A Module for Bridging B-Fabric and R using REST

query bfabric

Description

query bfabric

Usage

query(
  login,
  webservicepassword,
  endpoint = "workunit",
  query,
  posturl = "http://localhost:5000/q",
  as_data_frame = FALSE
)

Arguments

login	bfabric login
webservicepassword	bfabric webservicepassword, visible when you check your user details in the bfabric system.
endpoint	the endpoint, e.g., 'sample'
query	e,g, list(containerid = 3000)
posturl	where the flask server is working
as_data_frame	if TRUE it returns a data.frame object.

Value

a nested list object

Examples

## Not run: 
query(login, webservicepassword, endpoint='sample', query = list(id=206577))

## End(Not run)

## Not run: 
 RES <- query(endpoint = 'resource',
    query = list('filechecksum' = '127f0c5b6352a326f9a6c8458d59d921'),
    login, webservicepassword)

 WU.pending <- query(endpoint='workunit',
    query = list('status' = 'pending'),
    login, webservicepassword)

 APP.analysis <- query(endpoint='application',
    query=list('applicationtype' = 'analysis'),
    login, webservicepassword)

 # a more complex example

 ## query metadata
 Q <- query(login, webservicepassword,
   endpoint = 'resource',
   query = list('workunitid' = 163763))

 ## stage data
 uris <- sapply(Q$res, function(x){x$uris[3]})
 (rawfilenames <- sapply(strsplit(unlist(uris), ":"), function(x){x[3]}))
 library(rawfileQC)
 library(parallel)
 RAW <- do.call('rbind',
   mclapply(rawfilenames, read.raw, ssh = TRUE, mc.cores = 12))

 ## have fun
 hex.bin(RAW)

## End(Not run)

## Have Fun!

fgcz/bfabricShiny documentation built on Dec. 25, 2024, 2:37 a.m.