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bioc19cwl's Issues

Error in vignette execution

> library(RcwlPipelines)
Loading required package: BiocFileCache
Loading required package: dbplyr
> input1 <- InputParam(id = "sth")
> echo <- cwlParam(baseCommand = "echo", inputs = InputParamList(input1))
> echo$sth <- "Hello World!"
> echo
class: cwlParam
 cwlClass: CommandLineTool
 cwlVersion: v1.0
 baseCommand: echo
inputs:
  sth (string):  Hello World!
outputs:
output:
  type: stdout
r1 <- runCWL(echo, outdir = tempdir())
r1

> r1 <- runCWL(echo, outdir = tempdir())
INFO Final process status is success
Error in idx[1]:(idx[2] - 1) : NA/NaN argument

This looks like a bug? If you could take a quick look, that would be great, as we are trying to finalize the AMI. Thanks!

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