R: Windows specific functions.

createTngFusionMethFiles {topdownr}

R Documentation

Windows specific functions.

Description

The functions runXmlMethodChanger and runScanHeadsman call XmlMethodChanger.exe and ScanHeadsman.exe with the corresponding arguments. The only work on Windows (maybe on Linux + wine as well but that was never tested).

Usage

createTngFusionMethFiles(template, xml = list.files(pattern =
  ".*\\.xml$"), executable = "XmlMethodChanger.exe",
  verbose = interactive())

runXmlMethodChanger(template, xml = list.files(pattern = ".*\\.xml$"),
  executable = "XmlMethodChanger.exe", verbose = interactive())

runScanHeadsman(path = ".", executable = "ScanHeadsman.exe")

Arguments

`template`	`character`, path to template `.meth` file.
`xml`	`character`, vector of path to `.xml` files.
`executable`	`character`, path to the `XmlMethodChanger.exe` or `ScanHeadsman.exe` executable.
`verbose`	`logical`, if `TRUE` a progress bar is shown.
`path`	`character`, path to the directory containing the `.raw` files.

Details

runXmlMethodChanger applies ‘XmlMethodChanger.exe’ on all given XML files generated with writeMethodXmls() to create .meth files from a template.

runScanHeadsman calls ScanHeadsman.exe on a given directory containing .raw files. ScanHeadsman.exe extracts the method and scan header data into .experiments.csv and .txt files, respectively.

Value

Nothing. Used for its side effects.

References

XmlMethodChanger source code: https://github.com/thermofisherlsms/meth-modifications/

ScanHeadsman source code: https://bitbucket.org/caetera/scanheadsman

Examples

## Not run: 
runXmlMethodChanger(templateMeth="TMS2IndependentTemplate240Extended.meth",
                    modificationXml=list.files(pattern="^method.*\\.xml$"),
                    executable="..\\XmlMethodChanger.exe")

## End(Not run)
## Not run: 
runScanHeadsman("raw", executable="..\\ScanHeadsman.exe")

## End(Not run)

[Package topdownr version 1.4.1 Index]