Validate operations

rmzTabM.Validate

Format

An R6Class generator object

Methods

ValidateMzTabFile Validates an mzTab file in XML or JSON representation and reports syntactic, structural, and semantic errors. @param mztabfile MzTab @param level Enum < [info, warn, error] > @param max.errors integer @param semantic.validation character @returnType list( ValidationMessage )
status code : 200 | Validation Okay return type : array[ValidationMessage] response headers : status code : 415 | Unsupported content type response headers : status code : 422 | Invalid input return type : array[ValidationMessage] response headers : status code : 0 | Unexpected error return type : Error response headers :

Public fields

apiClient

Handles the client-server communication.

Methods

Public methods

• ValidateApi$new()

• ValidateApi$ValidateMzTabFile()

• ValidateApi$ValidateMzTabFileWithHttpInfo()

• ValidateApi$clone()

---

Method new()

Create a new ValidateApi object.

Usage

ValidateApi$new(apiClient)

Arguments

apiClient

An initialized ApiClient.

---

Method ValidateMzTabFile()

Validate an MzTab object.

Usage

ValidateApi$ValidateMzTabFile(
  mztabfile,
  level = "info",
  max.errors = 100,
  semantic.validation = FALSE,
  ...
)

Arguments

mztabfile

The MzTab object to validate.

level

The validation level.

max.errors

The maximum number of errors.

semantic.validation

Whether semantic validation should also be performed.

...

local optional variable arguments

---

Method ValidateMzTabFileWithHttpInfo()

Validate an MzTab file but include HTTP response info.

Usage

ValidateApi$ValidateMzTabFileWithHttpInfo(
  mztabfile,
  level = "info",
  max.errors = 100,
  semantic.validation = FALSE,
  ...
)

Arguments

mztabfile

The MzTab object to validate.

level

The validation level.

max.errors

The maximum number of errors.

semantic.validation

Whether semantic validation should also be performed.

...

local optional variable arguments

---

Method clone()

The objects of this class are cloneable with this method.

Usage

ValidateApi$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.

Examples

if (FALSE) {
####################  ValidateMzTabFile  ####################

library(rmzTabM)
# MzTab | mzTab file that should be validated.
var.mztabfile <- MzTab$new()
# character | The level of errors that should be reported, one of ERROR, WARN, INFO.
var.level <- 'info' 
# integer | The maximum number of errors to return.
var.max.errors <- 100 
# character | Whether a semantic validation against the default rule set should be performed.
var.semantic.validation <- FALSE 

api.instance <- ValidateApi$new()

result <- api.instance$ValidateMzTabFile(var.mztabfile, 
  level=var.level, max.errors=var.max.errors, 
  semantic.validation=var.semantic.validation
)


}