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Question: What causes the error "Failed Validation"?

Topic: caArray Usage

Release: caArray 2.0 and above

Date entered: 04/20/2009

Details about the Question

I was importing MAGE-TAB array data files and related annotation files, but my .srdf file received an error message as "Failed Validation". Why?


In caArray, many types of files can be uploaded, but not all files can be validated. The validation process is only for the data files associated with experimental samples, such as: array design files, array data files, and array annotation files ( caArray 014 - Which files can be uploaded into caArray?). The validation process may occur implicitly (array design file) or explicitly (all other array-related annotation or data files).

File validation verifies if the data content adheres to a certain format. It does not evaluate the accuracy of the data from scientific viewpoint. A validation error can be structural or content-based. Validation can fail for one or more of the following reasons:

  • Format unknown (Errors are based on file extension and array type)
  • Reference file not found (e.g. array data file is listed in MAGE-TAB .SDRF, but not uploaded)
  • File incomplete
  • Vocabulary failure (annotation terms has to be in supported ontology and declared in .IDF file)

If a file fails to be validated, this file can not be imported into caArray, unless the:

  1. Error is fixed
  2. Validation process is bypassed by changing file type
  3. Import process is bypassed by uploading the file as a supplemental file

For more information on how files are uploaded into caArray, see caArray 017 - What is the meaning of the caArray Status of Importing - Imported versus Imported Not Parsed?, caArray Status of Importing: Imported and Imported Not Parsed.

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