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Applicable Releases:</strong> caArray 2.0 and above

<strong>Date entered:</strong> 04/20/2009

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caArray Usage

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question}}Question: caArray's File Validation {{questionEnd
I was importing MAGE-TAB array data files and related annotation files, but my .srdf file received an error message as "Failed Validation". Why?

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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 (Which Files Can Be Uploaded into caArray?). The validation process may occurs 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 is failed to be validated, this file would not be able to be imported into caArray, unless:

  1. Error is fixed
  2. Bypass the validation process by changing file type.
  3. Bypass the import process by uploading the file as a supplemental file.

For more information on how files are uploaded into caArray, see caArray Status of Importing: Imported and Imported Not Parsed

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