pgb_liv\php_ms\Utility\Misc\MzMlMerge

Performs the merging of two or more MzML files into a single MzML file.

Note this class is built for speed and does not correctly validate all fields.

Synopsis

class MzMlMerge {
}

Coverage

Methods 0% 0 / 9
Lines 0% 0 / 184

Violations

PHPMessDetector

Line Rule Message
126 - 185 CyclomaticComplexity The method analyseFile() has a Cyclomatic Complexity of 13. The configured cyclomatic complexity threshold is 10.
258 - 332 CyclomaticComplexity The method writeSpectrum() has a Cyclomatic Complexity of 12. The configured cyclomatic complexity threshold is 10.

Checkstyle

Line Column Severity Message
167 17 error Opening parenthesis of a multi-line function call must be the last content on the line
167 115 error Only one argument is allowed per line in a multi-line function call
167 121 warning Line exceeds 120 characters; contains 121 characters
167 121 error Whitespace found at end of line
168 1 error Multi-line function call not indented correctly; expected 12 spaces but found 16
168 25 error Closing parenthesis of a multi-line function call must be on a line by itself
205 24 error Opening parenthesis of a multi-line function call must be the last content on the line
205 53 error Only one argument is allowed per line in a multi-line function call
205 84 error Whitespace found at end of line
206 1 error Multi-line function call not indented correctly; expected 16 spaces but found 20
206 59 error Closing parenthesis of a multi-line function call must be on a line by itself
311 17 error Opening parenthesis of a multi-line function call must be the last content on the line
311 115 error Only one argument is allowed per line in a multi-line function call
311 121 warning Line exceeds 120 characters; contains 121 characters
311 121 error Whitespace found at end of line
312 1 error Multi-line function call not indented correctly; expected 12 spaces but found 16
312 25 error Closing parenthesis of a multi-line function call must be on a line by itself

Tasks

Line Task
86 Validate input and output
192 verify analysis phase run

Members

private

  • $dataFiles
  • $fractionOffsets
  • $idOffset
  • $indexOffset
  • $outputFiles
  • $paddingBetweenScans — integer
    The number of seconds that should be used as padding between scans.
  • $spectrumCount
  • $spectrumIdRef
  • $timeOffset

Methods

private

public

History