Module: Ms::Mascot::Dat::Query::Utils

Included in:
Ms::Mascot::Dat::Query
Defined in:
lib/ms/mascot/dat/query.rb

Class Method Summary collapse

Class Method Details

.parse_ions(str) ⇒ Object

Parses an ion string into a simple data array. Parse ions requires data points be separated with a comma and mz/intensity values with a semicolon, but is tolerant to integer and floats.

Query.parse_ions('1.23:4.56,7.8:9')     # => [[1.23, 4.56], [7.8, 9]]

All ions are cast to floats; see scan_ions for scanning the string values.



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# File 'lib/ms/mascot/dat/query.rb', line 67

def parse_ions(str)
  ions = []
  current = []

  scan_ions(str) do |num, end_point|
    current << num.to_f
  
    if end_point
      ions << current
      current = []
    end
  end
  ions
end

.scan_ions(str) ⇒ Object

Scans an ion string for values, yielding each number as a string and the a flag signaling whether or not the number marks the end of a datapoint (ie the number is the intensity).

str = "\nReformatted Ions\n"
Query.scan_ions('1.23:4.56,7.8:9') do |num, end_point|
  str << num
  str << (end_point ? "\n" : " ")
end

str
# => %q{
# Reformatted Ions
# 1.23 4.56
# 7.8 9
# }



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# File 'lib/ms/mascot/dat/query.rb', line 47

def scan_ions(str) # :yields: num, end_point
  scanner = StringScanner.new(str)
  while num = scanner.scan(/[^:,]+/)
    if scanner.skip(/:/)
      yield(num, false)
    else
      scanner.skip(/,/)
      yield(num, true)
    end 
  end
end