dicom 0.9.3 → 0.9.4
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- data/CHANGELOG.rdoc +312 -290
- data/COPYING +674 -674
- data/Gemfile +3 -0
- data/dicom.gemspec +31 -0
- data/lib/dicom.rb +53 -51
- data/lib/dicom/anonymizer.rb +98 -123
- data/lib/dicom/audit_trail.rb +104 -116
- data/lib/dicom/constants.rb +219 -170
- data/lib/dicom/d_client.rb +122 -150
- data/lib/dicom/d_library.rb +219 -287
- data/lib/dicom/d_object.rb +451 -539
- data/lib/dicom/d_read.rb +151 -245
- data/lib/dicom/d_server.rb +329 -359
- data/lib/dicom/d_write.rb +327 -395
- data/lib/dicom/deprecated.rb +1 -72
- data/lib/dicom/dictionary/elements.txt +3646 -0
- data/lib/dicom/dictionary/uids.txt +334 -0
- data/lib/dicom/dictionary_element.rb +61 -0
- data/lib/dicom/element.rb +278 -218
- data/lib/dicom/elemental.rb +21 -27
- data/lib/dicom/file_handler.rb +121 -121
- data/lib/dicom/image_item.rb +819 -861
- data/lib/dicom/image_processor.rb +24 -15
- data/lib/dicom/image_processor_mini_magick.rb +21 -23
- data/lib/dicom/image_processor_r_magick.rb +39 -34
- data/lib/dicom/item.rb +133 -120
- data/lib/dicom/link.rb +1531 -1532
- data/lib/dicom/logging.rb +155 -158
- data/lib/dicom/parent.rb +782 -847
- data/lib/dicom/ruby_extensions.rb +248 -229
- data/lib/dicom/sequence.rb +109 -92
- data/lib/dicom/stream.rb +480 -511
- data/lib/dicom/uid.rb +82 -0
- data/lib/dicom/variables.rb +9 -9
- data/lib/dicom/version.rb +5 -5
- data/rakefile.rb +29 -0
- metadata +130 -76
- data/lib/dicom/dictionary.rb +0 -3280
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# encoding: UTF-8
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# This file contains extensions to the Ruby library which are used by Ruby DICOM.
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# Extension to the String class. These
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# A tag string (as used by the
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# (where G represents a group hexadecimal, and E represents an element hexadecimal).
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#
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class String
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# Renames the original unpack method.
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#
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alias __original_unpack__ unpack
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#
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def dicom_titleize
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self.dicom_underscore.gsub(/_/,
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end
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# Makes an underscored,
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word.
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word
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when
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return self.collect {|i| i
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# encoding: UTF-8
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# This file contains extensions to the Ruby library which are used by Ruby DICOM.
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# Extension to the String class. These mainly facilitate the processing and analysis of element tags.
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# A tag string (as used by the ruby-dicom library) is 9 characters long and of the form 'GGGG,EEEE'
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# (where G represents a group hexadecimal, and E represents an element hexadecimal).
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#
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class String
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# Renames the original unpack method.
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#
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alias __original_unpack__ unpack
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# Checks if a string value LOOKS like a DICOM name - it may still not be valid one.
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#
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# @return [Boolean] true if a string looks like a DICOM name, and false if not
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#
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def dicom_name?
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self == self.dicom_titleize
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end
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# Checks if a string value LOOKS like a DICOM method name - it may still not be valid one.
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#
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# @return [Boolean] true if a string looks like a DICOM method name, and false if not
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#
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def dicom_method?
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self == self.dicom_underscore
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end
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# Capitalizes all the words in the string and replaces some characters to make a nicer looking title.
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#
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# @return [String] a formatted, capitalized string
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#
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def dicom_titleize
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self.dicom_underscore.gsub(/_/, ' ').gsub(/\b('?[a-z])/) { $1.capitalize }
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end
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# Makes an underscored, lowercased version of the string.
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#
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# @return [String] an underscored, lower case string
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#
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def dicom_underscore
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word = self.dup
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word.tr!('-', '_')
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word.downcase!
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word
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end
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# Divides a string into a number of sub-strings of exactly equal length.
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#
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# @note The length of self must be a multiple of parts, or an exception will be raised.
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# @param [Integer] parts the number of sub-strings to create
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# @return [Array<String>] the divided sub-strings
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#
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def divide(parts)
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raise ArgumentError, "Expected an integer (Fixnum). Got #{parts.class}." unless parts.is_a?(Fixnum)
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raise ArgumentError, "Argument must be in the range <1 - self.length (#{self.length})>. Got #{parts}." if parts < 1 or parts > self.length
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raise ArgumentError, "Length of self (#{self.length}) must be a multiple of parts (#{parts})." unless (self.length/parts).to_f == self.length/parts.to_f
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if parts > 1
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sub_strings = Array.new
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sub_length = self.length/parts
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parts.times { sub_strings << self.slice!(0..(sub_length-1)) }
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return sub_strings
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else
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return [self]
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end
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end
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# Extracts the element part of the tag string: The last 4 characters.
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#
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# @return [String] the element part of the tag
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#
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def element
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return self[5..8]
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end
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# Returns the group part of the tag string: The first 4 characters.
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#
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# @return [String] the group part of the tag
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#
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def group
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return self[0..3]
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end
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# Returns the "Group Length" ('GGGG,0000') tag which corresponds to the original tag/group string.
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# The original string may either be a 4 character group string, or a 9 character custom tag.
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#
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# @return [String] a group length tag
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#
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def group_length
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if self.length == 4
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return self + ',0000'
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else
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return self.group + ',0000'
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end
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end
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# Checks if the string is a "Group Length" tag (its element part is '0000').
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#
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# @return [Boolean] true if it is a group length tag, and false if not
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#
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def group_length?
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return (self.element == '0000' ? true : false)
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end
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# Checks if the string is a private tag (has an odd group number).
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#
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# @return [Boolean] true if it is a private tag, and false if not
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#
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def private?
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return ((self.upcase =~ /\A\h{3}[1,3,5,7,9,B,D,F],\h{4}\z/) == nil ? false : true)
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end
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# Checks if the string is a valid tag (as defined by ruby-dicom: 'GGGG,EEEE').
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#
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# @return [Boolean] true if it is a valid tag, and false if not
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#
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def tag?
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# Test that the string is composed of exactly 4 HEX characters, followed by a comma, then 4 more HEX characters:
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return ((self.upcase =~ /\A\h{4},\h{4}\z/) == nil ? false : true)
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end
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# Converts the string to a proper DICOM element method name symbol.
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#
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# @return [Symbol] a DICOM element method name
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#
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def to_element_method
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self.gsub(/^3/,'three_').gsub(/[#*?!]/,' ').gsub(', ',' ').gsub('&','and').gsub(' - ','_').gsub(' / ','_').gsub(/[\s\-\.\,\/\\]/,'_').gsub(/[\(\)\']/,'').gsub(/\_+/, '_').downcase.to_sym
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end
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# Redefines the core library unpack method, adding
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# the ability to decode signed integers in big endian.
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#
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# @param [String] format a format string which decides the decoding scheme to use
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# @return [Array<String, Integer, Float>] the decoded values
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#
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def unpack(format)
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# Check for some custom unpack strings that we've invented:
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case format
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when "k*" # SS
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# Unpack BE US, repack LE US, then finally unpack LE SS:
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wrongly_unpacked = self.__original_unpack__('n*')
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repacked = wrongly_unpacked.__original_pack__('S*')
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correct = repacked.__original_unpack__('s*')
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when 'r*' # SL
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# Unpack BE UL, repack LE UL, then finally unpack LE SL:
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wrongly_unpacked = self.__original_unpack__('N*')
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repacked = wrongly_unpacked.__original_pack__('I*')
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correct = repacked.__original_unpack__('l*')
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else
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# Call the original method for all other (normal) cases:
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self.__original_unpack__(format)
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end
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end
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end
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# Extensions to the Array class.
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# These mainly deal with encoding integer arrays as well as conversion between
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# signed and unsigned integers.
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#
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class Array
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# Renames the original pack method.
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#
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alias __original_pack__ pack
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# Redefines the old pack method, adding the ability to encode signed integers in big endian
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# (which surprisingly has not been supported out of the box in Ruby until version 1.9.3).
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#
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# @param [String] format a format string which decides the encoding scheme to use
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# @return [String] the encoded binary string
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#
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def pack(format)
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# FIXME: At some time in the future, when Ruby 1.9.3 can be set as required ruby version,
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# this custom pack (as well as unpack) method can be discarded, and the desired endian
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# encodings can probably be achieved with the new template strings introduced in 1.9.3.
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#
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# Check for some custom pack strings that we've invented:
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case format
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when 'k*' # SS
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# Pack LE SS, re-unpack as LE US, then finally pack BE US:
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wrongly_packed = self.__original_pack__('s*')
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reunpacked = wrongly_packed.__original_unpack__('S*')
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correct = reunpacked.__original_pack__('n*')
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when 'r*' # SL
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# Pack LE SL, re-unpack as LE UL, then finally pack BE UL:
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wrongly_packed = self.__original_pack__('l*')
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reunpacked = wrongly_packed.__original_unpack__('I*')
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correct = reunpacked.__original_pack__('N*')
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else
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# Call the original method for all other (normal) cases:
|
195
|
+
self.__original_pack__(format)
|
196
|
+
end
|
197
|
+
end
|
198
|
+
|
199
|
+
# Packs an array of (unsigned) integers to a binary string (blob).
|
200
|
+
#
|
201
|
+
# @param [Integer] depth the bit depth to be used when encoding the unsigned integers
|
202
|
+
# @return [String] an encoded binary string
|
203
|
+
#
|
204
|
+
def to_blob(depth)
|
205
|
+
raise ArgumentError, "Expected Integer, got #{depth.class}" unless depth.is_a?(Integer)
|
206
|
+
raise ArgumentError, "Unsupported bit depth #{depth}." unless [8,16].include?(depth)
|
207
|
+
case depth
|
208
|
+
when 8
|
209
|
+
return self.pack('C*') # Unsigned char
|
210
|
+
when 16
|
211
|
+
return self.pack('S*') # Unsigned short, native byte order
|
212
|
+
end
|
213
|
+
end
|
214
|
+
|
215
|
+
# Shifts the integer values of the array to make a signed data set.
|
216
|
+
# The size of the shift is determined by the given bit depth.
|
217
|
+
#
|
218
|
+
# @param [Integer] depth the bit depth of the integers
|
219
|
+
# @return [Array<Integer>] an array of signed integers
|
220
|
+
#
|
221
|
+
def to_signed(depth)
|
222
|
+
raise ArgumentError, "Expected Integer, got #{depth.class}" unless depth.is_a?(Integer)
|
223
|
+
raise ArgumentError, "Unsupported bit depth #{depth}." unless [8,16].include?(depth)
|
224
|
+
case depth
|
225
|
+
when 8
|
226
|
+
return self.collect {|i| i - 128}
|
227
|
+
when 16
|
228
|
+
return self.collect {|i| i - 32768}
|
229
|
+
end
|
230
|
+
end
|
231
|
+
|
232
|
+
# Shifts the integer values of the array to make an unsigned data set.
|
233
|
+
# The size of the shift is determined by the given bit depth.
|
234
|
+
#
|
235
|
+
# @param [Integer] depth the bit depth of the integers
|
236
|
+
# @return [Array<Integer>] an array of unsigned integers
|
237
|
+
#
|
238
|
+
def to_unsigned(depth)
|
239
|
+
raise ArgumentError, "Expected Integer, got #{depth.class}" unless depth.is_a?(Integer)
|
240
|
+
raise ArgumentError, "Unsupported bit depth #{depth}." unless [8,16].include?(depth)
|
241
|
+
case depth
|
242
|
+
when 8
|
243
|
+
return self.collect {|i| i + 128}
|
244
|
+
when 16
|
245
|
+
return self.collect {|i| i + 32768}
|
246
|
+
end
|
247
|
+
end
|
248
|
+
|
230
249
|
end
|