imzml 0.1.1 → 0.1.4
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- checksums.yaml +4 -4
- data/lib/imzml/metadata/run/spectrum.rb +7 -35
- data/lib/imzml/version.rb +1 -1
- metadata +2 -2
checksums.yaml
CHANGED
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@@ -1,7 +1,7 @@
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|
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1
1
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---
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2
2
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SHA1:
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3
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-
metadata.gz:
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4
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-
data.tar.gz:
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|
3
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+
metadata.gz: c52da2783768c7aa8c665b2cee9fe78abc5d5b3a
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4
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+
data.tar.gz: 5cc44fda48e8f4098197b170fe48c4a1b369283d
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5
5
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SHA512:
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6
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-
metadata.gz:
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|
7
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-
data.tar.gz:
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6
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+
metadata.gz: 216c0b0d091f68511c0184130a89f01c9bd29228875c39f39927ac9ad5dc1dbd05fa577c3e63fb170c04b74e5f6d1760b138d14b7afc64a6928776e7146beef9
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7
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+
data.tar.gz: eb0f16e382adb599f20fdc949c16851d2778bf236103c5fc1fd701a867ec9910304504c6da55be3908ffc8a759771f8cd66b355f5080d3bdcdcfd28eb8680cea
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@@ -36,8 +36,8 @@ module ImzML
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36
36
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# Binary values type [:int8, :int16, :int32, :int64, :float32, :float64]
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|
37
37
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attr_accessor :type
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38
38
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|
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39
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-
#
|
|
40
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-
def data(cached =
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|
39
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+
# Grabs the actual binary data from disk
|
|
40
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+
def data(cached = false)
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41
41
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42
42
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# Return the data from the cache
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43
43
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return @cached_data if cached && !@cached_data.nil?
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@@ -65,7 +65,11 @@ module ImzML
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|
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65
65
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data = IO.binread(@filepath, @encoded_length.to_i, @offset.to_i).unpack("#{pattern}*")
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|
66
66
|
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67
67
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# Save data only if user want's to cache it, saving take some CPU
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|
68
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-
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|
68
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+
if cached
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|
69
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+
@cached_data = data
|
|
70
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+
else
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|
71
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+
data
|
|
72
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+
end
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|
69
73
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end
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|
70
74
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|
|
71
75
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private
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@@ -91,38 +95,6 @@ module ImzML
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|
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91
95
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# Represented by class BinaryData
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|
92
96
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attr_accessor :intensity_binary
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|
93
97
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|
|
94
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-
def intensity(at, interval)
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|
95
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-
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|
96
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-
# read whole the binary data
|
|
97
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-
mz_array = mz_binary.data
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|
98
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-
intensity_array = intensity_binary.data
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|
99
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-
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|
100
|
-
default_from, default_to = mz_array.first, mz_array.first
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|
101
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-
|
|
102
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-
from = default_from
|
|
103
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-
to = default_to
|
|
104
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-
|
|
105
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-
# find designated intensity
|
|
106
|
-
if at
|
|
107
|
-
from = at - interval
|
|
108
|
-
from = default_from if from < 0
|
|
109
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-
to = at + interval
|
|
110
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-
to = default_to if to > mz_array.last
|
|
111
|
-
end
|
|
112
|
-
|
|
113
|
-
# find values in mz array
|
|
114
|
-
low_value = mz_array.bsearch { |x| x >= from }
|
|
115
|
-
low_index = mz_array.index(low_value)
|
|
116
|
-
high_value = mz_array.bsearch { |x| x >= to }
|
|
117
|
-
high_index = mz_array.index(high_value)
|
|
118
|
-
|
|
119
|
-
# sum all values in subarray
|
|
120
|
-
sum = intensity_array[low_index..high_index].inject{|sum, x| sum + x}
|
|
121
|
-
|
|
122
|
-
sum
|
|
123
|
-
end
|
|
124
|
-
|
|
125
|
-
|
|
126
98
|
end
|
|
127
99
|
|
|
128
100
|
end
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data/lib/imzml/version.rb
CHANGED
metadata
CHANGED
|
@@ -1,14 +1,14 @@
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|
|
1
1
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--- !ruby/object:Gem::Specification
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|
2
2
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name: imzml
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|
3
3
|
version: !ruby/object:Gem::Version
|
|
4
|
-
version: 0.1.
|
|
4
|
+
version: 0.1.4
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|
5
5
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platform: ruby
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|
6
6
|
authors:
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|
7
7
|
- Ondra Beneš
|
|
8
8
|
autorequire:
|
|
9
9
|
bindir: bin
|
|
10
10
|
cert_chain: []
|
|
11
|
-
date: 2014-05-
|
|
11
|
+
date: 2014-05-25 00:00:00.000000000 Z
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|
12
12
|
dependencies:
|
|
13
13
|
- !ruby/object:Gem::Dependency
|
|
14
14
|
name: minitest
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