metamri 0.2.8 → 0.2.9
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- data/.gitignore +9 -0
- data/Rakefile +2 -21
- data/lib/metamri.rb +5 -1
- data/lib/metamri/raw_image_dataset.rb +1 -1
- data/lib/metamri/raw_image_file.rb +1 -1
- data/lib/metamri/version.rb +3 -0
- data/lib/metamri/visit_raw_data_directory.rb +1 -1
- data/metamri.gemspec +18 -145
- metadata +40 -272
- data/Gemfile.lock +0 -52
data/.gitignore
ADDED
data/Rakefile
CHANGED
@@ -3,27 +3,8 @@ require 'rake'
|
|
3
3
|
require 'rdoc/task'
|
4
4
|
require 'rake/testtask'
|
5
5
|
|
6
|
-
|
7
|
-
|
8
|
-
Jeweler::Tasks.new do |gemspec|
|
9
|
-
gemspec.name = "metamri"
|
10
|
-
gemspec.summary = "MRI metadata"
|
11
|
-
gemspec.description = "Extraction of MRI metadata and insertion into compatible sqlite3 databases."
|
12
|
-
gemspec.email = "kk4@medicine.wisc.edu"
|
13
|
-
gemspec.homepage = "http://github.com/brainmap/metamri"
|
14
|
-
gemspec.authors = ["Kristopher J. Kosmatka", "Erik Kastman"]
|
15
|
-
gemspec.add_dependency('sqlite3', '~>1.3.3')
|
16
|
-
gemspec.add_dependency('dicom', '~>0.8.0')
|
17
|
-
gemspec.add_dependency('activeresource', '~>3.0')
|
18
|
-
gemspec.add_dependency('rmagick', '~>2.13.1')
|
19
|
-
gemspec.add_dependency('hirb', '~>0.4')
|
20
|
-
gemspec.add_development_dependency('rspec', '~>2.5')
|
21
|
-
gemspec.add_development_dependency('escoffier')
|
22
|
-
end
|
23
|
-
Jeweler::GemcutterTasks.new
|
24
|
-
rescue LoadError
|
25
|
-
puts "Jeweler not available. Install it with: sudo gem install jeweler"
|
26
|
-
end
|
6
|
+
require 'bundler/gem_tasks'
|
7
|
+
|
27
8
|
|
28
9
|
begin
|
29
10
|
require 'spec/rake/spectask'
|
data/lib/metamri.rb
CHANGED
@@ -22,6 +22,7 @@ require 'metamri/visit_raw_data_directory_resource'
|
|
22
22
|
require 'metamri/image_dataset_quality_check_resource'
|
23
23
|
require 'metamri/dicom_additions'
|
24
24
|
require 'metamri/raw_image_dataset_thumbnail'
|
25
|
+
require 'metamri/version'
|
25
26
|
require 'fileutils'
|
26
27
|
|
27
28
|
# TODO Move raw_image_dataset_thumbnail out of metamri.
|
@@ -32,4 +33,7 @@ rescue LoadError
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|
32
33
|
puts "Hirb must be installed for pretty output. Use 'sudo gem install hirb'"
|
33
34
|
end
|
34
35
|
|
35
|
-
#
|
36
|
+
# Initial Definition of Metamri Namespace
|
37
|
+
# TODO: Metamri is not currently namespaced - this declaration is a teaser
|
38
|
+
# used for updating to Bundler-style gemspec VERSION constant.
|
39
|
+
module Metamri; end
|
data/metamri.gemspec
CHANGED
@@ -1,156 +1,29 @@
|
|
1
|
-
# Generated by jeweler
|
2
|
-
# DO NOT EDIT THIS FILE DIRECTLY
|
3
|
-
# Instead, edit Jeweler::Tasks in Rakefile, and run 'rake gemspec'
|
4
1
|
# -*- encoding: utf-8 -*-
|
2
|
+
$:.push File.expand_path("../lib", __FILE__)
|
3
|
+
require "metamri/version"
|
5
4
|
|
6
5
|
Gem::Specification.new do |s|
|
7
6
|
s.name = %q{metamri}
|
8
|
-
s.version =
|
7
|
+
s.version = Metamri::VERSION
|
9
8
|
|
10
|
-
s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
|
11
9
|
s.authors = ["Kristopher J. Kosmatka", "Erik Kastman"]
|
12
|
-
s.date = %q{2011-07-28}
|
13
|
-
s.description = %q{Extraction of MRI metadata and insertion into compatible sqlite3 databases.}
|
14
|
-
s.email = %q{kk4@medicine.wisc.edu}
|
15
|
-
s.executables = ["convert_visit.rb", "import_visit.rb", "import_respiratory_files.rb", "import_study.rb", "list_visit"]
|
16
|
-
s.extra_rdoc_files = [
|
17
|
-
"README.rdoc"
|
18
|
-
]
|
19
|
-
s.files = [
|
20
|
-
".rspec",
|
21
|
-
"Gemfile",
|
22
|
-
"Gemfile.lock",
|
23
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-
"Manifest",
|
24
|
-
"README.rdoc",
|
25
|
-
"Rakefile",
|
26
|
-
"VERSION",
|
27
|
-
"bin/convert_visit.rb",
|
28
|
-
"bin/import_respiratory_files.rb",
|
29
|
-
"bin/import_study.rb",
|
30
|
-
"bin/import_visit.rb",
|
31
|
-
"bin/list_visit",
|
32
|
-
"lib/metamri.rb",
|
33
|
-
"lib/metamri/core_additions.rb",
|
34
|
-
"lib/metamri/dicom_additions.rb",
|
35
|
-
"lib/metamri/image_dataset_quality_check_resource.rb",
|
36
|
-
"lib/metamri/mysql_tools.rb",
|
37
|
-
"lib/metamri/nifti_builder.rb",
|
38
|
-
"lib/metamri/raw_image_dataset.rb",
|
39
|
-
"lib/metamri/raw_image_dataset_resource.rb",
|
40
|
-
"lib/metamri/raw_image_dataset_thumbnail.rb",
|
41
|
-
"lib/metamri/raw_image_file.rb",
|
42
|
-
"lib/metamri/series_description_parameters.rb",
|
43
|
-
"lib/metamri/visit_raw_data_directory.rb",
|
44
|
-
"lib/metamri/visit_raw_data_directory_resource.rb",
|
45
|
-
"metamri.gemspec",
|
46
|
-
"spec/helper_spec.rb",
|
47
|
-
"spec/unit/dicom_additions_spec.rb",
|
48
|
-
"spec/unit/nifti_builder_spec.rb",
|
49
|
-
"spec/unit/raw_image_dataset_spec.rb",
|
50
|
-
"spec/unit/raw_image_dataset_thumbnail_spec.rb",
|
51
|
-
"spec/unit/raw_image_file_spec.rb",
|
52
|
-
"test/fixtures/respiratory_fixtures.yaml",
|
53
|
-
"test/fixtures/s03_bravo.0156",
|
54
|
-
"test/fixtures/s03_bravo.0156.yml",
|
55
|
-
"test/fixtures/thumbnail.png",
|
56
|
-
"test/fixtures/thumbnail_slicer.png",
|
57
|
-
"test/raw_image_dataset_test.rb",
|
58
|
-
"test/raw_image_file_test.rb",
|
59
|
-
"test/test_helper.rb",
|
60
|
-
"test/visit_duplication_test.rb",
|
61
|
-
"test/visit_test.rb"
|
62
|
-
]
|
63
|
-
s.homepage = %q{http://github.com/brainmap/metamri}
|
64
|
-
s.require_paths = ["lib"]
|
65
|
-
s.rubygems_version = %q{1.4.2}
|
66
10
|
s.summary = %q{MRI metadata}
|
67
|
-
s.
|
68
|
-
|
69
|
-
|
70
|
-
"spec/unit/nifti_builder_spec.rb",
|
71
|
-
"spec/unit/raw_image_dataset_spec.rb",
|
72
|
-
"spec/unit/raw_image_dataset_thumbnail_spec.rb",
|
73
|
-
"spec/unit/raw_image_file_spec.rb",
|
74
|
-
"test/raw_image_dataset_test.rb",
|
75
|
-
"test/raw_image_file_test.rb",
|
76
|
-
"test/test_helper.rb",
|
77
|
-
"test/visit_duplication_test.rb",
|
78
|
-
"test/visit_test.rb"
|
79
|
-
]
|
11
|
+
s.description = %q{Extraction of MRI metadata.}
|
12
|
+
s.email = %q{ekk@medicine.wisc.edu}
|
13
|
+
s.homepage = %q{http://github.com/brainmap/metamri}
|
80
14
|
|
81
|
-
|
82
|
-
|
15
|
+
s.files = `git ls-files`.split("\n")
|
16
|
+
s.test_files = `git ls-files -- {test,spec,features}/*`.split("\n")
|
17
|
+
s.executables = `git ls-files -- bin/*`.split("\n").map{ |f| File.basename(f) }
|
18
|
+
s.require_paths = ["lib"]
|
83
19
|
|
84
|
-
|
85
|
-
|
86
|
-
|
87
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-
|
88
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-
|
89
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-
|
90
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-
|
91
|
-
|
92
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-
s.add_development_dependency(%q<rspec>, ["~> 2.5"])
|
93
|
-
s.add_development_dependency(%q<rspec>, ["~> 2.5"])
|
94
|
-
s.add_development_dependency(%q<rspec>, ["~> 2.5"])
|
95
|
-
s.add_development_dependency(%q<rspec>, ["~> 2.5"])
|
96
|
-
s.add_development_dependency(%q<rspec>, ["~> 2.5"])
|
97
|
-
s.add_development_dependency(%q<escoffier>, [">= 0"])
|
98
|
-
s.add_development_dependency(%q<rspec>, ["~> 2.5"])
|
99
|
-
s.add_development_dependency(%q<escoffier>, [">= 0"])
|
100
|
-
s.add_runtime_dependency(%q<sqlite3>, ["~> 1.3.3"])
|
101
|
-
s.add_runtime_dependency(%q<dicom>, ["~> 0.8.0"])
|
102
|
-
s.add_runtime_dependency(%q<activeresource>, ["~> 3.0"])
|
103
|
-
s.add_runtime_dependency(%q<rmagick>, ["~> 2.13.1"])
|
104
|
-
s.add_runtime_dependency(%q<hirb>, ["~> 0.4"])
|
105
|
-
s.add_development_dependency(%q<rspec>, ["~> 2.5"])
|
106
|
-
s.add_development_dependency(%q<escoffier>, [">= 0"])
|
107
|
-
else
|
108
|
-
s.add_dependency(%q<metamri>, [">= 0"])
|
109
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
110
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
111
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
112
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
113
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
114
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
115
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
116
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
117
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
118
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
119
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
120
|
-
s.add_dependency(%q<escoffier>, [">= 0"])
|
121
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
122
|
-
s.add_dependency(%q<escoffier>, [">= 0"])
|
123
|
-
s.add_dependency(%q<sqlite3>, ["~> 1.3.3"])
|
124
|
-
s.add_dependency(%q<dicom>, ["~> 0.8.0"])
|
125
|
-
s.add_dependency(%q<activeresource>, ["~> 3.0"])
|
126
|
-
s.add_dependency(%q<rmagick>, ["~> 2.13.1"])
|
127
|
-
s.add_dependency(%q<hirb>, ["~> 0.4"])
|
128
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
129
|
-
s.add_dependency(%q<escoffier>, [">= 0"])
|
130
|
-
end
|
131
|
-
else
|
132
|
-
s.add_dependency(%q<metamri>, [">= 0"])
|
133
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
134
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
135
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
136
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
137
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
138
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
139
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
140
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
141
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
142
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
143
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
144
|
-
s.add_dependency(%q<escoffier>, [">= 0"])
|
145
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
146
|
-
s.add_dependency(%q<escoffier>, [">= 0"])
|
147
|
-
s.add_dependency(%q<sqlite3>, ["~> 1.3.3"])
|
148
|
-
s.add_dependency(%q<dicom>, ["~> 0.8.0"])
|
149
|
-
s.add_dependency(%q<activeresource>, ["~> 3.0"])
|
150
|
-
s.add_dependency(%q<rmagick>, ["~> 2.13.1"])
|
151
|
-
s.add_dependency(%q<hirb>, ["~> 0.4"])
|
152
|
-
s.add_dependency(%q<rspec>, ["~> 2.5"])
|
153
|
-
s.add_dependency(%q<escoffier>, [">= 0"])
|
154
|
-
end
|
20
|
+
s.add_runtime_dependency('dicom', "~> 0.8.0")
|
21
|
+
s.add_runtime_dependency('activeresource', "~> 3.0")
|
22
|
+
s.add_runtime_dependency('rmagick', "~> 2.13.1")
|
23
|
+
s.add_runtime_dependency('hirb', "~> 0.4")
|
24
|
+
|
25
|
+
s.add_development_dependency('rspec', "~> 2.5")
|
26
|
+
s.add_development_dependency('escoffier', ">= 0")
|
27
|
+
|
155
28
|
end
|
156
29
|
|
metadata
CHANGED
@@ -1,13 +1,13 @@
|
|
1
1
|
--- !ruby/object:Gem::Specification
|
2
2
|
name: metamri
|
3
3
|
version: !ruby/object:Gem::Version
|
4
|
-
hash:
|
4
|
+
hash: 5
|
5
5
|
prerelease:
|
6
6
|
segments:
|
7
7
|
- 0
|
8
8
|
- 2
|
9
|
-
-
|
10
|
-
version: 0.2.
|
9
|
+
- 9
|
10
|
+
version: 0.2.9
|
11
11
|
platform: ruby
|
12
12
|
authors:
|
13
13
|
- Kristopher J. Kosmatka
|
@@ -16,252 +16,13 @@ autorequire:
|
|
16
16
|
bindir: bin
|
17
17
|
cert_chain: []
|
18
18
|
|
19
|
-
date: 2011-
|
19
|
+
date: 2011-08-18 00:00:00 -05:00
|
20
20
|
default_executable:
|
21
21
|
dependencies:
|
22
22
|
- !ruby/object:Gem::Dependency
|
23
|
-
prerelease: false
|
24
|
-
name: metamri
|
25
|
-
type: :runtime
|
26
|
-
version_requirements: &id001 !ruby/object:Gem::Requirement
|
27
|
-
none: false
|
28
|
-
requirements:
|
29
|
-
- - ">="
|
30
|
-
- !ruby/object:Gem::Version
|
31
|
-
hash: 3
|
32
|
-
segments:
|
33
|
-
- 0
|
34
|
-
version: "0"
|
35
|
-
requirement: *id001
|
36
|
-
- !ruby/object:Gem::Dependency
|
37
|
-
prerelease: false
|
38
|
-
name: rspec
|
39
|
-
type: :development
|
40
|
-
version_requirements: &id002 !ruby/object:Gem::Requirement
|
41
|
-
none: false
|
42
|
-
requirements:
|
43
|
-
- - ~>
|
44
|
-
- !ruby/object:Gem::Version
|
45
|
-
hash: 9
|
46
|
-
segments:
|
47
|
-
- 2
|
48
|
-
- 5
|
49
|
-
version: "2.5"
|
50
|
-
requirement: *id002
|
51
|
-
- !ruby/object:Gem::Dependency
|
52
|
-
prerelease: false
|
53
|
-
name: rspec
|
54
|
-
type: :development
|
55
|
-
version_requirements: &id003 !ruby/object:Gem::Requirement
|
56
|
-
none: false
|
57
|
-
requirements:
|
58
|
-
- - ~>
|
59
|
-
- !ruby/object:Gem::Version
|
60
|
-
hash: 9
|
61
|
-
segments:
|
62
|
-
- 2
|
63
|
-
- 5
|
64
|
-
version: "2.5"
|
65
|
-
requirement: *id003
|
66
|
-
- !ruby/object:Gem::Dependency
|
67
|
-
prerelease: false
|
68
|
-
name: rspec
|
69
|
-
type: :development
|
70
|
-
version_requirements: &id004 !ruby/object:Gem::Requirement
|
71
|
-
none: false
|
72
|
-
requirements:
|
73
|
-
- - ~>
|
74
|
-
- !ruby/object:Gem::Version
|
75
|
-
hash: 9
|
76
|
-
segments:
|
77
|
-
- 2
|
78
|
-
- 5
|
79
|
-
version: "2.5"
|
80
|
-
requirement: *id004
|
81
|
-
- !ruby/object:Gem::Dependency
|
82
|
-
prerelease: false
|
83
|
-
name: rspec
|
84
|
-
type: :development
|
85
|
-
version_requirements: &id005 !ruby/object:Gem::Requirement
|
86
|
-
none: false
|
87
|
-
requirements:
|
88
|
-
- - ~>
|
89
|
-
- !ruby/object:Gem::Version
|
90
|
-
hash: 9
|
91
|
-
segments:
|
92
|
-
- 2
|
93
|
-
- 5
|
94
|
-
version: "2.5"
|
95
|
-
requirement: *id005
|
96
|
-
- !ruby/object:Gem::Dependency
|
97
|
-
prerelease: false
|
98
|
-
name: rspec
|
99
|
-
type: :development
|
100
|
-
version_requirements: &id006 !ruby/object:Gem::Requirement
|
101
|
-
none: false
|
102
|
-
requirements:
|
103
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