metamri 0.1.23 → 0.2.0

data/test/raw_image_file_test.rb

@@ -1,23 +1,24 @@
 # To change this template, choose Tools | Templates
 # and open the template in the editor.
 
-$:.unshift File.join(File.dirname(__FILE__),'..','lib')
+require 'test_helper'
 
 require 'test/unit'
 require 'metamri/raw_image_file'
 
 class RawImageFileTest < Test::Unit::TestCase
   def setup
-    # @GE_IFile = 'fixtures/I.001'
-    # @Dicom = 'fixtures/S4_EFGRE3D.0001'
-    # @EarlyGEPfile = 'fixtures/P59392.7'
-    # @LateGEPfile = 'fixtures/P27648.7'
-    # @notafile = 'fixtures/XXX.XXX'
-    # @ged = RawImageFile.new(@GE_IFile)
-    # @did = RawImageFile.new(@Dicom)
-    # @egep = RawImageFile.new(@EarlyGEPfile)
-    # @lgep = RawImageFile.new(@LateGEPfile)
-    @RubyDicom = 'fixtures/s03_bravo.0156'
+    @GE_IFile = File.join($MRI_DATA), 'test_fixtures/I.001'
+    @Dicom = File.join($MRI_DATA), 'test_fixtures/S4_EFGRE3D.0001'
+    @EarlyGEPfile = File.join($MRI_DATA), 'test_fixtures/P59392.7'
+    @LateGEPfile = File.join($MRI_DATA), 'test_fixtures/P27648.7'
+    @GEX750Dicom = File.join($MRI_DATA), 'test_fixtures/s03_bravo.0156'
+    @notafile = File.join($MRI_DATA), 'test_fixtures/XXX.XXX'
+    @ged = RawImageFile.new(@GE_IFile)
+    @did = RawImageFile.new(@Dicom)
+    @egep = RawImageFile.new(@EarlyGEPfile)
+    @lgep = RawImageFile.new(@LateGEPfile)
+
   end
 
   def test_gehdr_dicom_init
@@ -32,7 +33,7 @@ class RawImageFileTest < Test::Unit::TestCase
   end
   def test_rubydicom_dicom_init
     assert_nothing_raised do
-      RawImageFile.new(@RubyDicom)
+      RawImageFile.new(@GEX750Dicom)
     end
   end
   def test_early_gehdr_pfile_init

data/test/test_helper.rb

@@ -0,0 +1,2 @@
+$LOAD_PATH.unshift(File.join(File.dirname(__FILE__), '..', 'lib'))
+$MRI_DATA = ENV['MRI_DATA'] || '/Data/vtrak1/raw/test/fixtures/metamri'

metadata

@@ -4,9 +4,9 @@ version: !ruby/object:Gem::Version
   prerelease: false
   segments: 
   - 0
-  - 1
-  - 23
-  version: 0.1.23
+  - 2
+  - 0
+  version: 0.2.0
 platform: ruby
 authors: 
 - Kristopher J. Kosmatka
@@ -14,7 +14,7 @@ autorequire:
 bindir: bin
 cert_chain: []
 
-date: 2010-11-16 00:00:00 -06:00
+date: 2010-11-19 00:00:00 -06:00
 default_executable: 
 dependencies: 
 - !ruby/object:Gem::Dependency 
@@ -56,17 +56,16 @@ dependencies:
 description: Extraction of MRI metadata and insertion into compatible sqlite3 databases.
 email: kk4@medicine.wisc.edu
 executables: 
-- import_study.rb
+- convert_visit.rb
 - import_visit.rb
 - import_respiratory_files.rb
+- import_study.rb
 - list_visit
-- convert_visit.rb
 extensions: []
 
 extra_rdoc_files: 
 - README.rdoc
 files: 
-- .gitignore
 - Manifest
 - README.rdoc
 - Rakefile
@@ -78,6 +77,7 @@ files:
 - bin/list_visit
 - lib/metamri.rb
 - lib/metamri/core_additions.rb
+- lib/metamri/image_dataset_quality_check_resource.rb
 - lib/metamri/mysql_tools.rb
 - lib/metamri/nifti_builder.rb
 - lib/metamri/raw_image_dataset.rb
@@ -88,15 +88,19 @@ files:
 - lib/metamri/visit_raw_data_directory.rb
 - lib/metamri/visit_raw_data_directory_resource.rb
 - metamri.gemspec
+- spec/helper_spec.rb
+- spec/unit/nifti_builder_spec.rb
+- spec/unit/raw_image_dataset_spec.rb
+- spec/unit/raw_image_dataset_thumbnail_spec.rb
+- spec/unit/raw_image_file_spec.rb
 - test/fixtures/respiratory_fixtures.yaml
 - test/fixtures/s03_bravo.0156
+- test/fixtures/s03_bravo.0156.yml
 - test/fixtures/thumbnail.png
 - test/fixtures/thumbnail_slicer.png
-- test/helper_spec.rb
-- test/nifti_builder_spec.rb
 - test/raw_image_dataset_test.rb
-- test/raw_image_dataset_thumbnail_spec.rb
 - test/raw_image_file_test.rb
+- test/test_helper.rb
 - test/visit_duplication_test.rb
 - test/visit_test.rb
 has_rdoc: true
@@ -104,8 +108,8 @@ homepage: http://github.com/brainmap/metamri
 licenses: []
 
 post_install_message: 
-rdoc_options: 
-- --charset=UTF-8
+rdoc_options: []
+
 require_paths: 
 - lib
 required_ruby_version: !ruby/object:Gem::Requirement 
@@ -130,10 +134,13 @@ signing_key:
 specification_version: 3
 summary: MRI metadata
 test_files: 
-- test/nifti_builder_spec.rb
+- spec/helper_spec.rb
+- spec/unit/nifti_builder_spec.rb
+- spec/unit/raw_image_dataset_spec.rb
+- spec/unit/raw_image_dataset_thumbnail_spec.rb
+- spec/unit/raw_image_file_spec.rb
 - test/raw_image_dataset_test.rb
 - test/raw_image_file_test.rb
+- test/test_helper.rb
 - test/visit_duplication_test.rb
 - test/visit_test.rb
-- test/raw_image_dataset_thumbnail_spec.rb
-- test/helper_spec.rb

data/.gitignore

@@ -1,7 +0,0 @@
-*.log
-*.gem
-._*
-.idea
-*~
-test/fixtures/visit_raw_data_directory
-doc/*