preprocess_collection_test.rb in macroape-4.1.0

- old
+ new
@@ -1,65 +1,56 @@
-require_relative 'test_helper'
-require 'yaml'
-
-# Don't use YAML.load_file() instead of YAML.load(File.read()) because in ruby before v1.9.3 p194
-# it doesn't immediately release file descriptor (if I understood error right way) so File.delete fails
-
-class TestPreprocessCollection < Test::Unit::TestCase
-  def setup
-    @start_dir = Dir.pwd
-    Dir.chdir File.join(File.dirname(__FILE__), 'data')
-  end
-  def teardown
-    File.delete('test_collection.yaml.tmp')  if File.exist? 'test_collection.yaml.tmp'
-    File.delete('my_collection.yaml')  if File.exist? 'my_collection.yaml'
-    Dir.chdir(@start_dir)
-  end
-
-  def test_weak_thresholds
-    Helpers.run_preprocess_collection('test_collection test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent')
-    assert_equal YAML.load(File.read('test_collection_weak.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
-  end
-
-  def test_multipvalue_preprocessing
-    Helpers.run_preprocess_collection('test_collection test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --boundary lower')
-    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
-  end
-
-  def test_preprocessing_collection_from_a_single_file
-    Helpers.run_preprocess_collection('test_collection_single_file.txt test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --boundary lower')
-    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
-  end
-
-  def test_preprocessing_collection_from_stdin
-    Helpers.provide_stdin('test_collection/GABPA_f1.pwm  test_collection/KLF4_f2.pwm  test_collection/SP1_f1.pwm'){
-      Helpers.run_preprocess_collection('.stdin test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --boundary lower')
-    }
-    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
-  end
-
-  def test_preprocessing_folder_pcm
-    Helpers.run_preprocess_collection('test_collection_pcm test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --pcm --boundary lower')
-    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
-  end
-
-  def test_preprocessing_collection_from_a_single_file_pcm
-    Helpers.run_preprocess_collection('test_collection_single_file_pcm.txt test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --pcm --boundary lower')
-    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
-  end
-
-  def test_preprocessing_collection_from_a_collection
-    Helpers.run_preprocess_collection('collection_without_thresholds.yaml test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --boundary lower')
-    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
-  end
-  def test_preprocessing_collection_from_a_pcm_collection
-    Helpers.run_preprocess_collection('collection_pcm_without_thresholds.yaml test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --pcm --boundary lower')
-    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
-  end
-
-  def test_preprocessing_collection_from_stdin_pcm
-    Helpers.provide_stdin('test_collection_pcm/GABPA_f1.pcm  test_collection_pcm/KLF4_f2.pcm  test_collection_pcm/SP1_f1.pcm'){
-      Helpers.run_preprocess_collection('.stdin test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --pcm --boundary lower')
-    }
-    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
-  end
-end
\ No newline at end of file
+require_relative 'test_helper'
+require 'yaml'
+
+# Don't use YAML.load_file() instead of YAML.load(File.read()) because in ruby before v1.9.3 p194
+# it doesn't immediately release file descriptor (if I understood error right way) so File.delete fails
+
+class TestPreprocessCollection < Test::Unit::TestCase
+  def setup
+    @start_dir = Dir.pwd
+    Dir.chdir File.join(File.dirname(__FILE__), 'data')
+  end
+  def teardown
+    File.delete('test_collection.yaml.tmp')  if File.exist? 'test_collection.yaml.tmp'
+    File.delete('my_collection.yaml')  if File.exist? 'my_collection.yaml'
+    Dir.chdir(@start_dir)
+  end
+
+  def test_weak_thresholds
+    Helpers.run_preprocess_collection('test_collection test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent')
+    assert_equal YAML.load(File.read('test_collection_weak.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
+  end
+
+  def test_multipvalue_preprocessing
+    Helpers.run_preprocess_collection('test_collection test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --boundary lower')
+    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
+  end
+
+  def test_preprocessing_collection_from_a_single_file
+    Helpers.run_preprocess_collection('test_collection_single_file.txt test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --boundary lower')
+    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
+  end
+
+  def test_preprocessing_collection_from_stdin
+    Helpers.provide_stdin('test_collection/GABPA_f1.pwm  test_collection/KLF4_f2.pwm  test_collection/SP1_f1.pwm'){
+      Helpers.run_preprocess_collection('.stdin test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --boundary lower')
+    }
+    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
+  end
+
+  def test_preprocessing_folder_pcm
+    Helpers.run_preprocess_collection('test_collection_pcm test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --pcm --boundary lower')
+    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
+  end
+
+  def test_preprocessing_collection_from_a_single_file_pcm
+    Helpers.run_preprocess_collection('test_collection_single_file_pcm.txt test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --pcm --boundary lower')
+    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
+  end
+
+  def test_preprocessing_collection_from_stdin_pcm
+    Helpers.provide_stdin('test_collection_pcm/GABPA_f1.pcm  test_collection_pcm/KLF4_f2.pcm  test_collection_pcm/SP1_f1.pcm'){
+      Helpers.run_preprocess_collection('.stdin test_collection.yaml.tmp -p 0.0005,0.0001,0.00005 --silent --pcm --boundary lower')
+    }
+    assert_equal YAML.load(File.read('test_collection.yaml')), YAML.load(File.read('test_collection.yaml.tmp'))
+  end
+end