caruby-tissue 1.5.5 → 1.5.6

Sign up to get free protection for your applications and to get access to all the features.
Files changed (4) hide show
  1. data/History.md +4 -0
  2. data/lib/catissue/cli/migrate.rb +11 -0
  3. data/lib/catissue/version.rb +1 -1
  4. metadata +246 -262
data/History.md CHANGED
@@ -1,6 +1,10 @@
1
1
  This history lists major release themes. See the GitHub Commits (https://github.com/caruby/tissue)
2
2
  for change details.
3
3
 
4
+ 1.5.6 / 2011-09-30
5
+ ------------------
6
+ * Added validate function back into migrate.
7
+
4
8
  1.5.5 / 2011-09-22
5
9
  ------------------
6
10
  * Use migration value filter option.
data/lib/catissue/cli/migrate.rb CHANGED
@@ -46,6 +46,17 @@ module CaTissue
46
46
  migrator = block_given? ? yield(opts) : CaTissue::Migrator.new(opts)
47
47
  migrator.migrate_to_database
48
48
  end
49
+
50
+ def validate(opts)
51
+ tgt = opts[:target]
52
+ if tgt.nil? then raise ArgumentError.new("Missing required migration target class option") end
53
+ begin
54
+ opts[:target] = CaTissue.const_get(tgt)
55
+ rescue Exception
56
+ logger.fatal("Could not load CaTissue class #{tgt} - #{$!}.\n#{$@.qp}")
57
+ raise MigrationError.new("Could not load migration target class #{tgt}")
58
+ end
59
+ end
49
60
  end
50
61
  end
51
62
  end
data/lib/catissue/version.rb CHANGED
@@ -1,6 +1,6 @@
1
1
  module CaTissue
2
2
  # The version of this caRuby Tissue release.
3
- VERSION = "1.5.5"
3
+ VERSION = "1.5.6"
4
4
 
5
5
  # The supported caTissue release versions.
6
6
  CATISSUE_VERSIONS = "1.1.2-1.2"
metadata CHANGED
@@ -1,299 +1,283 @@
1
1
  --- !ruby/object:Gem::Specification
2
2
  name: caruby-tissue
3
3
  version: !ruby/object:Gem::Version
4
- hash: 9
5
- prerelease: false
6
- segments:
7
- - 1
8
- - 5
9
- - 5
10
- version: 1.5.5
4
+ prerelease:
5
+ version: 1.5.6
11
6
  platform: ruby
12
7
  authors:
13
- - OHSU
8
+ - OHSU
14
9
  autorequire:
15
10
  bindir: bin
16
11
  cert_chain: []
17
12
 
18
- date: 2011-09-22 00:00:00 -07:00
13
+ date: 2011-09-30 00:00:00 -07:00
19
14
  default_executable:
20
15
  dependencies:
21
- - !ruby/object:Gem::Dependency
22
- name: caruby-core
23
- prerelease: false
24
- requirement: &id001 !ruby/object:Gem::Requirement
25
- none: false
26
- requirements:
27
- - - ">="
28
- - !ruby/object:Gem::Version
29
- hash: 9
30
- segments:
31
- - 1
32
- - 5
33
- - 5
34
- version: 1.5.5
35
- type: :runtime
36
- version_requirements: *id001
16
+ - !ruby/object:Gem::Dependency
17
+ name: caruby-core
18
+ prerelease: false
19
+ requirement: &id001 !ruby/object:Gem::Requirement
20
+ none: false
21
+ requirements:
22
+ - - ">="
23
+ - !ruby/object:Gem::Version
24
+ version: 1.5.5
25
+ type: :runtime
26
+ version_requirements: *id001
37
27
  description: " The caruby-tissue gem applies the caRuby facade to the caTissue application.\n"
38
28
  email: caruby.org@gmail.com
39
29
  executables:
40
- - crtdump
41
- - crtexample
42
- - crtextract
43
- - crtmigrate
44
- - crtsmoke
30
+ - crtdump
31
+ - crtexample
32
+ - crtextract
33
+ - crtmigrate
34
+ - crtsmoke
45
35
  extensions: []
46
36
 
47
37
  extra_rdoc_files: []
48
38
 
49
39
  files:
50
- - bin/crtdump
51
- - bin/crtexample
52
- - bin/crtextract
53
- - bin/crtmigrate
54
- - bin/crtsmoke
55
- - conf/wustl/log4j.properties
56
- - examples/galena/bin/seed
57
- - examples/galena/conf/extract/simple_fields.yaml
58
- - examples/galena/conf/migration/annotation_defaults.yaml
59
- - examples/galena/conf/migration/annotation_fields.yaml
60
- - examples/galena/conf/migration/filter_defaults.yaml
61
- - examples/galena/conf/migration/filter_fields.yaml
62
- - examples/galena/conf/migration/filter_values.yaml
63
- - examples/galena/conf/migration/frozen_defaults.yaml
64
- - examples/galena/conf/migration/frozen_fields.yaml
65
- - examples/galena/conf/migration/general_fields.yaml
66
- - examples/galena/conf/migration/participant_fields.yaml
67
- - examples/galena/conf/migration/registration_fields.yaml
68
- - examples/galena/conf/migration/simple_fields.yaml
69
- - examples/galena/data/annotation.csv
70
- - examples/galena/data/filter.csv
71
- - examples/galena/data/frozen.csv
72
- - examples/galena/data/general.csv
73
- - examples/galena/data/participant.csv
74
- - examples/galena/data/registration.csv
75
- - examples/galena/data/simple.csv
76
- - examples/galena/lib/galena/tissue/migration/filter_shims.rb
77
- - examples/galena/lib/galena/tissue/migration/frozen_shims.rb
78
- - examples/galena/lib/galena/tissue/seed/defaults.rb
79
- - examples/galena/lib/galena.rb
80
- - examples/galena/README.md
81
- - examples/psbin/conf/adjuvant_hormone_defaults.yaml
82
- - examples/psbin/conf/adjuvant_radiation_defaults.yaml
83
- - examples/psbin/conf/biopsy_defaults.yaml
84
- - examples/psbin/conf/biopsy_fields.yaml
85
- - examples/psbin/conf/neoadjuvant_hormone_defaults.yaml
86
- - examples/psbin/conf/neoadjuvant_radiation_defaults.yaml
87
- - examples/psbin/conf/patient_defaults.yaml
88
- - examples/psbin/conf/patient_fields.yaml
89
- - examples/psbin/conf/surgery_defaults.yaml
90
- - examples/psbin/conf/surgery_fields.yaml
91
- - examples/psbin/conf/t_stage_defaults.yaml
92
- - examples/psbin/conf/t_stage_fields.yaml
93
- - examples/psbin/conf/therapy_fields.yaml
94
- - examples/psbin/data/adjuvant_hormone.csv
95
- - examples/psbin/data/adjuvant_radiation.csv
96
- - examples/psbin/data/biopsy.csv
97
- - examples/psbin/data/neoadjuvant_hormone.csv
98
- - examples/psbin/data/neoadjuvant_radiation.csv
99
- - examples/psbin/data/patient.csv
100
- - examples/psbin/data/surgery.csv
101
- - examples/psbin/data/t_stage.csv
102
- - examples/psbin/lib/psbin/biopsy_shims.rb
103
- - examples/psbin/lib/psbin/surgery_shims.rb
104
- - examples/psbin/README.md
105
- - lib/catissue/annotation/annotatable.rb
106
- - lib/catissue/annotation/annotatable_class.rb
107
- - lib/catissue/annotation/annotation.rb
108
- - lib/catissue/annotation/annotation_class.rb
109
- - lib/catissue/annotation/annotation_module.rb
110
- - lib/catissue/annotation/de_integration.rb
111
- - lib/catissue/annotation/proxy.rb
112
- - lib/catissue/annotation/proxy_1_1.rb
113
- - lib/catissue/annotation/proxy_class.rb
114
- - lib/catissue/annotation/record_entry_proxy.rb
115
- - lib/catissue/cli/command.rb
116
- - lib/catissue/cli/example.rb
117
- - lib/catissue/cli/migrate.rb
118
- - lib/catissue/cli/smoke.rb
119
- - lib/catissue/database/annotation/annotation_service.rb
120
- - lib/catissue/database/annotation/annotator.rb
121
- - lib/catissue/database/annotation/entity_facade.rb
122
- - lib/catissue/database/annotation/id_generator.rb
123
- - lib/catissue/database/annotation/integration_service.rb
124
- - lib/catissue/database/annotation/integrator.rb
125
- - lib/catissue/database/annotation/record_entry_integrator.rb
126
- - lib/catissue/database/annotation/reference_writer.rb
127
- - lib/catissue/database/controlled_value_finder.rb
128
- - lib/catissue/database/controlled_values.rb
129
- - lib/catissue/database.rb
130
- - lib/catissue/domain/abstract_position.rb
131
- - lib/catissue/domain/abstract_specimen.rb
132
- - lib/catissue/domain/abstract_specimen_collection_group.rb
133
- - lib/catissue/domain/address.rb
134
- - lib/catissue/domain/cancer_research_group.rb
135
- - lib/catissue/domain/capacity.rb
136
- - lib/catissue/domain/check_in_check_out_event_parameter.rb
137
- - lib/catissue/domain/collection_event_parameters.rb
138
- - lib/catissue/domain/collection_protocol.rb
139
- - lib/catissue/domain/collection_protocol_event.rb
140
- - lib/catissue/domain/collection_protocol_registration.rb
141
- - lib/catissue/domain/consent_tier_response.rb
142
- - lib/catissue/domain/consent_tier_status.rb
143
- - lib/catissue/domain/container.rb
144
- - lib/catissue/domain/container_position.rb
145
- - lib/catissue/domain/container_type.rb
146
- - lib/catissue/domain/department.rb
147
- - lib/catissue/domain/disposal_event_parameters.rb
148
- - lib/catissue/domain/embedded_event_parameters.rb
149
- - lib/catissue/domain/external_identifier.rb
150
- - lib/catissue/domain/frozen_event_parameters.rb
151
- - lib/catissue/domain/hash_code.rb
152
- - lib/catissue/domain/institution.rb
153
- - lib/catissue/domain/new_specimen_array_order_item.rb
154
- - lib/catissue/domain/order_details.rb
155
- - lib/catissue/domain/participant/clinical/chemotherapy.rb
156
- - lib/catissue/domain/participant/clinical/duration.rb
157
- - lib/catissue/domain/participant/clinical/radiation_therapy.rb
158
- - lib/catissue/domain/participant.rb
159
- - lib/catissue/domain/participant_medical_identifier.rb
160
- - lib/catissue/domain/password.rb
161
- - lib/catissue/domain/race.rb
162
- - lib/catissue/domain/received_event_parameters.rb
163
- - lib/catissue/domain/site.rb
164
- - lib/catissue/domain/specimen/pathology/prostate_specimen_gleason_score.rb
165
- - lib/catissue/domain/specimen/pathology/prostate_specimen_pathology_annotation.rb
166
- - lib/catissue/domain/specimen/pathology/specimen_additional_finding.rb
167
- - lib/catissue/domain/specimen/pathology/specimen_base_solid_tissue_pathology_annotation.rb
168
- - lib/catissue/domain/specimen/pathology/specimen_details.rb
169
- - lib/catissue/domain/specimen/pathology/specimen_histologic_grade.rb
170
- - lib/catissue/domain/specimen/pathology/specimen_histologic_type.rb
171
- - lib/catissue/domain/specimen/pathology/specimen_histologic_variant_type.rb
172
- - lib/catissue/domain/specimen/pathology/specimen_invasion.rb
173
- - lib/catissue/domain/specimen.rb
174
- - lib/catissue/domain/specimen_array.rb
175
- - lib/catissue/domain/specimen_array_content.rb
176
- - lib/catissue/domain/specimen_array_type.rb
177
- - lib/catissue/domain/specimen_characteristics.rb
178
- - lib/catissue/domain/specimen_collection_group/pathology/base_pathology_annotation.rb
179
- - lib/catissue/domain/specimen_collection_group/pathology/base_solid_tissue_pathology_annotation.rb
180
- - lib/catissue/domain/specimen_collection_group.rb
181
- - lib/catissue/domain/specimen_event_parameters.rb
182
- - lib/catissue/domain/specimen_position.rb
183
- - lib/catissue/domain/specimen_protocol.rb
184
- - lib/catissue/domain/specimen_requirement.rb
185
- - lib/catissue/domain/storage_container.rb
186
- - lib/catissue/domain/storage_type.rb
187
- - lib/catissue/domain/transfer_event_parameters.rb
188
- - lib/catissue/domain/user.rb
189
- - lib/catissue/domain.rb
190
- - lib/catissue/extract/command.rb
191
- - lib/catissue/extract/delta.rb
192
- - lib/catissue/extract/extractor.rb
193
- - lib/catissue/migration/migratable.rb
194
- - lib/catissue/migration/migrator.rb
195
- - lib/catissue/migration/shims.rb
196
- - lib/catissue/migration/uniquify.rb
197
- - lib/catissue/resource.rb
198
- - lib/catissue/util/collectible.rb
199
- - lib/catissue/util/collectible_event_parameters.rb
200
- - lib/catissue/util/controlled_value.rb
201
- - lib/catissue/util/location.rb
202
- - lib/catissue/util/person.rb
203
- - lib/catissue/util/position.rb
204
- - lib/catissue/util/storable.rb
205
- - lib/catissue/util/storage_type_holder.rb
206
- - lib/catissue/util/uniquify.rb
207
- - lib/catissue/version.rb
208
- - lib/catissue/wustl/logger.rb
209
- - lib/catissue.rb
210
- - test/fixtures/catissue/domain/conf/catissue_override.yaml
211
- - test/fixtures/catissue/extract/conf/scg_extract.yaml
212
- - test/fixtures/catissue/extract/conf/scg_fields.yaml
213
- - test/fixtures/catissue/extract/conf/spc_extract.yaml
214
- - test/fixtures/catissue/extract/conf/spc_fields.yaml
215
- - test/fixtures/lib/catissue/defaults_test_fixture.rb
216
- - test/fixtures/lib/examples/galena/migration/alt_key_shims.rb
217
- - test/lib/catissue/database/controlled_values_test.rb
218
- - test/lib/catissue/domain/address_test.rb
219
- - test/lib/catissue/domain/base_haemotology_pathology_test.rb
220
- - test/lib/catissue/domain/ca_tissue_test_defaults_test.rb
221
- - test/lib/catissue/domain/capacity_test.rb
222
- - test/lib/catissue/domain/collection_event_parameters_test.rb
223
- - test/lib/catissue/domain/collection_protocol_event_test.rb
224
- - test/lib/catissue/domain/collection_protocol_registration_test.rb
225
- - test/lib/catissue/domain/collection_protocol_test.rb
226
- - test/lib/catissue/domain/container_position_test.rb
227
- - test/lib/catissue/domain/department_test.rb
228
- - test/lib/catissue/domain/disposal_event_parameters_test.rb
229
- - test/lib/catissue/domain/external_identifier_test.rb
230
- - test/lib/catissue/domain/location_test.rb
231
- - test/lib/catissue/domain/participant_medical_identifier_test.rb
232
- - test/lib/catissue/domain/participant_test.rb
233
- - test/lib/catissue/domain/site_test.rb
234
- - test/lib/catissue/domain/specimen_array_test.rb
235
- - test/lib/catissue/domain/specimen_array_type_test.rb
236
- - test/lib/catissue/domain/specimen_characteristics_test.rb
237
- - test/lib/catissue/domain/specimen_collection_group_test.rb
238
- - test/lib/catissue/domain/specimen_event_parameters_test.rb
239
- - test/lib/catissue/domain/specimen_position_test.rb
240
- - test/lib/catissue/domain/specimen_requirement_test.rb
241
- - test/lib/catissue/domain/specimen_test.rb
242
- - test/lib/catissue/domain/storage_container_test.rb
243
- - test/lib/catissue/domain/storage_type_test.rb
244
- - test/lib/catissue/domain/transfer_event_parameters_test.rb
245
- - test/lib/catissue/domain/user_test.rb
246
- - test/lib/catissue/extract/delta_test.rb
247
- - test/lib/catissue/extract/extractor_test.rb
248
- - test/lib/catissue/import/importable_module_test.rb
249
- - test/lib/catissue/migration/test_case.rb
250
- - test/lib/catissue/test_case.rb
251
- - test/lib/examples/galena/tissue/domain/examples_test.rb
252
- - test/lib/examples/galena/tissue/migration/annotation_test.rb
253
- - test/lib/examples/galena/tissue/migration/filter_test.rb
254
- - test/lib/examples/galena/tissue/migration/frozen_test.rb
255
- - test/lib/examples/galena/tissue/migration/general_test.rb
256
- - test/lib/examples/galena/tissue/migration/participant_test.rb
257
- - test/lib/examples/galena/tissue/migration/registration_test.rb
258
- - test/lib/examples/galena/tissue/migration/seedify.rb
259
- - test/lib/examples/galena/tissue/migration/simple_test.rb
260
- - test/lib/examples/galena/tissue/migration/test_case.rb
261
- - test/lib/examples/psbin/migration_test.rb
262
- - History.md
263
- - LEGAL
264
- - LICENSE
265
- - README.md
266
- has_rdoc: yard
40
+ - bin/crtdump
41
+ - bin/crtexample
42
+ - bin/crtextract
43
+ - bin/crtmigrate
44
+ - bin/crtsmoke
45
+ - conf/wustl/log4j.properties
46
+ - examples/galena/README.md
47
+ - examples/galena/bin/seed
48
+ - examples/galena/conf/extract/simple_fields.yaml
49
+ - examples/galena/conf/migration/annotation_defaults.yaml
50
+ - examples/galena/conf/migration/annotation_fields.yaml
51
+ - examples/galena/conf/migration/filter_defaults.yaml
52
+ - examples/galena/conf/migration/filter_fields.yaml
53
+ - examples/galena/conf/migration/filter_values.yaml
54
+ - examples/galena/conf/migration/frozen_defaults.yaml
55
+ - examples/galena/conf/migration/frozen_fields.yaml
56
+ - examples/galena/conf/migration/general_fields.yaml
57
+ - examples/galena/conf/migration/participant_fields.yaml
58
+ - examples/galena/conf/migration/registration_fields.yaml
59
+ - examples/galena/conf/migration/simple_fields.yaml
60
+ - examples/galena/data/annotation.csv
61
+ - examples/galena/data/filter.csv
62
+ - examples/galena/data/frozen.csv
63
+ - examples/galena/data/general.csv
64
+ - examples/galena/data/participant.csv
65
+ - examples/galena/data/registration.csv
66
+ - examples/galena/data/simple.csv
67
+ - examples/galena/lib/galena.rb
68
+ - examples/galena/lib/galena/tissue/migration/filter_shims.rb
69
+ - examples/galena/lib/galena/tissue/migration/frozen_shims.rb
70
+ - examples/galena/lib/galena/tissue/seed/defaults.rb
71
+ - examples/psbin/README.md
72
+ - examples/psbin/conf/adjuvant_hormone_defaults.yaml
73
+ - examples/psbin/conf/adjuvant_radiation_defaults.yaml
74
+ - examples/psbin/conf/biopsy_defaults.yaml
75
+ - examples/psbin/conf/biopsy_fields.yaml
76
+ - examples/psbin/conf/neoadjuvant_hormone_defaults.yaml
77
+ - examples/psbin/conf/neoadjuvant_radiation_defaults.yaml
78
+ - examples/psbin/conf/patient_defaults.yaml
79
+ - examples/psbin/conf/patient_fields.yaml
80
+ - examples/psbin/conf/surgery_defaults.yaml
81
+ - examples/psbin/conf/surgery_fields.yaml
82
+ - examples/psbin/conf/t_stage_defaults.yaml
83
+ - examples/psbin/conf/t_stage_fields.yaml
84
+ - examples/psbin/conf/therapy_fields.yaml
85
+ - examples/psbin/data/adjuvant_hormone.csv
86
+ - examples/psbin/data/adjuvant_radiation.csv
87
+ - examples/psbin/data/biopsy.csv
88
+ - examples/psbin/data/neoadjuvant_hormone.csv
89
+ - examples/psbin/data/neoadjuvant_radiation.csv
90
+ - examples/psbin/data/patient.csv
91
+ - examples/psbin/data/surgery.csv
92
+ - examples/psbin/data/t_stage.csv
93
+ - examples/psbin/lib/psbin/biopsy_shims.rb
94
+ - examples/psbin/lib/psbin/surgery_shims.rb
95
+ - lib/catissue.rb
96
+ - lib/catissue/database.rb
97
+ - lib/catissue/domain.rb
98
+ - lib/catissue/resource.rb
99
+ - lib/catissue/version.rb
100
+ - lib/catissue/annotation/annotatable.rb
101
+ - lib/catissue/annotation/annotatable_class.rb
102
+ - lib/catissue/annotation/annotation.rb
103
+ - lib/catissue/annotation/annotation_class.rb
104
+ - lib/catissue/annotation/annotation_module.rb
105
+ - lib/catissue/annotation/de_integration.rb
106
+ - lib/catissue/annotation/proxy.rb
107
+ - lib/catissue/annotation/proxy_1_1.rb
108
+ - lib/catissue/annotation/proxy_class.rb
109
+ - lib/catissue/annotation/record_entry_proxy.rb
110
+ - lib/catissue/cli/command.rb
111
+ - lib/catissue/cli/example.rb
112
+ - lib/catissue/cli/migrate.rb
113
+ - lib/catissue/cli/smoke.rb
114
+ - lib/catissue/database/controlled_value_finder.rb
115
+ - lib/catissue/database/controlled_values.rb
116
+ - lib/catissue/database/annotation/annotation_service.rb
117
+ - lib/catissue/database/annotation/annotator.rb
118
+ - lib/catissue/database/annotation/entity_facade.rb
119
+ - lib/catissue/database/annotation/id_generator.rb
120
+ - lib/catissue/database/annotation/integration_service.rb
121
+ - lib/catissue/database/annotation/integrator.rb
122
+ - lib/catissue/database/annotation/record_entry_integrator.rb
123
+ - lib/catissue/database/annotation/reference_writer.rb
124
+ - lib/catissue/domain/abstract_position.rb
125
+ - lib/catissue/domain/abstract_specimen.rb
126
+ - lib/catissue/domain/abstract_specimen_collection_group.rb
127
+ - lib/catissue/domain/address.rb
128
+ - lib/catissue/domain/cancer_research_group.rb
129
+ - lib/catissue/domain/capacity.rb
130
+ - lib/catissue/domain/check_in_check_out_event_parameter.rb
131
+ - lib/catissue/domain/collection_event_parameters.rb
132
+ - lib/catissue/domain/collection_protocol.rb
133
+ - lib/catissue/domain/collection_protocol_event.rb
134
+ - lib/catissue/domain/collection_protocol_registration.rb
135
+ - lib/catissue/domain/consent_tier_response.rb
136
+ - lib/catissue/domain/consent_tier_status.rb
137
+ - lib/catissue/domain/container.rb
138
+ - lib/catissue/domain/container_position.rb
139
+ - lib/catissue/domain/container_type.rb
140
+ - lib/catissue/domain/department.rb
141
+ - lib/catissue/domain/disposal_event_parameters.rb
142
+ - lib/catissue/domain/embedded_event_parameters.rb
143
+ - lib/catissue/domain/external_identifier.rb
144
+ - lib/catissue/domain/frozen_event_parameters.rb
145
+ - lib/catissue/domain/hash_code.rb
146
+ - lib/catissue/domain/institution.rb
147
+ - lib/catissue/domain/new_specimen_array_order_item.rb
148
+ - lib/catissue/domain/order_details.rb
149
+ - lib/catissue/domain/participant.rb
150
+ - lib/catissue/domain/participant_medical_identifier.rb
151
+ - lib/catissue/domain/password.rb
152
+ - lib/catissue/domain/race.rb
153
+ - lib/catissue/domain/received_event_parameters.rb
154
+ - lib/catissue/domain/site.rb
155
+ - lib/catissue/domain/specimen.rb
156
+ - lib/catissue/domain/specimen_array.rb
157
+ - lib/catissue/domain/specimen_array_content.rb
158
+ - lib/catissue/domain/specimen_array_type.rb
159
+ - lib/catissue/domain/specimen_characteristics.rb
160
+ - lib/catissue/domain/specimen_collection_group.rb
161
+ - lib/catissue/domain/specimen_event_parameters.rb
162
+ - lib/catissue/domain/specimen_position.rb
163
+ - lib/catissue/domain/specimen_protocol.rb
164
+ - lib/catissue/domain/specimen_requirement.rb
165
+ - lib/catissue/domain/storage_container.rb
166
+ - lib/catissue/domain/storage_type.rb
167
+ - lib/catissue/domain/transfer_event_parameters.rb
168
+ - lib/catissue/domain/user.rb
169
+ - lib/catissue/domain/participant/clinical/chemotherapy.rb
170
+ - lib/catissue/domain/participant/clinical/duration.rb
171
+ - lib/catissue/domain/participant/clinical/radiation_therapy.rb
172
+ - lib/catissue/domain/specimen/pathology/prostate_specimen_gleason_score.rb
173
+ - lib/catissue/domain/specimen/pathology/prostate_specimen_pathology_annotation.rb
174
+ - lib/catissue/domain/specimen/pathology/specimen_additional_finding.rb
175
+ - lib/catissue/domain/specimen/pathology/specimen_base_solid_tissue_pathology_annotation.rb
176
+ - lib/catissue/domain/specimen/pathology/specimen_details.rb
177
+ - lib/catissue/domain/specimen/pathology/specimen_histologic_grade.rb
178
+ - lib/catissue/domain/specimen/pathology/specimen_histologic_type.rb
179
+ - lib/catissue/domain/specimen/pathology/specimen_histologic_variant_type.rb
180
+ - lib/catissue/domain/specimen/pathology/specimen_invasion.rb
181
+ - lib/catissue/domain/specimen_collection_group/pathology/base_pathology_annotation.rb
182
+ - lib/catissue/domain/specimen_collection_group/pathology/base_solid_tissue_pathology_annotation.rb
183
+ - lib/catissue/extract/command.rb
184
+ - lib/catissue/extract/delta.rb
185
+ - lib/catissue/extract/extractor.rb
186
+ - lib/catissue/migration/migratable.rb
187
+ - lib/catissue/migration/migrator.rb
188
+ - lib/catissue/migration/shims.rb
189
+ - lib/catissue/migration/uniquify.rb
190
+ - lib/catissue/util/collectible.rb
191
+ - lib/catissue/util/collectible_event_parameters.rb
192
+ - lib/catissue/util/controlled_value.rb
193
+ - lib/catissue/util/location.rb
194
+ - lib/catissue/util/person.rb
195
+ - lib/catissue/util/position.rb
196
+ - lib/catissue/util/storable.rb
197
+ - lib/catissue/util/storage_type_holder.rb
198
+ - lib/catissue/util/uniquify.rb
199
+ - lib/catissue/wustl/logger.rb
200
+ - test/fixtures/catissue/domain/conf/catissue_override.yaml
201
+ - test/fixtures/catissue/extract/conf/scg_extract.yaml
202
+ - test/fixtures/catissue/extract/conf/scg_fields.yaml
203
+ - test/fixtures/catissue/extract/conf/spc_extract.yaml
204
+ - test/fixtures/catissue/extract/conf/spc_fields.yaml
205
+ - test/fixtures/lib/catissue/defaults_test_fixture.rb
206
+ - test/fixtures/lib/examples/galena/migration/alt_key_shims.rb
207
+ - test/lib/catissue/test_case.rb
208
+ - test/lib/catissue/database/controlled_values_test.rb
209
+ - test/lib/catissue/domain/address_test.rb
210
+ - test/lib/catissue/domain/base_haemotology_pathology_test.rb
211
+ - test/lib/catissue/domain/ca_tissue_test_defaults_test.rb
212
+ - test/lib/catissue/domain/capacity_test.rb
213
+ - test/lib/catissue/domain/collection_event_parameters_test.rb
214
+ - test/lib/catissue/domain/collection_protocol_event_test.rb
215
+ - test/lib/catissue/domain/collection_protocol_registration_test.rb
216
+ - test/lib/catissue/domain/collection_protocol_test.rb
217
+ - test/lib/catissue/domain/container_position_test.rb
218
+ - test/lib/catissue/domain/department_test.rb
219
+ - test/lib/catissue/domain/disposal_event_parameters_test.rb
220
+ - test/lib/catissue/domain/external_identifier_test.rb
221
+ - test/lib/catissue/domain/location_test.rb
222
+ - test/lib/catissue/domain/participant_medical_identifier_test.rb
223
+ - test/lib/catissue/domain/participant_test.rb
224
+ - test/lib/catissue/domain/site_test.rb
225
+ - test/lib/catissue/domain/specimen_array_test.rb
226
+ - test/lib/catissue/domain/specimen_array_type_test.rb
227
+ - test/lib/catissue/domain/specimen_characteristics_test.rb
228
+ - test/lib/catissue/domain/specimen_collection_group_test.rb
229
+ - test/lib/catissue/domain/specimen_event_parameters_test.rb
230
+ - test/lib/catissue/domain/specimen_position_test.rb
231
+ - test/lib/catissue/domain/specimen_requirement_test.rb
232
+ - test/lib/catissue/domain/specimen_test.rb
233
+ - test/lib/catissue/domain/storage_container_test.rb
234
+ - test/lib/catissue/domain/storage_type_test.rb
235
+ - test/lib/catissue/domain/transfer_event_parameters_test.rb
236
+ - test/lib/catissue/domain/user_test.rb
237
+ - test/lib/catissue/extract/delta_test.rb
238
+ - test/lib/catissue/extract/extractor_test.rb
239
+ - test/lib/catissue/import/importable_module_test.rb
240
+ - test/lib/catissue/migration/test_case.rb
241
+ - test/lib/examples/galena/tissue/domain/examples_test.rb
242
+ - test/lib/examples/galena/tissue/migration/annotation_test.rb
243
+ - test/lib/examples/galena/tissue/migration/filter_test.rb
244
+ - test/lib/examples/galena/tissue/migration/frozen_test.rb
245
+ - test/lib/examples/galena/tissue/migration/general_test.rb
246
+ - test/lib/examples/galena/tissue/migration/participant_test.rb
247
+ - test/lib/examples/galena/tissue/migration/registration_test.rb
248
+ - test/lib/examples/galena/tissue/migration/seedify.rb
249
+ - test/lib/examples/galena/tissue/migration/simple_test.rb
250
+ - test/lib/examples/galena/tissue/migration/test_case.rb
251
+ - test/lib/examples/psbin/migration_test.rb
252
+ - History.md
253
+ - LEGAL
254
+ - LICENSE
255
+ - README.md
256
+ has_rdoc: true
267
257
  homepage: http://caruby.rubyforge.org/tissue.html
268
258
  licenses:
269
- - MIT
259
+ - MIT
270
260
  post_install_message:
271
261
  rdoc_options: []
272
262
 
273
263
  require_paths:
274
- - lib
264
+ - lib
275
265
  required_ruby_version: !ruby/object:Gem::Requirement
276
266
  none: false
277
267
  requirements:
278
- - - ">="
279
- - !ruby/object:Gem::Version
280
- hash: 3
281
- segments:
282
- - 0
283
- version: "0"
268
+ - - ">="
269
+ - !ruby/object:Gem::Version
270
+ version: "0"
284
271
  required_rubygems_version: !ruby/object:Gem::Requirement
285
272
  none: false
286
273
  requirements:
287
- - - ">="
288
- - !ruby/object:Gem::Version
289
- hash: 3
290
- segments:
291
- - 0
292
- version: "0"
274
+ - - ">="
275
+ - !ruby/object:Gem::Version
276
+ version: "0"
293
277
  requirements: []
294
278
 
295
279
  rubyforge_project: caruby
296
- rubygems_version: 1.3.7
280
+ rubygems_version: 1.5.1
297
281
  signing_key:
298
282
  specification_version: 3
299
283
  summary: Ruby facade for caTissue.