.rubocop_todo.yml

# This configuration was generated by
# `rubocop --auto-gen-config`
# on 2015-11-22 16:23:26 +0100 using RuboCop version 0.35.1.
# The point is for the user to remove these configuration records
# one by one as the offenses are removed from the code base.
# Note that changes in the inspected code, or installation of new
# versions of RuboCop, may require this file to be generated again.

# Offense count: 1
Lint/AmbiguousRegexpLiteral:
  Exclude:
    - 'test/unit/genome_gov_test.rb'

# Offense count: 4
# Configuration parameters: AllowSafeAssignment.
Lint/AssignmentInCondition:
  Exclude:
    - 'app/controllers/phenotypes_controller.rb'
    - 'app/controllers/picture_phenotypes_controller.rb'
    - 'app/workers/zipfulldata.rb'
    - 'bin/spring'

# Offense count: 4
# Cop supports --auto-correct.
Lint/BlockAlignment:
  Exclude:
    - 'app/controllers/das_controller.rb'
    - 'app/controllers/index_controller.rb'
    - 'db/migrate/20110914100443_create_user_achievements.rb'
    - 'db/migrate/20110914100516_create_achievements.rb'

# Offense count: 5
# Cop supports --auto-correct.
# Configuration parameters: AlignWith, SupportedStyles, AutoCorrect.
Lint/DefEndAlignment:
  Enabled: false

# Offense count: 1
# Cop supports --auto-correct.
Lint/DeprecatedClassMethods:
  Exclude:
    - 'app/workers/zipfulldata.rb'

# Offense count: 2
Lint/DuplicateMethods:
  Exclude:
    - 'app/controllers/phenotypes_controller.rb'
    - 'app/controllers/picture_phenotypes_controller.rb'

# Offense count: 5
# Cop supports --auto-correct.
# Configuration parameters: AlignWith, SupportedStyles, AutoCorrect.
Lint/EndAlignment:
  Enabled: false

# Offense count: 5
Lint/HandleExceptions:
  Exclude:
    - 'app/controllers/fitbit_profiles_controller.rb'
    - 'bin/rails'
    - 'bin/rake'
    - 'bin/rspec'

# Offense count: 1
Lint/Loop:
  Exclude:
    - 'app/workers/mendeley_search.rb'

# Offense count: 1
Lint/NonLocalExitFromIterator:
  Exclude:
    - 'app/controllers/beacon_controller.rb'

# Offense count: 1
Lint/UnreachableCode:
  Exclude:
    - 'app/workers/mendeley_search.rb'

# Offense count: 2
# Cop supports --auto-correct.
# Configuration parameters: IgnoreEmptyBlocks.
Lint/UnusedBlockArgument:
  Exclude:
    - 'app/models/genotype.rb'
    - 'test/unit/mendeley_search_test.rb'

# Offense count: 1
# Cop supports --auto-correct.
# Configuration parameters: AllowUnusedKeywordArguments, IgnoreEmptyMethods.
Lint/UnusedMethodArgument:
  Exclude:
    - 'beautifier.rb'

# Offense count: 5
Lint/UselessAssignment:
  Exclude:
    - 'app/models/snp.rb'
    - 'app/workers/parsing.rb'
    - 'app/workers/preparsing.rb'
    - 'spec/workers/zipfulldata_spec.rb'

# Offense count: 84
Metrics/AbcSize:
  Max: 146

# Offense count: 7
Metrics/BlockNesting:
  Max: 4

# Offense count: 9
# Configuration parameters: CountComments.
Metrics/ClassLength:
  Max: 251

# Offense count: 13
Metrics/CyclomaticComplexity:
  Max: 30

# Offense count: 443
# Configuration parameters: AllowURI, URISchemes.
Metrics/LineLength:
  Max: 253

# Offense count: 83
# Configuration parameters: CountComments.
Metrics/MethodLength:
  Max: 99

# Offense count: 1
# Configuration parameters: CountComments.
Metrics/ModuleLength:
  Max: 164

# Offense count: 18
Metrics/PerceivedComplexity:
  Max: 34

# Offense count: 11
# Cop supports --auto-correct.
Performance/StringReplacement:
  Exclude:
    - 'app/workers/fitbit_dump.rb'
    - 'app/workers/parsing.rb'
    - 'app/workers/zipgenotypingfiles.rb'

# Offense count: 20
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles, Include.
Rails/ActionFilter:
  Exclude:
    - 'app/controllers/fitbit_profiles_controller.rb'
    - 'app/controllers/genotypes_controller.rb'
    - 'app/controllers/messages_controller.rb'
    - 'app/controllers/password_resets_controller.rb'
    - 'app/controllers/phenotype_comments_controller.rb'
    - 'app/controllers/phenotype_sets_controller.rb'
    - 'app/controllers/phenotypes_controller.rb'
    - 'app/controllers/picture_phenotype_comments_controller.rb'
    - 'app/controllers/picture_phenotypes_controller.rb'
    - 'app/controllers/snp_comments_controller.rb'
    - 'app/controllers/snps_controller.rb'
    - 'app/controllers/user_phenotypes_controller.rb'
    - 'app/controllers/user_picture_phenotypes_controller.rb'
    - 'app/controllers/user_sessions_controller.rb'
    - 'app/controllers/users_controller.rb'

# Offense count: 8
# Configuration parameters: EnforcedStyle, SupportedStyles.
Rails/Date:
  Exclude:
    - 'app/workers/fitbit_edit.rb'

# Offense count: 1
# Cop supports --auto-correct.
Rails/Delegate:
  Exclude:
    - 'app/workers/parsing.rb'

# Offense count: 2
# Configuration parameters: Include.
Rails/HasAndBelongsToMany:
  Exclude:
    - 'app/models/phenotype.rb'
    - 'app/models/phenotype_set.rb'

# Offense count: 33
# Configuration parameters: Include.
Rails/Output:
  Exclude:
    - 'app/controllers/fitbit_profiles_controller.rb'
    - 'app/controllers/phenotype_sets_controller.rb'
    - 'app/controllers/picture_phenotypes_controller.rb'
    - 'app/controllers/snps_controller.rb'
    - 'app/mailers/user_mailer.rb'
    - 'app/workers/fitbit_dump.rb'
    - 'app/workers/fitbit_edit.rb'
    - 'app/workers/fitbit_init.rb'
    - 'app/workers/fitbit_notification.rb'
    - 'app/workers/pgpannotation.rb'

# Offense count: 2
# Cop supports --auto-correct.
# Configuration parameters: Include.
Rails/ReadWriteAttribute:
  Exclude:
    - 'app/models/mendeley_paper.rb'
    - 'app/models/snpedia_paper.rb'

# Offense count: 11
# Configuration parameters: EnforcedStyle, SupportedStyles.
Rails/TimeZone:
  Exclude:
    - 'app/workers/mendeley_search.rb'
    - 'app/workers/parsing.rb'
    - 'app/workers/zipgenotypingfiles.rb'
    - 'lib/tasks/dump_annotation.rake'
    - 'spec/integration/zipgenotypingfiles_spec.rb'
    - 'test/unit/plos_search_test.rb'

# Offense count: 11
# Configuration parameters: Include.
Rails/Validation:
  Exclude:
    - 'app/models/genotype.rb'
    - 'app/models/homepage.rb'
    - 'app/models/mendeley_paper.rb'
    - 'app/models/phenotype.rb'
    - 'app/models/phenotype_set.rb'
    - 'app/models/picture_phenotype.rb'
    - 'app/models/snp.rb'
    - 'app/models/user_phenotype.rb'
    - 'app/models/user_snp.rb'

# Offense count: 2
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/AccessModifierIndentation:
  Enabled: false

# Offense count: 1
Style/AccessorMethodName:
  Exclude:
    - 'app/controllers/phenotypes_controller.rb'

# Offense count: 8
# Cop supports --auto-correct.
# Configuration parameters: EnforcedHashRocketStyle, EnforcedColonStyle, EnforcedLastArgumentHashStyle, SupportedLastArgumentHashStyles.
Style/AlignHash:
  Exclude:
    - 'app/models/user_picture_phenotype.rb'
    - 'spec/workers/zipfulldata_spec.rb'
    - 'test/functional/phentoypes_controller_test.rb'
    - 'test/functional/users_controller_test.rb'
    - 'test/unit/snpedia_test.rb'

# Offense count: 10
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/AlignParameters:
  Exclude:
    - 'app/models/genotype.rb'
    - 'app/models/user.rb'
    - 'app/models/user_picture_phenotype.rb'
    - 'app/workers/recommendphenotypes.rb'
    - 'app/workers/recommendvariations.rb'
    - 'app/workers/zipfulldata.rb'
    - 'lib/phenotype_recommender.rb'
    - 'lib/variation_recommender.rb'
    - 'test/unit/genome_gov_test.rb'

# Offense count: 20
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/AndOr:
  Exclude:
    - 'app/controllers/beacon_controller.rb'
    - 'app/controllers/fitbit_profiles_controller.rb'
    - 'app/controllers/phenotypes_controller.rb'
    - 'app/controllers/picture_phenotypes_controller.rb'
    - 'app/controllers/user_phenotypes_controller.rb'
    - 'app/controllers/user_picture_phenotypes_controller.rb'
    - 'app/controllers/users_controller.rb'
    - 'app/workers/fitbit_notification.rb'
    - 'app/workers/mendeley_search.rb'
    - 'app/workers/pgpannotation.rb'
    - 'app/workers/zipfulldata.rb'
    - 'lib/tasks/clean_annotation.rake'

# Offense count: 2
Style/AsciiComments:
  Exclude:
    - 'app/controllers/beacon_controller.rb'
    - 'test/functional/beacon_controller_test.rb'

# Offense count: 1
# Cop supports --auto-correct.
Style/BlockComments:
  Exclude:
    - 'beautifier.rb'

# Offense count: 4
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles, ProceduralMethods, FunctionalMethods, IgnoredMethods.
Style/BlockDelimiters:
  Exclude:
    - 'app/controllers/users_controller.rb'
    - 'app/workers/pgpannotation.rb'

# Offense count: 29
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/BracesAroundHashParameters:
  Exclude:
    - 'app/controllers/fitbit_profiles_controller.rb'
    - 'app/workers/fitbit_edit.rb'
    - 'app/workers/fitbit_endsubscription.rb'
    - 'app/workers/fitbit_notification.rb'
    - 'app/workers/mendeley_search.rb'
    - 'test/functional/beacon_controller_test.rb'
    - 'test/unit/mendeley_search_test.rb'
    - 'test/unit/snp_test.rb'

# Offense count: 1
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/ClassAndModuleChildren:
  Exclude:
    - 'test/test_helper.rb'

# Offense count: 5
# Cop supports --auto-correct.
Style/ClassMethods:
  Exclude:
    - 'beautifier.rb'

# Offense count: 1
# Cop supports --auto-correct.
Style/ColonMethodCall:
  Exclude:
    - 'lib/tasks/update_snpedia_marshall_array.rake'

# Offense count: 3
# Cop supports --auto-correct.
Style/CommentIndentation:
  Exclude:
    - 'Capfile'
    - 'app/controllers/das_controller.rb'

# Offense count: 4
Style/ConstantName:
  Exclude:
    - 'beautifier.rb'

# Offense count: 4
# Cop supports --auto-correct.
Style/DefWithParentheses:
  Exclude:
    - 'app/workers/fixphenotypes.rb'
    - 'app/workers/pgpannotation.rb'
    - 'app/workers/recommendphenotypes.rb'
    - 'app/workers/recommendvariations.rb'

# Offense count: 5
# Cop supports --auto-correct.
Style/DeprecatedHashMethods:
  Exclude:
    - 'app/workers/frequency.rb'
    - 'app/workers/pgpannotation.rb'

# Offense count: 25
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/DotPosition:
  Enabled: false

# Offense count: 1
Style/DoubleNegation:
  Exclude:
    - 'app/models/user.rb'

# Offense count: 1
Style/EachWithObject:
  Exclude:
    - 'db/migrate/20140221060607_add_user_snps_count.rb'

# Offense count: 4
# Cop supports --auto-correct.
Style/ElseAlignment:
  Exclude:
    - 'app/controllers/das_controller.rb'
    - 'app/controllers/snp_comments_controller.rb'

# Offense count: 12
# Cop supports --auto-correct.
Style/EmptyLines:
  Exclude:
    - 'app/controllers/picture_phenotypes_controller.rb'
    - 'app/controllers/user_phenotypes_controller.rb'
    - 'app/controllers/user_picture_phenotypes_controller.rb'
    - 'app/controllers/users_controller.rb'
    - 'app/workers/zipfulldata.rb'
    - 'beautifier.rb'
    - 'config/environments/production.rb'
    - 'config/environments/staging.rb'
    - 'config/initializers/sidekiq.rb'
    - 'db/migrate/20130904010945_devise_create_admin_users.rb'
    - 'spec/integration/genotype_parsing_and_deleting_spec.rb'

# Offense count: 1
# Cop supports --auto-correct.
Style/EmptyLinesAroundAccessModifier:
  Exclude:
    - 'app/models/homepage.rb'

# Offense count: 3
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/EmptyLinesAroundBlockBody:
  Exclude:
    - 'app/workers/zipfulldata.rb'
    - 'db/migrate/20110615173154_create_genotypes.rb'

# Offense count: 22
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/EmptyLinesAroundClassBody:
  Enabled: false

# Offense count: 1
# Cop supports --auto-correct.
Style/EmptyLinesAroundMethodBody:
  Exclude:
    - 'app/controllers/phenotypes_controller.rb'

# Offense count: 2
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/EmptyLinesAroundModuleBody:
  Exclude:
    - 'app/helpers/users_helper.rb'
    - 'beautifier.rb'

# Offense count: 23
# Cop supports --auto-correct.
# Configuration parameters: AllowForAlignment.
Style/ExtraSpacing:
  Enabled: false

# Offense count: 21
# Configuration parameters: MinBodyLength.
Style/GuardClause:
  Exclude:
    - 'app/controllers/application_controller.rb'
    - 'app/controllers/fitbit_profiles_controller.rb'
    - 'app/controllers/genotypes_controller.rb'
    - 'app/controllers/messages_controller.rb'
    - 'app/controllers/password_resets_controller.rb'
    - 'app/controllers/phenotypes_controller.rb'
    - 'app/controllers/picture_phenotypes_controller.rb'
    - 'app/controllers/snps_controller.rb'
    - 'app/controllers/user_phenotypes_controller.rb'
    - 'app/controllers/user_picture_phenotypes_controller.rb'
    - 'app/controllers/users_controller.rb'
    - 'app/workers/mendeley_search.rb'
    - 'app/workers/snpedia.rb'

# Offense count: 410
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles, UseHashRocketsWithSymbolValues.
Style/HashSyntax:
  Enabled: false

# Offense count: 2
# Cop supports --auto-correct.
Style/IndentArray:
  Exclude:
    - 'beautifier.rb'

# Offense count: 77
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/IndentationConsistency:
  Enabled: false

# Offense count: 173
# Cop supports --auto-correct.
# Configuration parameters: Width.
Style/IndentationWidth:
  Enabled: false

# Offense count: 2
# Cop supports --auto-correct.
Style/Lambda:
  Exclude:
    - 'test/unit/mendeley_search_test.rb'
    - 'test/unit/snp_reference_test.rb'

# Offense count: 38
# Cop supports --auto-correct.
Style/LeadingCommentSpace:
  Enabled: false

# Offense count: 2
# Cop supports --auto-correct.
Style/LineEndConcatenation:
  Exclude:
    - 'app/controllers/genotypes_controller.rb'
    - 'spec/workers/zipfulldata_spec.rb'

# Offense count: 13
# Cop supports --auto-correct.
Style/MethodCallParentheses:
  Exclude:
    - 'app/controllers/phenotype_comments_controller.rb'
    - 'app/controllers/picture_phenotype_comments_controller.rb'
    - 'app/controllers/snp_comments_controller.rb'
    - 'app/controllers/user_picture_phenotypes_controller.rb'
    - 'app/workers/fitbit_endsubscription.rb'
    - 'app/workers/pgpannotation.rb'
    - 'app/workers/preparsing.rb'
    - 'lib/tasks/dump_annotation.rake'

# Offense count: 1
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/MethodName:
  Enabled: false

# Offense count: 4
Style/MultilineBlockChain:
  Exclude:
    - 'spec/integration/genotype_parsing_and_deleting_spec.rb'

# Offense count: 40
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/MultilineOperationIndentation:
  Enabled: false

# Offense count: 9
# Cop supports --auto-correct.
Style/NegatedIf:
  Exclude:
    - 'app/controllers/fitbit_profiles_controller.rb'
    - 'app/controllers/phenotype_sets_controller.rb'
    - 'app/controllers/users_controller.rb'
    - 'app/workers/plos_search.rb'
    - 'beautifier.rb'

# Offense count: 7
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, MinBodyLength, SupportedStyles.
Style/Next:
  Exclude:
    - 'app/controllers/phenotype_sets_controller.rb'
    - 'app/workers/fitbit_notification.rb'
    - 'app/workers/mendeley_search.rb'
    - 'app/workers/pgpannotation.rb'
    - 'app/workers/zipgenotypingfiles.rb'
    - 'db/migrate/20130904010950_move_admin_notes_to_comments.rb'
    - 'lib/tasks/delete_brokensnpedia.rake'

# Offense count: 26
# Cop supports --auto-correct.
Style/NilComparison:
  Enabled: false

# Offense count: 14
# Cop supports --auto-correct.
# Configuration parameters: IncludeSemanticChanges.
Style/NonNilCheck:
  Exclude:
    - 'app/controllers/das_controller.rb'
    - 'app/controllers/phenotype_comments_controller.rb'
    - 'app/controllers/phenotypes_controller.rb'
    - 'app/controllers/picture_phenotype_comments_controller.rb'
    - 'app/controllers/picture_phenotypes_controller.rb'
    - 'app/controllers/snp_comments_controller.rb'
    - 'app/controllers/users_controller.rb'
    - 'app/models/user.rb'
    - 'app/workers/fitbit_notification.rb'
    - 'lib/tasks/clean_annotation.rake'

# Offense count: 7
# Cop supports --auto-correct.
Style/Not:
  Exclude:
    - 'app/controllers/fitbit_profiles_controller.rb'
    - 'app/controllers/phenotype_sets_controller.rb'
    - 'app/controllers/users_controller.rb'
    - 'app/workers/plos_search.rb'
    - 'app/workers/preparsing.rb'
    - 'app/workers/zipfulldata.rb'

# Offense count: 5
# Cop supports --auto-correct.
Style/NumericLiterals:
  MinDigits: 8

# Offense count: 1
# Cop supports --auto-correct.
# Configuration parameters: AllowSafeAssignment.
Style/ParenthesesAroundCondition:
  Exclude:
    - 'beautifier.rb'

# Offense count: 7
# Cop supports --auto-correct.
# Configuration parameters: PreferredDelimiters.
Style/PercentLiteralDelimiters:
  Exclude:
    - 'app/controllers/fitbit_profiles_controller.rb'
    - 'app/controllers/genotypes_controller.rb'
    - 'app/controllers/phenotypes_controller.rb'
    - 'app/controllers/picture_phenotypes_controller.rb'
    - 'app/controllers/snps_controller.rb'
    - 'app/controllers/users_controller.rb'
    - 'app/models/user.rb'

# Offense count: 2
# Cop supports --auto-correct.
Style/PerlBackrefs:
  Exclude:
    - 'app/models/snpedia_paper.rb'

# Offense count: 1
# Configuration parameters: NamePrefix, NamePrefixBlacklist, NameWhitelist.
Style/PredicateName:
  Exclude:
    - 'app/models/genotype.rb'

# Offense count: 1
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/RaiseArgs:
  Enabled: false

# Offense count: 1
# Cop supports --auto-correct.
Style/RedundantBegin:
  Exclude:
    - 'app/controllers/beacon_controller.rb'

# Offense count: 7
# Cop supports --auto-correct.
# Configuration parameters: AllowMultipleReturnValues.
Style/RedundantReturn:
  Exclude:
    - 'app/controllers/phenotypes_controller.rb'
    - 'app/controllers/snps_controller.rb'
    - 'beautifier.rb'

# Offense count: 11
# Cop supports --auto-correct.
Style/RedundantSelf:
  Exclude:
    - 'app/models/fitbit_activity.rb'
    - 'app/models/fitbit_body.rb'
    - 'app/models/fitbit_sleep.rb'
    - 'app/models/homepage.rb'
    - 'app/models/message.rb'
    - 'app/models/user_session.rb'
    - 'app/workers/zipfulldata.rb'

# Offense count: 4
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles, AllowInnerSlashes.
Style/RegexpLiteral:
  Exclude:
    - 'beautifier.rb'

# Offense count: 1
# Cop supports --auto-correct.
Style/RescueEnsureAlignment:
  Exclude:
    - 'app/workers/zipfulldata.rb'

# Offense count: 3
# Cop supports --auto-correct.
Style/SelfAssignment:
  Exclude:
    - 'app/workers/fitbit_dump.rb'

# Offense count: 1
# Cop supports --auto-correct.
# Configuration parameters: AllowAsExpressionSeparator.
Style/Semicolon:
  Exclude:
    - 'db/migrate/20140221060607_add_user_snps_count.rb'

# Offense count: 3
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/SignalException:
  Exclude:
    - 'app/controllers/application_controller.rb'
    - 'app/workers/mendeley_search.rb'
    - 'db/migrate/20130124085042_change_fitbit_types.rb'

# Offense count: 2
# Configuration parameters: Methods.
Style/SingleLineBlockParams:
  Exclude:
    - 'db/migrate/20110912190409_change_snp_foreign_key_for_user_snps.rb'
    - 'db/migrate/20140221060607_add_user_snps_count.rb'

# Offense count: 20
# Cop supports --auto-correct.
Style/SingleSpaceBeforeFirstArg:
  Exclude:
    - 'db/migrate/20110615173154_create_genotypes.rb'
    - 'db/migrate/20111028190606_create_friendly_id_slugs.rb'
    - 'db/migrate/20130904010945_devise_create_admin_users.rb'
    - 'db/migrate/20130904010950_move_admin_notes_to_comments.rb'
    - 'db/migrate/20131117101353_add_references.rb'

# Offense count: 4
# Cop supports --auto-correct.
Style/SpaceAfterColon:
  Exclude:
    - 'beautifier.rb'

# Offense count: 162
# Cop supports --auto-correct.
Style/SpaceAfterComma:
  Enabled: false

# Offense count: 15
# Cop supports --auto-correct.
Style/SpaceAfterControlKeyword:
  Exclude:
    - 'beautifier.rb'

# Offense count: 2
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyleInsidePipes, SupportedStyles.
Style/SpaceAroundBlockParameters:
  Exclude:
    - 'spec/spec_helper.rb'

# Offense count: 85
# Cop supports --auto-correct.
# Configuration parameters: MultiSpaceAllowedForOperators.
Style/SpaceAroundOperators:
  Enabled: false

# Offense count: 3
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/SpaceBeforeBlockBraces:
  Enabled: false

# Offense count: 2
# Cop supports --auto-correct.
Style/SpaceBeforeComma:
  Exclude:
    - 'app/models/user_picture_phenotype.rb'
    - 'db/migrate/20120916212700_create_phenotype_sets_phenotypes_join_table.rb'

# Offense count: 7
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles, EnforcedStyleForEmptyBraces, SpaceBeforeBlockParameters.
Style/SpaceInsideBlockBraces:
  Enabled: false

# Offense count: 17
# Cop supports --auto-correct.
Style/SpaceInsideBrackets:
  Exclude:
    - 'app/controllers/genotypes_controller.rb'
    - 'app/controllers/phenotypes_controller.rb'
    - 'app/controllers/picture_phenotypes_controller.rb'
    - 'app/controllers/users_controller.rb'
    - 'app/models/snp.rb'
    - 'app/models/user_session.rb'
    - 'test/functional/phentoypes_controller_test.rb'

# Offense count: 60
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, EnforcedStyleForEmptyBraces, SupportedStyles.
Style/SpaceInsideHashLiteralBraces:
  Enabled: false

# Offense count: 14
# Cop supports --auto-correct.
Style/SpaceInsideParens:
  Exclude:
    - 'app/controllers/phenotypes_controller.rb'
    - 'app/controllers/picture_phenotypes_controller.rb'
    - 'app/models/fitbit_activity.rb'
    - 'app/models/fitbit_body.rb'
    - 'app/models/fitbit_sleep.rb'
    - 'app/workers/preparsing.rb'
    - 'lib/tasks/print_stats.rake'

# Offense count: 1
# Cop supports --auto-correct.
Style/SpecialGlobalVars:
  Exclude:
    - 'beautifier.rb'

# Offense count: 995
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/StringLiterals:
  Enabled: false

# Offense count: 6
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/StringLiteralsInInterpolation:
  Enabled: false

# Offense count: 9
# Cop supports --auto-correct.
# Configuration parameters: IgnoredMethods.
Style/SymbolProc:
  Exclude:
    - 'app/controllers/phenotypes_controller.rb'
    - 'app/controllers/users_controller.rb'
    - 'app/workers/fitbit_edit.rb'
    - 'app/workers/genome_gov.rb'
    - 'app/workers/pgpannotation.rb'
    - 'lib/tasks/update_snpedia_marshall_array.rake'

# Offense count: 292
# Cop supports --auto-correct.
Style/Tab:
  Enabled: false

# Offense count: 31
# Cop supports --auto-correct.
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/TrailingBlankLines:
  Enabled: false

# Offense count: 154
# Cop supports --auto-correct.
Style/TrailingWhitespace:
  Enabled: false

# Offense count: 5
# Configuration parameters: EnforcedStyle, SupportedStyles.
Style/VariableName:
  Enabled: false

# Offense count: 1
# Cop supports --auto-correct.
# Configuration parameters: WordRegex.
Style/WordArray:
  MinSize: 5