text-checkm 0.7
Sign up to get free protection for your applications and to get access to all the features.
- checksums.yaml +7 -0
- data/.document +5 -0
- data/.gitignore +312 -0
- data/.idea/$CACHE_FILE$ +26 -0
- data/.idea/.gitignore +6 -0
- data/.idea/go.imports.xml +6 -0
- data/.idea/inspectionProfiles/Project_Default.xml +17 -0
- data/.idea/inspectionProfiles/profiles_settings.xml +7 -0
- data/.idea/misc.xml +9 -0
- data/.idea/modules.xml +8 -0
- data/.idea/vcs.xml +6 -0
- data/.rubocop.yml +144 -0
- data/.ruby-version +1 -0
- data/.simplecov +7 -0
- data/CHANGELOG.md +7 -0
- data/Gemfile +2 -0
- data/Gemfile.lock +98 -0
- data/LICENSE.md +23 -0
- data/README.md +23 -0
- data/Rakefile +36 -0
- data/SPEC.txt +468 -0
- data/lib/text/checkm.rb +2 -0
- data/lib/text/checkm/checksum.rb +40 -0
- data/lib/text/checkm/entry.rb +77 -0
- data/lib/text/checkm/manifest.rb +115 -0
- data/lib/text/checkm/module_info.rb +16 -0
- data/rakelib/bundle.rake +8 -0
- data/rakelib/coverage.rake +5 -0
- data/rakelib/rubocop.rake +16 -0
- data/spec/.rubocop.yml +19 -0
- data/spec/data/merritt-manifest.checkm +9 -0
- data/spec/data/myfirst.checkm +5 -0
- data/spec/data/test_1/1 +1 -0
- data/spec/data/two-level-manifest.checkm +8 -0
- data/spec/lib/text/checkm/checksum_spec.rb +24 -0
- data/spec/lib/text/checkm/entry_spec.rb +52 -0
- data/spec/lib/text/checkm/manifest_spec.rb +157 -0
- data/spec/spec_helper.rb +23 -0
- data/text-checkm.gemspec +29 -0
- data/text-checkm.iml +51 -0
- metadata +236 -0
checksums.yaml
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---
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SHA256:
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metadata.gz: f46c51dd805d1e12eb1d3c91aa0f238f9f0760951e585c2b47f4bd03e34fe253
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data.tar.gz: 68d29caa7df2d95a133f05b301939569819c0c5bd993bedc4a2cc7e94e5a3db0
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SHA512:
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metadata.gz: 1c99abc9034038707e8edc566cb7cc91996d098840d98dd63305c780667b2f192969191c04b1216169f6804a7701c7a3ca2780b6f8a173303ff564f1f1486f71
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data.tar.gz: f8e3c007325b03ce145cb477f3bae2317a5d8fa0da89b6b52b80aef2658ec74beada9827e75465d005790e1b32c6da1532cda6530e13a0847bd8d65e7e9b85bc
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data/.document
ADDED
data/.gitignore
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############################################################
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# Custom ignores
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# github-markdown-preview previews
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*.md.html
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# Additional IDEA/RubyMine ignores
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.idea/.rakeTasks
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# Build/test artifacts
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/artifacts/
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############################################################
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# Generated ignores
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#### joe made this: http://goel.io/joe
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#### ruby ####
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*.gem
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*.rbc
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/.config
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/coverage/
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/InstalledFiles
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/pkg/
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/spec/reports/
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/spec/examples.txt
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/test/tmp/
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/test/version_tmp/
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/tmp/
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# Used by dotenv library to load environment variables.
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# .env
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# Ignore Byebug command history file.
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.byebug_history
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## Specific to RubyMotion:
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.dat*
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.repl_history
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40
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build/
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*.bridgesupport
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build-iPhoneOS/
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build-iPhoneSimulator/
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## Specific to RubyMotion (use of CocoaPods):
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#
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# We recommend against adding the Pods directory to your .gitignore. However
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# you should judge for yourself, the pros and cons are mentioned at:
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# https://guides.cocoapods.org/using/using-cocoapods.html#should-i-check-the-pods-directory-into-source-control
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#
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# vendor/Pods/
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## Documentation cache and generated files:
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/.yardoc/
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/_yardoc/
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/doc/
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/rdoc/
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## Environment normalization:
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/.bundle/
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/vendor/bundle
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/lib/bundler/man/
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# for a library or gem, you might want to ignore these files since the code is
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# intended to run in multiple environments; otherwise, check them in:
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# Gemfile.lock
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# .ruby-version
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# .ruby-gemset
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# unless supporting rvm < 1.11.0 or doing something fancy, ignore this:
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.rvmrc
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# Used by RuboCop. Remote config files pulled in from inherit_from directive.
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# .rubocop-https?--*
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#### rails ####
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*.rbc
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capybara-*.html
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.rspec
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81
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/db/*.sqlite3
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82
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/db/*.sqlite3-journal
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/db/*.sqlite3-[0-9]*
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/public/system
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/coverage/
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/spec/tmp
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*.orig
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88
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rerun.txt
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pickle-email-*.html
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90
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|
91
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# Ignore all logfiles and tempfiles.
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/log/*
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/tmp/*
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!/log/.keep
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!/tmp/.keep
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96
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|
97
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# TODO Comment out this rule if you are OK with secrets being uploaded to the repo
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98
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config/initializers/secret_token.rb
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config/master.key
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|
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# Only include if you have production secrets in this file, which is no longer a Rails default
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# config/secrets.yml
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# dotenv, dotenv-rails
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# TODO Comment out these rules if environment variables can be committed
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.env
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.env.*
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## Environment normalization:
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/.bundle
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/vendor/bundle
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|
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# these should all be checked in to normalize the environment:
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114
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# Gemfile.lock, .ruby-version, .ruby-gemset
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115
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+
|
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# unless supporting rvm < 1.11.0 or doing something fancy, ignore this:
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.rvmrc
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+
|
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# if using bower-rails ignore default bower_components path bower.json files
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/vendor/assets/bower_components
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*.bowerrc
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bower.json
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123
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|
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# Ignore pow environment settings
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125
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.powenv
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+
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# Ignore Byebug command history file.
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128
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.byebug_history
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129
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+
|
130
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# Ignore node_modules
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node_modules/
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+
|
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# Ignore precompiled javascript packs
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134
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/public/packs
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135
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/public/packs-test
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136
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/public/assets
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137
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+
|
138
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# Ignore yarn files
|
139
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/yarn-error.log
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140
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+
yarn-debug.log*
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141
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.yarn-integrity
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142
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+
|
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# Ignore uploaded files in development
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144
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/storage/*
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145
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!/storage/.keep
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146
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/public/uploads
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147
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+
|
148
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+
|
149
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#### emacs ####
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150
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# -*- mode: gitignore; -*-
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*~
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152
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\#*\#
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153
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/.emacs.desktop
|
154
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/.emacs.desktop.lock
|
155
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*.elc
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156
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auto-save-list
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157
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tramp
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.\#*
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159
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+
|
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# Org-mode
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.org-id-locations
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*_archive
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163
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+
|
164
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# flymake-mode
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165
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*_flymake.*
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166
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+
|
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# eshell files
|
168
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/eshell/history
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169
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/eshell/lastdir
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+
|
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# elpa packages
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/elpa/
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+
|
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# reftex files
|
175
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*.rel
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+
|
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# AUCTeX auto folder
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/auto/
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179
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+
|
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# cask packages
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.cask/
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dist/
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183
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+
|
184
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# Flycheck
|
185
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flycheck_*.el
|
186
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+
|
187
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# server auth directory
|
188
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/server/
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189
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+
|
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# projectiles files
|
191
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.projectile
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192
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+
|
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# directory configuration
|
194
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.dir-locals.el
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195
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+
|
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# network security
|
197
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/network-security.data
|
198
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+
|
199
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|
200
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|
201
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#### jetbrains ####
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# Covers JetBrains IDEs: IntelliJ, RubyMine, PhpStorm, AppCode, PyCharm, CLion, Android Studio, WebStorm and Rider
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# Reference: https://intellij-support.jetbrains.com/hc/en-us/articles/206544839
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|
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# User-specific stuff
|
206
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.idea/**/workspace.xml
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207
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.idea/**/tasks.xml
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208
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.idea/**/usage.statistics.xml
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209
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.idea/**/dictionaries
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210
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.idea/**/shelf
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211
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+
|
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# Generated files
|
213
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.idea/**/contentModel.xml
|
214
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+
|
215
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# Sensitive or high-churn files
|
216
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.idea/**/dataSources/
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217
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.idea/**/dataSources.ids
|
218
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.idea/**/dataSources.local.xml
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219
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.idea/**/sqlDataSources.xml
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220
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.idea/**/dynamic.xml
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221
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.idea/**/uiDesigner.xml
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.idea/**/dbnavigator.xml
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223
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+
|
224
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# Gradle
|
225
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.idea/**/gradle.xml
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226
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.idea/**/libraries
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227
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+
|
228
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# Gradle and Maven with auto-import
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# When using Gradle or Maven with auto-import, you should exclude module files,
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# since they will be recreated, and may cause churn. Uncomment if using
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# auto-import.
|
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# .idea/artifacts
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233
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# .idea/compiler.xml
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# .idea/jarRepositories.xml
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# .idea/modules.xml
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# .idea/*.iml
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# .idea/modules
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# *.iml
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# *.ipr
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240
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+
|
241
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# CMake
|
242
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cmake-build-*/
|
243
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+
|
244
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# Mongo Explorer plugin
|
245
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.idea/**/mongoSettings.xml
|
246
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+
|
247
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# File-based project format
|
248
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*.iws
|
249
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|
250
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# IntelliJ
|
251
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out/
|
252
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+
|
253
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# mpeltonen/sbt-idea plugin
|
254
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.idea_modules/
|
255
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+
|
256
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# JIRA plugin
|
257
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+
atlassian-ide-plugin.xml
|
258
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+
|
259
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# Cursive Clojure plugin
|
260
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+
.idea/replstate.xml
|
261
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+
|
262
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# Crashlytics plugin (for Android Studio and IntelliJ)
|
263
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com_crashlytics_export_strings.xml
|
264
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crashlytics.properties
|
265
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crashlytics-build.properties
|
266
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fabric.properties
|
267
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+
|
268
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# Editor-based Rest Client
|
269
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.idea/httpRequests
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270
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|
271
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# Android studio 3.1+ serialized cache file
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.idea/caches/build_file_checksums.ser
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|
274
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|
275
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#### macos ####
|
276
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# General
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277
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.DS_Store
|
278
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.AppleDouble
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279
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.LSOverride
|
280
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+
|
281
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# Icon must end with two \r
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282
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Icon
|
283
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+
|
284
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+
|
285
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# Thumbnails
|
286
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._*
|
287
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+
|
288
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# Files that might appear in the root of a volume
|
289
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.DocumentRevisions-V100
|
290
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+
.fseventsd
|
291
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+
.Spotlight-V100
|
292
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.TemporaryItems
|
293
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.Trashes
|
294
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+
.VolumeIcon.icns
|
295
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.com.apple.timemachine.donotpresent
|
296
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+
|
297
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# Directories potentially created on remote AFP share
|
298
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+
.AppleDB
|
299
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+
.AppleDesktop
|
300
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+
Network Trash Folder
|
301
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+
Temporary Items
|
302
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.apdisk
|
303
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+
|
304
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# Ignore master key for decrypting credentials and more.
|
305
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/config/master.key
|
306
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+
|
307
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/public/packs
|
308
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/public/packs-test
|
309
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/node_modules
|
310
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+
/yarn-error.log
|
311
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+
yarn-debug.log*
|
312
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+
.yarn-integrity
|
data/.idea/$CACHE_FILE$
ADDED
@@ -0,0 +1,26 @@
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1
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<?xml version="1.0" encoding="UTF-8"?>
|
2
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<project version="4">
|
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<component name="NodePackageJsonFileManager">
|
4
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<packageJsonPaths />
|
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</component>
|
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<component name="ProjectInspectionProfilesVisibleTreeState">
|
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<entry key="Project Default">
|
8
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<profile-state>
|
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<expanded-state>
|
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<State />
|
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<State>
|
12
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<id>Declaration redundancyGo</id>
|
13
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</State>
|
14
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<State>
|
15
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<id>Go</id>
|
16
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</State>
|
17
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</expanded-state>
|
18
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+
<selected-state>
|
19
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<State>
|
20
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<id>GoUnusedLabel</id>
|
21
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</State>
|
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</selected-state>
|
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</profile-state>
|
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</entry>
|
25
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</component>
|
26
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</project>
|
data/.idea/.gitignore
ADDED
@@ -0,0 +1,17 @@
|
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1
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<component name="InspectionProjectProfileManager">
|
2
|
+
<profile version="1.0">
|
3
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+
<option name="myName" value="Project Default" />
|
4
|
+
<inspection_tool class="GoNameStartsWithPackageName" enabled="false" level="WEAK WARNING" enabled_by_default="false" />
|
5
|
+
<inspection_tool class="GoSnakeCaseUsage" enabled="false" level="WEAK WARNING" enabled_by_default="false" />
|
6
|
+
<inspection_tool class="GoUnusedGlobalVariable" enabled="false" level="WEAK WARNING" enabled_by_default="false" />
|
7
|
+
<inspection_tool class="GoUnusedVariable" enabled="true" level="WARNING" enabled_by_default="true" />
|
8
|
+
<inspection_tool class="Rubocop" enabled="false" level="WARNING" enabled_by_default="false" />
|
9
|
+
<inspection_tool class="RubyCaseWithoutElseBlockInspection" enabled="false" level="WARNING" enabled_by_default="false" />
|
10
|
+
<inspection_tool class="RubyStringKeysInHashInspection" enabled="true" level="INFORMATION" enabled_by_default="true" />
|
11
|
+
<inspection_tool class="SpellCheckingInspection" enabled="false" level="TYPO" enabled_by_default="false">
|
12
|
+
<option name="processCode" value="true" />
|
13
|
+
<option name="processLiterals" value="true" />
|
14
|
+
<option name="processComments" value="true" />
|
15
|
+
</inspection_tool>
|
16
|
+
</profile>
|
17
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</component>
|
data/.idea/misc.xml
ADDED
@@ -0,0 +1,9 @@
|
|
1
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+
<?xml version="1.0" encoding="UTF-8"?>
|
2
|
+
<project version="4">
|
3
|
+
<component name="JavaScriptSettings">
|
4
|
+
<option name="languageLevel" value="ES6" />
|
5
|
+
</component>
|
6
|
+
<component name="ProjectRootManager" version="2" languageLevel="JDK_11" default="false" project-jdk-name="RVM: ruby-2.7.0" project-jdk-type="RUBY_SDK">
|
7
|
+
<output url="file://$PROJECT_DIR$/out" />
|
8
|
+
</component>
|
9
|
+
</project>
|
data/.idea/modules.xml
ADDED
data/.idea/vcs.xml
ADDED
data/.rubocop.yml
ADDED
@@ -0,0 +1,144 @@
|
|
1
|
+
AllCops:
|
2
|
+
# Exclude generated files
|
3
|
+
Exclude:
|
4
|
+
- 'bin/**/*'
|
5
|
+
- 'db/**/*'
|
6
|
+
- 'out/**/*'
|
7
|
+
- 'node_modules/**/*'
|
8
|
+
|
9
|
+
# Added in RuboCop 0.83
|
10
|
+
Layout/EmptyLinesAroundAttributeAccessor:
|
11
|
+
Enabled: true
|
12
|
+
|
13
|
+
# Allow one line around block body (Layout/EmptyLines will still disallow two or more)
|
14
|
+
Layout/EmptyLinesAroundBlockBody:
|
15
|
+
Enabled: false
|
16
|
+
|
17
|
+
# Allow one line around class body (Layout/EmptyLines will still disallow two or more)
|
18
|
+
Layout/EmptyLinesAroundClassBody:
|
19
|
+
Enabled: false
|
20
|
+
|
21
|
+
# Allow one line around module body (Layout/EmptyLines will still disallow two or more)
|
22
|
+
Layout/EmptyLinesAroundModuleBody:
|
23
|
+
Enabled: false
|
24
|
+
|
25
|
+
# Reasonable line-length check; it's too easy for the cure to be worse than the disease
|
26
|
+
Layout/LineLength:
|
27
|
+
Max: 150
|
28
|
+
|
29
|
+
# Make indents consistent regardless of the lengths of variables and method names and whatnot
|
30
|
+
Layout/MultilineMethodCallIndentation:
|
31
|
+
EnforcedStyle: indented
|
32
|
+
|
33
|
+
# Produces monsters
|
34
|
+
Layout/MultilineOperationIndentation:
|
35
|
+
Enabled: false
|
36
|
+
|
37
|
+
# Added in RuboCop 0.84
|
38
|
+
Lint/DeprecatedOpenSSLConstant:
|
39
|
+
Enabled: true
|
40
|
+
|
41
|
+
# Added in RuboCop 0.81
|
42
|
+
Lint/RaiseException:
|
43
|
+
Enabled: true
|
44
|
+
|
45
|
+
# Added in RuboCop 0.85
|
46
|
+
Lint/MixedRegexpCaptureTypes:
|
47
|
+
Enabled: true
|
48
|
+
|
49
|
+
# Added in RuboCop 0.82
|
50
|
+
Layout/SpaceAroundMethodCallOperator:
|
51
|
+
Enabled: true
|
52
|
+
|
53
|
+
# Added in RuboCop 0.81
|
54
|
+
Lint/StructNewOverride:
|
55
|
+
Enabled: true
|
56
|
+
|
57
|
+
# We meant to do that
|
58
|
+
Naming/MemoizedInstanceVariableName:
|
59
|
+
Enabled: False
|
60
|
+
|
61
|
+
# It works in context, trust us
|
62
|
+
Naming/MethodParameterName:
|
63
|
+
Enabled: False
|
64
|
+
|
65
|
+
# Confusing and weird
|
66
|
+
Naming/VariableNumber:
|
67
|
+
Enabled: False
|
68
|
+
|
69
|
+
# Do what's readable in the context you're in
|
70
|
+
Style/AccessModifierDeclarations:
|
71
|
+
Enabled: false
|
72
|
+
|
73
|
+
# 👎 to cultural imperialism
|
74
|
+
Style/AsciiComments:
|
75
|
+
Enabled: false
|
76
|
+
|
77
|
+
# Seriously?
|
78
|
+
Style/CommentedKeyword:
|
79
|
+
Enabled: False
|
80
|
+
|
81
|
+
# Disable problematic module documentation check (see https://github.com/bbatsov/rubocop/issues/947)
|
82
|
+
Style/Documentation:
|
83
|
+
Enabled: false
|
84
|
+
|
85
|
+
# Added in RuboCop 0.82
|
86
|
+
Style/ExponentialNotation:
|
87
|
+
Enabled: false
|
88
|
+
|
89
|
+
# Adding more line noise to format strings will not improve them
|
90
|
+
Style/FormatStringToken:
|
91
|
+
Enabled: false
|
92
|
+
|
93
|
+
# Putting '# frozen_string_literal: true' everywhere does not make the world a better place
|
94
|
+
Style/FrozenStringLiteralComment:
|
95
|
+
Enabled: false
|
96
|
+
|
97
|
+
# Added in RuboCop 0.80
|
98
|
+
Style/HashEachMethods:
|
99
|
+
Enabled: true
|
100
|
+
|
101
|
+
# Added in RuboCop 0.80
|
102
|
+
Style/HashTransformKeys:
|
103
|
+
Enabled: true
|
104
|
+
|
105
|
+
# Added in RuboCop 0.80
|
106
|
+
Style/HashTransformValues:
|
107
|
+
Enabled: true
|
108
|
+
|
109
|
+
# Requiring the lambda() method just makes wordy calls wordier
|
110
|
+
Style/Lambda:
|
111
|
+
EnforcedStyle: literal
|
112
|
+
|
113
|
+
# `foo.positive?` is cute, but it's not actually more readable than `foo > 0`
|
114
|
+
Style/NumericPredicate:
|
115
|
+
Enabled: false
|
116
|
+
|
117
|
+
# Added in RuboCop 0.86
|
118
|
+
Style/RedundantFetchBlock:
|
119
|
+
Enabled: true
|
120
|
+
|
121
|
+
# Added in RuboCop 0.85
|
122
|
+
Style/RedundantRegexpCharacterClass:
|
123
|
+
Enabled: true
|
124
|
+
|
125
|
+
# Added in RuboCop 0.85
|
126
|
+
Style/RedundantRegexpEscape:
|
127
|
+
Enabled: true
|
128
|
+
|
129
|
+
# Don't be unnecessarily redundant
|
130
|
+
Style/ReturnNil:
|
131
|
+
Enabled: true
|
132
|
+
EnforcedStyle: return
|
133
|
+
|
134
|
+
# Unclear why it's a good idea to give parameters semantically meaningless names
|
135
|
+
Style/SingleLineBlockParams:
|
136
|
+
Enabled: false
|
137
|
+
|
138
|
+
# Added in RuboCop 0.83
|
139
|
+
Style/SlicingWithRange:
|
140
|
+
Enabled: true
|
141
|
+
|
142
|
+
# The semantics of `foo&.bar` are a lot less interchangeable with `foo && foo.bar` than RuboCop thinks
|
143
|
+
Style/SafeNavigation:
|
144
|
+
Enabled: false
|