nsrr 0.4.0.beta1 → 6.0.0

checksums.yaml

@@ -1,7 +1,7 @@
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data/CHANGELOG.md

@@ -1,4 +1,22 @@
-## 0.4.0
+## 6.0.0 (January 16, 2021)
+
+### Enhancements
+- **General Changes**
+  - Added compatibility for Ruby 3.0.0
+
+## 5.0.0 (May 7, 2019)
+
+### Enhancements
+- **General Changes**
+  - Update to MIT license
+  - Update all server requests to use NSRR API v1
+- **Gem Changes**
+  - Update to ruby 2.6.3
+  - Update to bundler >= 1.3.0
+  - Update to simplecov 0.16.1
+  - Remove colorize
+
+## 0.4.0 (December 13, 2016)
 
 ### Enhancements
 - **Gem Changes**

data/LICENSE

@@ -1,111 +1,20 @@
-Copyright (c) 2016 NSRR
-https://github.com/nsrr
-
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+Copyright (c) 2016-2021 National Sleep Research Resource
+
+Permission is hereby granted, free of charge, to any person obtaining
+a copy of this software and associated documentation files (the
+"Software"), to deal in the Software without restriction, including
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+permit persons to whom the Software is furnished to do so, subject to
+the following conditions:
+
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+included in all copies or substantial portions of the Software.
+
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+EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
+MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
+NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE
+LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION
+OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION
+WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.

data/README.md

@@ -1,18 +1,17 @@
 # NSRR Ruby Gem
 
-[![Build Status](https://travis-ci.org/nsrr/nsrr-gem.svg?branch=master)](https://travis-ci.org/nsrr/nsrr-gem)
-[![Dependency Status](https://gemnasium.com/nsrr/nsrr-gem.svg)](https://gemnasium.com/nsrr/nsrr-gem)
+[![Build Status](https://travis-ci.com/nsrr/nsrr-gem.svg?branch=master)](https://travis-ci.com/nsrr/nsrr-gem)
 [![Code Climate](https://codeclimate.com/github/nsrr/nsrr-gem/badges/gpa.svg)](https://codeclimate.com/github/nsrr/nsrr-gem)
 
 The official ruby gem built to simplify file downloads and dataset integration tasks for the [National Sleep Research Resource](https://sleepdata.org).
 
 ## Prerequisites
 
-You must have **Ruby 2.2+ installed** on your system to use the NSRR gem.
+You must have **Ruby 2.4+ installed** on your system to use the NSRR gem.
 
-- [Install Ruby on Windows](http://rubyinstaller.org/)
-- [Install Ruby on Mac](https://github.com/remomueller/documentation/blob/master/macosx/140-install-ruby.md)
-- [Install Ruby on Linux (CentOS)](https://github.com/remomueller/documentation/blob/master/centos/140-install-ruby.md)
+- [Install Ruby on Windows](https://github.com/remomueller/documentation/blob/master/windows/130-ruby.md)
+- [Install Ruby on Mac](https://github.com/remomueller/documentation/blob/master/macos/130-install-rvm.md)
+- [Install Ruby on Linux (CentOS)](https://github.com/remomueller/documentation/blob/master/centos/130-install-rvm.md)
 
 ## Installation
 
@@ -24,14 +23,6 @@ Install it yourself as:
 gem install nsrr --no-document
 ```
 
-**NOTE:** There is a bug in newer versions of RubyGems that prevent the NSRR gem
-from running correctly. If you run into issues, downgrade RubyGems using the
-following command:
-
-```console
-gem update --system 2.4.8 --no-document
-```
-
 ## Usage
 
 ### Download files from a dataset
@@ -81,7 +72,7 @@ nsrr console
 ```
 
 ```
-d = Dataset.find 'shhs'
+d = Dataset.find "shhs"
 d.download
   Get your token here: https://sleepdata.org/token
   Your input is hidden while entering token.
@@ -100,24 +91,24 @@ d.download
 ```
 
 **method**
-  - 'md5' [default]
+  - "md5" [default]
     - Checks if a downloaded file exists with the exact md5 as the online version, if so, skips that file
-  - 'fresh'
+  - "fresh"
     - Downloads every file without checking if it was already downloaded
-  - 'fast'
+  - "fast"
     - Only checks if a download file exists with the same file size as the online version, if so, skips that file
 
 **depth**
-  - 'recursive' [default]
+  - "recursive" [default]
     - Downloads files in selected path folder and all subfolders
-  - 'shallow'
+  - "shallow"
     - Only downloads files in selected path folder
 
 For example to download only the shhs1 edfs folder and skip MD5 file validation:
 
 ```
-d = Dataset.find 'shhs'
-d.download('edfs/shhs1', method: 'fast', depth: 'shallow')
+d = Dataset.find "shhs"
+d.download("edfs/shhs1", method: "fast", depth: "shallow")
 
   Get your token here: https://sleepdata.org/token
   Your input is hidden while entering token.
@@ -136,7 +127,7 @@ d.download('edfs/shhs1', method: 'fast', depth: 'shallow')
 You can type `Ctrl-C` to pause the download, and retype the command to restart:
 
 ```
-d = Dataset.find 'shhs'
+d = Dataset.find "shhs"
 d.download
 
   Get your token here: https://sleepdata.org/token
@@ -208,32 +199,3 @@ location the files are being downloaded to (a root directory C: for example).
 It is recommended to use the gem without elevated privileges first in any case
 (to download directly to Desktop for example) before using admin privileges for
 the Ruby gem.
-
-### Issue "'method_missing': undefined method 'this'" when running NSRR commands
-
-There is a bug in newer versions of RubyGems that prevent the NSRR gem
-from running correctly. If you run into issues, downgrade RubyGems using the
-following command:
-
-The following versions of RubyGems cause issues while running NSRR commands:
-
-- `2.5.0`
-- `2.5.1`
-- `2.5.2`
-- `2.6.0`
-- `2.6.1`
-- `2.6.2`
-
-You can check which version you have installed by typing:
-
-```console
-gem -v
-```
-
-You can fix this error by reverting to the last stable version of RubyGems,
-`2.4.8`. Note: RubyGems `2.6.3` also includes a fix to this issue.
-
-```console
-gem update --system 2.4.8 --no-document
-```
-

data/Rakefile

@@ -1,11 +1,11 @@
 # frozen_string_literal: true
 
-require 'rake/testtask'
+require "rake/testtask"
 
 Rake::TestTask.new(:test) do |t|
-  t.libs << 'lib'
-  t.libs << 'test'
-  t.pattern = 'test/**/*_test.rb'
+  t.libs << "lib"
+  t.libs << "test"
+  t.pattern = "test/**/*_test.rb"
   t.verbose = false
   t.warning = false
 end

data/bin/nsrr

@@ -1,6 +1,6 @@
 #!/usr/bin/env ruby
 # frozen_string_literal: true
 
-require File.expand_path('../../lib/nsrr', __FILE__)
+require File.expand_path("../lib/nsrr", __dir__)
 
 Nsrr.launch(ARGV)

data/lib/nsrr.rb

@@ -1,13 +1,13 @@
 # frozen_string_literal: true
 
-require 'colorize'
-require 'nsrr/version'
+require "nsrr/helpers/color"
+require "nsrr/version"
 
 Nsrr::COMMANDS = {
-  'c' => :console,
-  'd' => :download,
-  'u' => :update,
-  'v' => :version
+  "c" => :console,
+  "d" => :download,
+  "u" => :update,
+  "v" => :version
 }.freeze
 
 # Exposes certain commands for access from the command line.
@@ -17,17 +17,17 @@ module Nsrr
   end
 
   def self.console(argv)
-    require 'nsrr/commands/console'
+    require "nsrr/commands/console"
     Nsrr::Commands::Console.start(argv)
   end
 
   def self.download(argv)
-    require 'nsrr/commands/download'
+    require "nsrr/commands/download"
     Nsrr::Commands::Download.run(argv)
   end
 
   def self.update(argv)
-    require 'nsrr/commands/update'
+    require "nsrr/commands/update"
     Nsrr::Commands::Update.start(argv)
   end
 
@@ -47,8 +47,8 @@ Commands can be referenced by the first letter:
   Ex: `nsrr v`, for version
 
 EOT
-    puts 'Read more on the download command here:'
-    puts '  ' + 'https://github.com/nsrr/nsrr-gem'.colorize(:blue).on_white.underline
+    puts "Read more on the download command here:"
+    puts "  " + "https://github.com/nsrr/nsrr-gem".bg_gray.blue.underline
     puts "\n"
   end
 

data/lib/nsrr/commands/console.rb

@@ -1,8 +1,8 @@
 # frozen_string_literal: true
 
-require 'irb'
-require 'irb/completion'
-require 'nsrr/models/all'
+require "irb"
+require "irb/completion"
+require "nsrr/models/all"
 
 module Nsrr
   module Commands

data/lib/nsrr/commands/download.rb

@@ -1,8 +1,8 @@
 # frozen_string_literal: true
 
-require 'colorize'
-require 'nsrr/models/all'
-require 'nsrr/helpers/authorization'
+require "nsrr/models/all"
+require "nsrr/helpers/authorization"
+require "nsrr/helpers/color"
 
 module Nsrr
   module Commands
@@ -18,53 +18,72 @@ module Nsrr
       attr_reader :token, :dataset_slug, :full_path, :file_comparison, :depth
 
       def initialize(argv)
-        (@token, argv) = parse_parameter_with_value(argv, ['token'], '')
-        (@file_comparison, argv) = parse_parameter(argv, ['fast', 'fresh', 'md5'], 'md5')
-        (@depth, argv) = parse_parameter(argv, ['shallow', 'recursive'], 'recursive')
-        @dataset_slug = argv[1].to_s.split('/').first
-        @full_path = (argv[1].to_s.split('/')[1..-1] || []).join('/')
+        (@token, argv) = parse_parameter_with_value(argv, ["token"], "")
+        (@file_comparison, argv) = parse_parameter(argv, ["fast", "fresh", "md5"], "md5")
+        (@depth, argv) = parse_parameter(argv, ["shallow", "recursive"], "recursive")
+        @dataset_slug = argv[1].to_s.split("/").first
+        @full_path = (argv[1].to_s.split("/")[1..-1] || []).join("/")
       end
 
       # Run with Authorization
       def run
         if @dataset_slug.nil?
-          puts 'Please specify a dataset: ' + 'nsrr download DATASET'.colorize(:white)
-          puts 'Read more on the download command here:'
-          puts '  ' + 'https://github.com/nsrr/nsrr-gem'.colorize(:blue).on_white.underline
+          puts "Please specify a dataset: " + "nsrr download DATASET".white
+          puts "Read more on the download command here:"
+          puts "  " + "https://github.com/nsrr/nsrr-gem".bg_gray.blue.underline
         else
-          @token = Nsrr::Helpers::Authorization.get_token(@token) if @token.to_s == ''
+          @token = Nsrr::Helpers::Authorization.get_token(@token) if @token.to_s == ""
           @dataset = Dataset.find(@dataset_slug, @token)
           if @dataset
             @dataset.download(@full_path, depth: @depth, method: @file_comparison)
           else
-            puts "\nThe dataset " + @dataset_slug.to_s.colorize(:white) + ' was not found.'
-            (datasets, _status) = Nsrr::Helpers::JsonRequest.get("#{Nsrr::WEBSITE}/datasets.json", auth_token: @token)
-            puts "Did you mean one of: #{datasets.collect { |d| d['slug'].colorize(:white)}.sort.join(', ') }" if datasets && datasets.size > 0
+            puts "\nThe dataset " + @dataset_slug.white + " was not found."
+            datasets = all_datasets
+            return if datasets.empty?
+
+            puts "Did you mean one of: #{datasets.collect { |d| d["slug"].white }.sort.join(", ")}"
           end
         end
       rescue Interrupt
-        puts "\nINTERRUPTED".colorize(:red)
+        puts "\nINTERRUPTED".red
       end
 
       private
 
+      def all_datasets
+        datasets = []
+        page = 1
+        loop do
+          new_datasets = datasets_on_page(page)
+          datasets += new_datasets
+          page += 1
+          break unless new_datasets.size == 10
+        end
+        datasets
+      end
+
+      def datasets_on_page(page)
+        params = { auth_token: @token, page: page }
+        (datasets, _status) = Nsrr::Helpers::JsonRequest.get("#{Nsrr::WEBSITE}/api/v1/datasets.json", params)
+        datasets || []
+      end
+
       def parse_parameter(argv, options, default)
         result = default
         options.each do |option|
           result = option if argv.delete "--#{option}"
         end
-        return [result, argv]
+        [result, argv]
       end
 
       def parse_parameter_with_value(argv, options, default)
         result = default
         options.each do |option|
           argv.each do |arg|
-            result = arg.gsub(/^--#{option}=/, '') if arg =~ /^--#{option}=\w/
+            result = arg.gsub(/^--#{option}=/, "") if arg =~ /^--#{option}=\w/
           end
         end
-
-        return [result, argv]
+        [result, argv]
       end
     end
   end