solvebio 1.8.1 → 1.9.0

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Files changed (6) hide show
  1. checksums.yaml +7 -0
  2. data/.bumpversion.cfg +1 -1
  3. data/CHANGELOG.md +86 -0
  4. data/lib/solvebio/cli/auth.rb +6 -4
  5. data/lib/solvebio/version.rb +1 -1
  6. metadata +28 -47
checksums.yaml ADDED
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data/.bumpversion.cfg CHANGED
@@ -1,5 +1,5 @@
1
1
  [bumpversion]
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- current_version = 1.8.1
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+ current_version = 1.9.0
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3
  files = lib/solvebio/version.rb
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  commit = True
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  tag = True
data/CHANGELOG.md ADDED
@@ -0,0 +1,86 @@
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+ # Change Log
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+
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+ ## [v1.9.0](https://github.com/solvebio/solvebio-ruby/tree/v1.9.0) (2016-03-28)
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+ [Full Changelog](https://github.com/solvebio/solvebio-ruby/compare/v1.8.1...v1.9.0)
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+
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+ **Fixed bugs:**
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+
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+ - Add support for domains to login cli [\#22](https://github.com/solvebio/solvebio-ruby/issues/22)
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+
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+ **Merged pull requests:**
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+
12
+ - add support for login domains \(fixes \#22\) [\#23](https://github.com/solvebio/solvebio-ruby/pull/23) ([davecap](https://github.com/davecap))
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+
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+ ## [v1.8.1](https://github.com/solvebio/solvebio-ruby/tree/v1.8.1) (2015-07-24)
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+ [Full Changelog](https://github.com/solvebio/solvebio-ruby/compare/v1.8.0...v1.8.1)
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+
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+ ## [v1.8.0](https://github.com/solvebio/solvebio-ruby/tree/v1.8.0) (2015-07-23)
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+ [Full Changelog](https://github.com/solvebio/solvebio-ruby/compare/v1.7.8...v1.8.0)
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+
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+ ## [v1.7.8](https://github.com/solvebio/solvebio-ruby/tree/v1.7.8) (2015-03-26)
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+ [Full Changelog](https://github.com/solvebio/solvebio-ruby/compare/v1.7.7...v1.7.8)
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+
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+ **Merged pull requests:**
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+
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+ - add beacon and changelog endpoints [\#19](https://github.com/solvebio/solvebio-ruby/pull/19) ([jsh2134](https://github.com/jsh2134))
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+
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+ ## [v1.7.7](https://github.com/solvebio/solvebio-ruby/tree/v1.7.7) (2015-02-23)
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+ [Full Changelog](https://github.com/solvebio/solvebio-ruby/compare/1.7.6...v1.7.7)
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+
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+ ## [1.7.6](https://github.com/solvebio/solvebio-ruby/tree/1.7.6) (2015-02-18)
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+ [Full Changelog](https://github.com/solvebio/solvebio-ruby/compare/1.7.3...1.7.6)
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+
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+ ## [1.7.3](https://github.com/solvebio/solvebio-ruby/tree/1.7.3) (2014-12-18)
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+ [Full Changelog](https://github.com/solvebio/solvebio-ruby/compare/1.7.2...1.7.3)
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+
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+ ## [1.7.2](https://github.com/solvebio/solvebio-ruby/tree/1.7.2) (2014-12-15)
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+ [Full Changelog](https://github.com/solvebio/solvebio-ruby/compare/1.7.1...1.7.2)
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+
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+ ## [1.7.1](https://github.com/solvebio/solvebio-ruby/tree/1.7.1) (2014-12-14)
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+ [Full Changelog](https://github.com/solvebio/solvebio-ruby/compare/1.7.0...1.7.1)
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+
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+ ## [1.7.0](https://github.com/solvebio/solvebio-ruby/tree/1.7.0) (2014-12-14)
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+ [Full Changelog](https://github.com/solvebio/solvebio-ruby/compare/1.6.1...1.7.0)
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+
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+ **Merged pull requests:**
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+
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+ - Refactor Ruby codebase [\#16](https://github.com/solvebio/solvebio-ruby/pull/16) ([davecap](https://github.com/davecap))
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+ - GenomicFilter for range and position filters on genomic datasets. [\#14](https://github.com/solvebio/solvebio-ruby/pull/14) ([rocky](https://github.com/rocky))
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+ - Rework API-key/login interaction. Add request rate-limiting. [\#13](https://github.com/solvebio/solvebio-ruby/pull/13) ([rocky](https://github.com/rocky))
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+ - Redo how len\(\) works. len\(\) is number of things one can iterate over. .count\(\) is the total number of items. The old "paging" mode is no more, although one can still set a "page\_size". [\#12](https://github.com/solvebio/solvebio-ruby/pull/12) ([rocky](https://github.com/rocky))
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+
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+ ## [1.6.1](https://github.com/solvebio/solvebio-ruby/tree/1.6.1) (2014-11-05)
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+ [Full Changelog](https://github.com/solvebio/solvebio-ruby/compare/1.5.2...1.6.1)
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+
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+ **Implemented enhancements:**
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+
57
+ - add test coverage for SolveBio::RangeFilter [\#4](https://github.com/solvebio/solvebio-ruby/issues/4)
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+
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+ **Fixed bugs:**
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+
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+ - SolveBio::RangeFilter errors [\#3](https://github.com/solvebio/solvebio-ruby/issues/3)
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+
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+ **Merged pull requests:**
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+
65
+ - Remove unused variable in assignment statement. [\#11](https://github.com/solvebio/solvebio-ruby/pull/11) ([rocky](https://github.com/rocky))
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+ - Sorts tabulate's fields [\#10](https://github.com/solvebio/solvebio-ruby/pull/10) ([rocky](https://github.com/rocky))
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+ - Bring in line with Python 1.6.0 - add sample and annotation resources. [\#9](https://github.com/solvebio/solvebio-ruby/pull/9) ([rocky](https://github.com/rocky))
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+
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+ ## [1.5.2](https://github.com/solvebio/solvebio-ruby/tree/1.5.2) (2014-10-01)
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+ [Full Changelog](https://github.com/solvebio/solvebio-ruby/compare/1.5.0...1.5.2)
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+
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+ **Merged pull requests:**
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+
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+ - Release 1.5.2 - this time, for sure [\#7](https://github.com/solvebio/solvebio-ruby/pull/7) ([rocky](https://github.com/rocky))
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+ - Dev changes - Add tabulate code [\#6](https://github.com/solvebio/solvebio-ruby/pull/6) ([rocky](https://github.com/rocky))
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+ - Tabulate [\#5](https://github.com/solvebio/solvebio-ruby/pull/5) ([rocky](https://github.com/rocky))
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+
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+ ## [1.5.0](https://github.com/solvebio/solvebio-ruby/tree/1.5.0) (2014-09-23)
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+ **Merged pull requests:**
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+
81
+ - weekly update [\#2](https://github.com/solvebio/solvebio-ruby/pull/2) ([rocky](https://github.com/rocky))
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+ - \(There will be more, if you want to wait until everything is finished.\) [\#1](https://github.com/solvebio/solvebio-ruby/pull/1) ([rocky](https://github.com/rocky))
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+
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+
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+
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+ \* *This Change Log was automatically generated by [github_changelog_generator](https://github.com/skywinder/Github-Changelog-Generator)*
data/lib/solvebio/cli/auth.rb CHANGED
@@ -13,11 +13,12 @@ module SolveBio
13
13
 
14
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  def ask_for_credentials()
15
15
  print_message('Enter your SolveBio credentials')
16
+ domain = Readline.readline('Domain (e.g. <domain>.solvebio.com): ', true)
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  email = Readline.readline('Email: ', true)
17
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  print 'Password (typing will be hidden): '
18
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  password = STDIN.noecho(&:gets).chomp
19
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  puts
20
- return email, password
21
+ return domain, email, password
21
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  end
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23
 
23
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  def send_install_report
@@ -33,14 +34,15 @@ module SolveBio
33
34
  end
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35
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  def login
36
- email, password = ask_for_credentials
37
+ domain, email, password = ask_for_credentials
37
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38
- if not email or not password
39
- puts "Email and password are both required."
39
+ if not domain or not email or not password
40
+ puts "Domain, email, and password are all required."
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  return false
41
42
  end
42
43
 
43
44
  data = {
45
+ :domain => domain.gsub('.solvebio.com', ''),
44
46
  :email => email,
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  :password => password
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  }
data/lib/solvebio/version.rb CHANGED
@@ -1,3 +1,3 @@
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  module SolveBio
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- VERSION = '1.8.1'
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+ VERSION = '1.9.0'
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  end
metadata CHANGED
@@ -1,137 +1,118 @@
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  --- !ruby/object:Gem::Specification
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2
  name: solvebio
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  version: !ruby/object:Gem::Version
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- version: 1.8.1
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- prerelease:
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+ version: 1.9.0
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5
  platform: ruby
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  authors:
8
7
  - SolveBio
9
8
  autorequire:
10
9
  bindir: bin
11
10
  cert_chain: []
12
- date: 2015-07-26 00:00:00.000000000 Z
11
+ date: 2016-03-28 00:00:00.000000000 Z
13
12
  dependencies:
14
13
  - !ruby/object:Gem::Dependency
15
14
  name: netrc
16
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  requirement: !ruby/object:Gem::Requirement
17
- none: false
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  requirements:
19
- - - ~>
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+ - - "~>"
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  - !ruby/object:Gem::Version
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  version: '0.7'
22
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  type: :runtime
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  prerelease: false
24
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  version_requirements: !ruby/object:Gem::Requirement
25
- none: false
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  requirements:
27
- - - ~>
24
+ - - "~>"
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  - !ruby/object:Gem::Version
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  version: '0.7'
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  - !ruby/object:Gem::Dependency
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  name: rest-client
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  requirement: !ruby/object:Gem::Requirement
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- none: false
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  requirements:
35
- - - ~>
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+ - - "~>"
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  - !ruby/object:Gem::Version
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  version: '1.7'
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- - - ! '>='
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+ - - ">="
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  - !ruby/object:Gem::Version
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  version: 1.7.3
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  type: :runtime
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  prerelease: false
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  version_requirements: !ruby/object:Gem::Requirement
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- none: false
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  requirements:
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- - - ~>
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+ - - "~>"
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  - !ruby/object:Gem::Version
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  version: '1.7'
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- - - ! '>='
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+ - - ">="
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  - !ruby/object:Gem::Version
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  version: 1.7.3
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  - !ruby/object:Gem::Dependency
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  name: addressable
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  requirement: !ruby/object:Gem::Requirement
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- none: false
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  requirements:
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- - - ~>
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+ - - "~>"
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  - !ruby/object:Gem::Version
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  version: '2.3'
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- - - ! '>='
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+ - - ">="
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  - !ruby/object:Gem::Version
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  version: 2.3.6
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  type: :runtime
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  prerelease: false
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  version_requirements: !ruby/object:Gem::Requirement
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- none: false
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  requirements:
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- - - ~>
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+ - - "~>"
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  - !ruby/object:Gem::Version
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  version: '2.3'
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- - - ! '>='
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+ - - ">="
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  - !ruby/object:Gem::Version
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  version: 2.3.6
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  - !ruby/object:Gem::Dependency
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  name: rake
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  requirement: !ruby/object:Gem::Requirement
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- none: false
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  requirements:
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- - - ! '>='
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+ - - ">="
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  - !ruby/object:Gem::Version
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  version: '0'
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  type: :development
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  prerelease: false
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  version_requirements: !ruby/object:Gem::Requirement
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- none: false
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  requirements:
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- - - ! '>='
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+ - - ">="
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  - !ruby/object:Gem::Version
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  version: '0'
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  - !ruby/object:Gem::Dependency
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  name: rdoc
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  requirement: !ruby/object:Gem::Requirement
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- none: false
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  requirements:
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- - - ! '>='
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+ - - ">="
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  - !ruby/object:Gem::Version
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  version: '0'
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  type: :development
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  prerelease: false
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  version_requirements: !ruby/object:Gem::Requirement
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- none: false
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  requirements:
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- - - ! '>='
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+ - - ">="
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  - !ruby/object:Gem::Version
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  version: '0'
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  - !ruby/object:Gem::Dependency
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  name: webmock
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  requirement: !ruby/object:Gem::Requirement
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- none: false
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  requirements:
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- - - ! '>='
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+ - - ">="
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  - !ruby/object:Gem::Version
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  version: '0'
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  type: :development
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  prerelease: false
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  version_requirements: !ruby/object:Gem::Requirement
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- none: false
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  requirements:
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- - - ! '>='
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+ - - ">="
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  - !ruby/object:Gem::Version
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  version: '0'
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- description: ! 'SolveBio is a platform for biomedical datasets. With SolveBio you
123
- can
124
-
109
+ description: |
110
+ SolveBio is a platform for biomedical datasets. With SolveBio you can
125
111
  forget about parsing complex flat files and sifting through cryptic
126
-
127
112
  datasets. Just use the Ruby Client and API to explore massive
128
-
129
113
  datasets and automate just about any bioinformatics workflow.
130
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131
-
132
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  See https://www.solvebio.com/ for more information.
133
-
134
- '
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116
  email: contact@solvebio.com
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117
  executables:
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118
  - solvebio.rb
@@ -139,8 +120,9 @@ extensions: []
139
120
  extra_rdoc_files:
140
121
  - LICENSE
141
122
  files:
142
- - .bumpversion.cfg
143
- - .gitignore
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+ - ".bumpversion.cfg"
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+ - ".gitignore"
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+ - CHANGELOG.md
144
126
  - Gemfile
145
127
  - LICENSE
146
128
  - README.md
@@ -205,26 +187,25 @@ files:
205
187
  homepage: https://www.solvebio.com
206
188
  licenses:
207
189
  - MIT
190
+ metadata: {}
208
191
  post_install_message:
209
192
  rdoc_options:
210
- - --charset=UTF-8
193
+ - "--charset=UTF-8"
211
194
  require_paths:
212
195
  - lib
213
196
  required_ruby_version: !ruby/object:Gem::Requirement
214
- none: false
215
197
  requirements:
216
- - - ! '>='
198
+ - - ">="
217
199
  - !ruby/object:Gem::Version
218
200
  version: 1.9.0
219
201
  required_rubygems_version: !ruby/object:Gem::Requirement
220
- none: false
221
202
  requirements:
222
- - - ! '>='
203
+ - - ">="
223
204
  - !ruby/object:Gem::Version
224
205
  version: '0'
225
206
  requirements: []
226
207
  rubyforge_project:
227
- rubygems_version: 1.8.23
208
+ rubygems_version: 2.4.5
228
209
  signing_key:
229
210
  specification_version: 2
230
211
  summary: Ruby bindings for the SolveBio API