viral_seq 1.0.5 → 1.0.10

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
@@ -2,5 +2,6 @@
2
2
  # version info and histroy
3
3
 
4
4
  module ViralSeq
5
- VERSION = "1.0.5"
5
+ VERSION = "1.0.10"
6
+ TCS_VERSION = "2.1.0"
6
7
  end
@@ -26,10 +26,14 @@ Gem::Specification.new do |spec|
26
26
  spec.post_install_message = "Thanks for installing!"
27
27
 
28
28
  spec.add_development_dependency "bundler", "~> 2.0"
29
- spec.add_development_dependency "rake", "~> 10.0"
29
+ spec.add_development_dependency "rake", "~> 13.0"
30
30
  spec.add_development_dependency "rspec", "~> 3.0"
31
31
 
32
32
  # muscle_bio gem required
33
33
  spec.add_runtime_dependency "muscle_bio", "~> 0.4"
34
+
35
+ # colorize gem required
36
+ spec.add_runtime_dependency "colorize", "~> 0.1"
37
+
34
38
  spec.requirements << 'R required for some functions'
35
39
  end
metadata CHANGED
@@ -1,7 +1,7 @@
1
1
  --- !ruby/object:Gem::Specification
2
2
  name: viral_seq
3
3
  version: !ruby/object:Gem::Version
4
- version: 1.0.5
4
+ version: 1.0.10
5
5
  platform: ruby
6
6
  authors:
7
7
  - Shuntai Zhou
@@ -9,7 +9,7 @@ authors:
9
9
  autorequire:
10
10
  bindir: bin
11
11
  cert_chain: []
12
- date: 2019-07-11 00:00:00.000000000 Z
12
+ date: 2020-11-12 00:00:00.000000000 Z
13
13
  dependencies:
14
14
  - !ruby/object:Gem::Dependency
15
15
  name: bundler
@@ -31,14 +31,14 @@ dependencies:
31
31
  requirements:
32
32
  - - "~>"
33
33
  - !ruby/object:Gem::Version
34
- version: '10.0'
34
+ version: '13.0'
35
35
  type: :development
36
36
  prerelease: false
37
37
  version_requirements: !ruby/object:Gem::Requirement
38
38
  requirements:
39
39
  - - "~>"
40
40
  - !ruby/object:Gem::Version
41
- version: '10.0'
41
+ version: '13.0'
42
42
  - !ruby/object:Gem::Dependency
43
43
  name: rspec
44
44
  requirement: !ruby/object:Gem::Requirement
@@ -67,6 +67,20 @@ dependencies:
67
67
  - - "~>"
68
68
  - !ruby/object:Gem::Version
69
69
  version: '0.4'
70
+ - !ruby/object:Gem::Dependency
71
+ name: colorize
72
+ requirement: !ruby/object:Gem::Requirement
73
+ requirements:
74
+ - - "~>"
75
+ - !ruby/object:Gem::Version
76
+ version: '0.1'
77
+ type: :runtime
78
+ prerelease: false
79
+ version_requirements: !ruby/object:Gem::Requirement
80
+ requirements:
81
+ - - "~>"
82
+ - !ruby/object:Gem::Version
83
+ version: '0.1'
70
84
  description: |-
71
85
  A Ruby Gem with bioinformatics tools for processing viral NGS data.
72
86
  Specifically for Primer-ID sequencing and HIV drug resistance analysis.
@@ -75,6 +89,7 @@ email:
75
89
  - clarkmu@gmail.com
76
90
  executables:
77
91
  - locator
92
+ - tcs
78
93
  extensions: []
79
94
  extra_rdoc_files: []
80
95
  files:
@@ -88,6 +103,7 @@ files:
88
103
  - README.md
89
104
  - Rakefile
90
105
  - bin/locator
106
+ - bin/tcs
91
107
  - lib/viral_seq.rb
92
108
  - lib/viral_seq/constant.rb
93
109
  - lib/viral_seq/enumerable.rb
@@ -102,6 +118,8 @@ files:
102
118
  - lib/viral_seq/seq_hash_pair.rb
103
119
  - lib/viral_seq/sequence.rb
104
120
  - lib/viral_seq/string.rb
121
+ - lib/viral_seq/tcs_core.rb
122
+ - lib/viral_seq/tcs_json.rb
105
123
  - lib/viral_seq/version.rb
106
124
  - viral_seq.gemspec
107
125
  homepage: https://github.com/ViralSeq/viral_seq
@@ -124,7 +142,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
124
142
  version: '0'
125
143
  requirements:
126
144
  - R required for some functions
127
- rubygems_version: 3.0.3
145
+ rubygems_version: 3.1.2
128
146
  signing_key:
129
147
  specification_version: 4
130
148
  summary: A Ruby Gem containing bioinformatics tools for processing viral NGS data.