aai 0.5.4 → 0.5.5

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA1:
-  metadata.gz: 83e9326464ba3bcc8266d478b1689b0adef734e8
-  data.tar.gz: e6ee0c76abc37879ce798e67ea8be3a655838ce6
+  metadata.gz: 4be485e8cb4b484a46f05a9c1d93b00ea88f2470
+  data.tar.gz: 23e1c8c12d35afb90151248a7065027e934b5d34
 SHA512:
-  metadata.gz: c1fa0cfe4f0111032abdba9b66193510393b0aa08cd70199ec2eabbf943ae1eed153a38c34ec9d42d9e946c2c4191a0aef7092b23769c72c32b034fdc046356e
-  data.tar.gz: 35040a4543e5ba6118e4988133fbb09e224a8ca493fe06f31a503fdf27b0df68bfb124cc08e55eea9a20dd9aad75f0e6659085a4861ef8088b9c996ddb250724
+  metadata.gz: 05f461b49af6042eeff678a5e203c692ee08fb497b84eec4065864c0c05b7f847af8b06d28d23bce29418ddca4df12622a9be4c3e82309de40c9ce6ca6d316ac
+  data.tar.gz: 7a14bd35a0515da46919fa54f82880c0c720b0fed8ea3b335ea45b7c1b0ad8c4ea357c03d4fba85347d8ce1b228dcc0973bb3dfa1ee1e6312ccd68b6ce6506f6

data/README.md

@@ -40,8 +40,16 @@ And then execute:
 
 ### Example
 
+After installing with `gem install` then the `aai` program should be available to you.  Try and get the help page:
+
+```
+$ aai --help
+```
+
+Then run the program like this:
+
 ```
-$ ruby exe/aai.rb --infiles *.fa --outdir aai_output
+$ aai --infiles *.fa --outdir aai_output
 ```
 
 ### Options

data/aai.gemspec

@@ -31,5 +31,5 @@ Gem::Specification.new do |spec|
   spec.add_runtime_dependency "parallel", "~> 1.6", ">= 1.6.1"
   spec.add_runtime_dependency "parse_fasta", "~> 2.2"
   spec.add_runtime_dependency "systemu", "~> 2.6", ">= 2.6.5"
-  spec.add_runtime_dependency "trollop", "~> 2.1", ">= 2.1.2"
+  spec.add_runtime_dependency "optimist", "~> 3.0"
 end

data/exe/aai

@@ -5,7 +5,7 @@ Signal.trap("PIPE", "EXIT")
 require "aai"
 require "abort_if"
 require "fileutils"
-require "trollop"
+require "optimist"
 
 include AbortIf
 include AbortIf::Assert
@@ -20,7 +20,7 @@ def move_files fnames, dest
   end
 end
 
-opts = Trollop.options do
+opts = Optimist.options do
   version Aai::VERSION_BANNER
 
   banner <<-EOS

data/lib/aai/version.rb

@@ -1,5 +1,5 @@
 module Aai
-  VERSION = "0.5.4"
+  VERSION = "0.5.5"
   COPYRIGHT = "2017 Ryan Moore"
   CONTACT   = "moorer@udel.edu"
   WEBSITE   = "https://github.com/mooreryan/aai"

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: aai
 version: !ruby/object:Gem::Version
-  version: 0.5.4
+  version: 0.5.5
 platform: ruby
 authors:
 - Ryan Moore
 autorequire: 
 bindir: exe
 cert_chain: []
-date: 2017-08-29 00:00:00.000000000 Z
+date: 2018-10-23 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: bundler
@@ -149,25 +149,19 @@ dependencies:
       - !ruby/object:Gem::Version
         version: 2.6.5
 - !ruby/object:Gem::Dependency
-  name: trollop
+  name: optimist
   requirement: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: '2.1'
-    - - ">="
-      - !ruby/object:Gem::Version
-        version: 2.1.2
+        version: '3.0'
   type: :runtime
   prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: '2.1'
-    - - ">="
-      - !ruby/object:Gem::Version
-        version: 2.1.2
+        version: '3.0'
 description: Calculate Seanie's amino acid similarity score between multiple genomes/bins.
 email:
 - moorer@udel.edu
@@ -214,7 +208,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
       version: '0'
 requirements: []
 rubyforge_project: 
-rubygems_version: 2.6.12
+rubygems_version: 2.6.14
 signing_key: 
 specification_version: 4
 summary: Seanie's amino acid similarity.