ffc 0.1.0 → 0.1.1

checksums.yaml

@@ -1,7 +1,7 @@
 ---
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-  data.tar.gz: 578acf312a8d7768ce31d831b4d28db67b784a3f
+  metadata.gz: defe1a3fab20213b90eb9cfd222a90534a3eb3a1
+  data.tar.gz: c1c99152708b698445ce851972ee4520ff27e903
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+  metadata.gz: 317405d557a0c30dd38fb972b12bcacab1001eb9182ec2e9ee83a4a7b36a6bdb8715556d14d51dd5dac015056dabde273fcf10dba567774e490847e43127259a
+  data.tar.gz: 76f0cf01ecfbaad2b29991f3dea7b7b1d4b8a4609a2a5900b57effdd06e88826ad444c9dcb1d2c76eb57a7bb0c15626dc2abfcaa9de07c402ce70cbb34f10f25

data/.coveralls.yml

@@ -0,0 +1 @@
+repo_token: XikFUXoviVzpmFkaeGTjReAR6hDeQfBIP

data/.gitignore

@@ -13,4 +13,4 @@
 
 /vendor/bundle
 .DS_Store
-
+.#*

data/.travis.yml

@@ -2,4 +2,13 @@ sudo: false
 language: ruby
 rvm:
   - 2.4.0
+  - 2.2
+  - 2.1
+  - 2.0
 before_install: gem install bundler -v 1.14.4
+script:
+  - bundle exec rspec
+branches:
+  only:
+    - master
+

data/README.md

@@ -1,4 +1,8 @@
 # FFC
+[![Gem Version](https://badge.fury.io/rb/ffc.svg)](https://badge.fury.io/rb/ffc)
+[![Build Status](https://travis-ci.org/6br/ffc.svg?branch=master)](https://travis-ci.org/6br/ffc)
+[![Stories in Ready](https://badge.waffle.io/6br/ffc.svg?label=ready&title=Ready)](http://waffle.io/6br/ffc)
+[![Code Climate](https://codeclimate.com/github/6br/ffc/badges/gpa.svg)](https://codeclimate.com/github/6br/ffc)
 
 File Formats Conversion Tool
 
@@ -12,6 +16,11 @@ Install it yourself as:
 
 ## Examples
 
+To compile programs:
+
+    $ ffc convert sample.c a.out
+    $ ffc c sample.c a.out
+
 To convert markdown file to HTML file:
 
     $ ffc convert a.md a.html

data/ffc.gemspec

@@ -32,6 +32,8 @@ Gem::Specification.new do |spec|
   spec.add_development_dependency "bundler", "~> 1.14"
   spec.add_development_dependency "rake", "~> 10.0"
   spec.add_development_dependency "rspec", "~> 3.0"
+  spec.add_development_dependency "coveralls"
+  spec.add_development_dependency "codeclimate-test-reporter"
   spec.add_runtime_dependency "thor"
   spec.add_runtime_dependency "tty-prompt"
   spec.add_runtime_dependency "config"

data/lib/ffc.rb

@@ -67,16 +67,21 @@ module Conv
       items << ConvItem.new(input: ["sam"], output: ["bam"], command: "samtools view -bS {input} > {output}", substitute: "{}", package: "samtools", output_buffer: :stdout)
       items << ConvItem.new(input: ["bam"], output: ["bai"], command: "samtools index {input}", substitute: "{}", package: "samtools")
       items << ConvItem.new(input: ["fa"], output: ["fai"], command: "samtools faidx {input}", substitute: "{}", package: "samtools")
+      items << ConvItem.new(input: ["fasta"], output: ["fai"], command: "samtools faidx {input}", substitute: "{}", package: "samtools")
+      #items << ConvItem.new(input: ["fa", "vcf.gz"], output: ["fa"], command: "bcftools consensus {input} {input} > {output}", substitute: "{}", package: "bcftools")
+      #items << ConvItem.new(input: ["fasta", "vcf.gz"], output: ["fa"], command: "bcftools consensus {input} {input} > {output}", substitute: "{}", package: "bcftools")
       items << ConvItem.new(input: ["bam"], output: ["fasta"], command: "samtools fasta {input} > {output}", substitute: "{}", package: "samtools")
       items << ConvItem.new(input: ["bam"], output: ["fastq"], command: "samtools fastq {input} > {output}", substitute: "{}", package: "samtools")
       items << ConvItem.new(input: ["sam"], output: ["gtf"], command: "cufflinks {input}", substitute: "{}", package: "cufflinks")
       items << ConvItem.new(input: ["bam"], output: ["gtf"], command: "cufflinks {input}", substitute: "{}", package: "cufflinks")
       items << ConvItem.new(input: ["vcf"], output: ["vcf.gz"], command: "bgzip -c {input} > {output}", substitute: "{}", package: "samtools")
       items << ConvItem.new(input: ["mid"], output: ["wav"], command: "timidity {input} -Ow -o {output}", substitute: "{}", package: "tmidity")
+      items << ConvItem.new(input: ["midi"], output: ["wav"], command: "timidity {input} -Ow -o {output}", substitute: "{}", package: "tmidity")
       items << ConvItem.new(input: ["sam", "gtf"], output: ["txt"], command: "htseq-count {input} {input} > {output}", substitute: "{}", package: "htseq", pacman: "pip install")
       items << ConvItem.new(input: ["bam", "gtf"], output: ["txt"], command: "htseq-count -f bam {input} {input} > {output}", substitute: "{}", package: "htseq", pacman: "pip install")
-      ["png", "pdf", "ps", "jpg"].each do |i|
+      ["png", "pdf", "ps", "jpg", "svg"].each do |i|
         items << ConvItem.new(input: ["dot"], output: [i], command: "dot -T#{i} {input} > {output}", substitute: "{}", package: "graphviz")
+        items << ConvItem.new(input: ["dot"], output: [i], command: "neato -T#{i} {input} > {output}", substitute: "{}", package: "graphviz")
       end
       ["png", "jpg", "tif", "bmp", "gif"].permutation(2).each do |i, j|
         items << ConvItem.new(input: [i], output: [j], command: "convert {input} {output}", substitute: "{}", package: "imagemagick")
@@ -84,16 +89,49 @@ module Conv
       items << ConvItem.new(input: ["wav"], output: ["mp3"], command: "lame {input} {output}", substitute: "{}", package: "lame")
       items << ConvItem.new(input: ["wav"], output: ["mp3"], command: "avconv -i {input} {output}", substitute: "{}", package: "libav")
       items << ConvItem.new(input: ["md"], output: ["html"], command: "python -m markdown {input} > {output}", substitute: "{}", package: "markdown", pacman: "pip install")
+      items << ConvItem.new(input: ["markdown"], output: ["html"], command: "python -m markdown {input} > {output}", substitute: "{}", package: "markdown", pacman: "pip install")
       items << ConvItem.new(input: ["md"], output: ["html"], command: "pandoc -f markdown_github {input} > {output}", substitute: "{}", package: "pandoc")
+      items << ConvItem.new(input: ["markdown"], output: ["html"], command: "pandoc -f markdown_github {input} > {output}", substitute: "{}", package: "pandoc")
+
+      # Compile without options.
+      items << ConvItem.new(input: ["c"], output: ["o"], command: "gcc -c -o {output} {input}", package: "gcc", lang: "c")
+      items << ConvItem.new(input: ["c"], output: ["out"], command: "gcc -o {output} {input}", package: "gcc", lang: "c")
+      items << ConvItem.new(input: ["c"], output: ["o"], command: "clang -c -o {output} {input}", package: "clang", lang:"c")
+      items << ConvItem.new(input: ["c"], output: ["out"], command: "clang -o {output} {input}", package: "clang", lang:"c")
+      items << ConvItem.new(input: ["cpp"], output: ["o"], command: "g++ -c -o {output} {input}", package: "g++", lang: "c++")
+      items << ConvItem.new(input: ["cpp"], output: ["out"], command: "g++ -o {output} {input}", package: "g++", lang: "c++")
+      items << ConvItem.new(input: ["cpp"], output: ["o"], command: "clang++ -c -o {output} {input}", package: "clang", lang: "c++")
+      items << ConvItem.new(input: ["cpp"], output: ["out"], command: "clang++ -o {output} {input}", package: "clang", lang: "c++")
+      items << ConvItem.new(input: ["cc"], output: ["o"], command: "g++ -c -o {output} {input}", package: "g++", lang: "c++")
+      items << ConvItem.new(input: ["cc"], output: ["out"], command: "g++ -o {output} {input}", package: "g++", lang: "c++")
+      items << ConvItem.new(input: ["cc"], output: ["o"], command: "clang++ -c -o {output} {input}", package: "clang", lang: "c++")
+      items << ConvItem.new(input: ["cc"], output: ["out"], command: "clang++ -o {output} {input}", package: "clang", lang: "c++")
+
+      items << ConvItem.new(input: ["rs"], output: ["out"], command: "rustc -o {output} {input}", package: "rust", lang: "rust", warning: "Use cargo")
+      items << ConvItem.new(input: ["hs"], output: ["out"], command: "ghc -o {output} {input}", package: "ghc", lang: "haskell", warning: "Use cabal / stack")
+      items << ConvItem.new(input: ["d"], output: ["out"], command: "gdc -o {output} {input}", package: "gdc", lang: "d")
+      items << ConvItem.new(input: ["cr"], output: ["out"], command: "crystal build -o {output} {input}", package: "crystal", lang: "crystal")
+      items << ConvItem.new(input: ["cr"], output: ["out"], command: "mlton -output {output} {input}", package: "mlton", lang: "standard ML")
+      items << ConvItem.new(input: ["swift"], output: ["out"], command: "swiftc -o {output} {input}", package: "swift", lang: "swift")
+      items << ConvItem.new(input: ["go"], output: ["out"], command: "go build -o {output} {input}", package: "go", lang: "golang")
+
+      # https://github.com/jashkenas/coffeescript/wiki/list-of-languages-that-compile-to-js
+      items << ConvItem.new(input: ["ts"], output: ["js"], command: "tsc {input}", package: "typescript", lang: "typescript", pacman: "npm install -g")
+      items << ConvItem.new(input: ["coffee"], output: ["js"], command: "coffee {input}", package: "coffee-script", lang: "coffee-script", pacman: "npm install -g")
+      items << ConvItem.new(input: ["rb"], output: ["js"], command: "opal -c {input} > {output}", lang: "opal", package: "opal", pacman: "gem install")
+      items << ConvItem.new(input: ["lua"], output: ["out"], command: "luac -o {output} {input}", package: "lua", lang: "lua")
+      items << ConvItem.new(input: ["lua"], output: ["out"], command: "luajit -b {input} {output}", package: "luajit", lang: "lua")
+
       items
     end
   end
 
   class ConvItem
-    attr_accessor :input, :output, :command, :package, :substitute, :last_access, :pacman, :output_buffer, :input_path, :output_path
+    attr_accessor :input, :output, :command, :package, :substitute, :last_access, :pacman, :output_buffer, :input_path, :output_path, :type, :lang, :warning
 
     def initialize **params
       Config.load_and_set_settings(Dir.home + ".conv")
+      @type |= :convert
       @package_manager = Settings.package_manager
       params.each{|k,v| self.send("#{k}=", v) if self.methods.include?(k)}
     end
@@ -127,7 +165,7 @@ module Conv
       return self.output.to_s + " " + self.cmd(@input_path, @output_path) + "  (" + self.package + ")"
     end
 
-    def run!(inputs, output)
+    def run!(inputs, output, arguments="")
       raise "Error -- no input file" unless inputs.all?{ |t| Pathname(t).exist?}
       status, stdout, stderr = systemu self.cmd(inputs, output)
 

data/lib/ffc/cli.rb

@@ -19,6 +19,7 @@ module Conv
     option :quiet, type: :boolean, aliases: '-q', desc: "Run quietly."
     option :dryrun, type: :boolean, aliases: '-d', desc: "Do not execute command."
     option :package_manager, type: :array, aliases: '-p', desc: "Set Package manager prefix such as 'brew install'"
+    #option :arguments, type: :string, aliases: '-a', desc: "Set arguments to provide a certain command such as '-O2'"
     def convert(*inputs, output) # Define commands as a method.
       prompt = TTY::Prompt.new(interrupt: :exit)
       items = Conv.new.find_item(inputs, output, input_format=input_format, output_format=output_format, package_manager: options[:package_manager])
@@ -33,7 +34,7 @@ module Conv
           end
           prompt.ok candidate.cmd(inputs, output) unless options[:quiet]
           return if !options[:overwrite] && !ask_overwrite(output) || options[:dryrun]
-          status, stdout, stderr = candidate.run!(inputs, output)
+          status, stdout, stderr = candidate.run!(inputs, output, options[:arguments])
           prompt.ok stdout
           prompt.error stderr
           if status != 0

data/lib/ffc/version.rb

@@ -1,3 +1,3 @@
 module Conv
-  VERSION = "0.1.0"
+  VERSION = "0.1.1"
 end

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: ffc
 version: !ruby/object:Gem::Version
-  version: 0.1.0
+  version: 0.1.1
 platform: ruby
 authors:
 - 6br
 autorequire: 
 bindir: exe
 cert_chain: []
-date: 2017-03-02 00:00:00.000000000 Z
+date: 2017-03-13 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: bundler
@@ -52,6 +52,34 @@ dependencies:
     - - "~>"
       - !ruby/object:Gem::Version
         version: '3.0'
+- !ruby/object:Gem::Dependency
+  name: coveralls
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: '0'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: '0'
+- !ruby/object:Gem::Dependency
+  name: codeclimate-test-reporter
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: '0'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: '0'
 - !ruby/object:Gem::Dependency
   name: thor
   requirement: !ruby/object:Gem::Requirement
@@ -116,6 +144,7 @@ executables:
 extensions: []
 extra_rdoc_files: []
 files:
+- ".coveralls.yml"
 - ".gitignore"
 - ".rspec"
 - ".travis.yml"