htslib 0.0.0.pre

data/lib/hts/tbx.rb

@@ -0,0 +1,12 @@
+# Create a skeleton using hts-python as a reference.
+# https://github.com/quinlan-lab/hts-python
+
+class Tbx
+  def initialize; end
+
+  def build; end
+
+  def sequences; end
+
+  # def __call__\
+end

data/lib/hts/vcf.rb

@@ -0,0 +1,28 @@
+# Create a skeleton using hts-python as a reference.
+# https://github.com/quinlan-lab/hts-python
+
+class VCF
+  def initialize; end
+
+  def inspect; end
+
+  def each; end
+
+  def seq; end
+
+  def n_samples; end
+end
+
+class Variant
+  def initialize; end
+
+  def inspect; end
+
+  def formats; end
+
+  def genotypes; end
+end
+
+class Format
+  def initialize; end
+end

data/lib/hts/version.rb

@@ -0,0 +1,5 @@
+# frozen_string_literal: true
+
+module HTS
+  VERSION = '0.0.0.pre'
+end

data/lib/htslib.rb

@@ -0,0 +1,18 @@
+# frozen_string_literal: true
+
+require 'ffi'
+
+require 'hts/version'
+
+module HTS
+  class Error < StandardError; end
+
+  class << self
+    attr_accessor :ffi_lib
+  end
+  self.ffi_lib = File.expand_path("libhts.#{FFI::Platform::LIBSUFFIX}", ENV['HTSLIBDIR'])
+  autoload :FFI, 'hts/ffi'
+end
+
+# alias
+HTSlib = HTS

metadata

@@ -0,0 +1,145 @@
+--- !ruby/object:Gem::Specification
+name: htslib
+version: !ruby/object:Gem::Version
+  version: 0.0.0.pre
+platform: ruby
+authors:
+- kojix2
+autorequire: 
+bindir: bin
+cert_chain: []
+date: 2020-08-20 00:00:00.000000000 Z
+dependencies:
+- !ruby/object:Gem::Dependency
+  name: ffi
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: '0'
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: '0'
+- !ruby/object:Gem::Dependency
+  name: bundler
+  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: pry
+  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: rake
+  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: rspec
+  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: rubocop
+  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'
+description: 
+email:
+- 2xijok@gmail.com
+executables: []
+extensions: []
+extra_rdoc_files: []
+files:
+- LICENSE.txt
+- README.md
+- lib/hts/bam.rb
+- lib/hts/fai.rb
+- lib/hts/ffi.rb
+- lib/hts/ffi/bgzf.rb
+- lib/hts/ffi/faidx.rb
+- lib/hts/ffi/hfile.rb
+- lib/hts/ffi/hts.rb
+- lib/hts/ffi/kfunc.rb
+- lib/hts/ffi/sam.rb
+- lib/hts/ffi/struct.rb
+- lib/hts/ffi/tbx.rb
+- lib/hts/ffi_constants.rb
+- lib/hts/tbx.rb
+- lib/hts/vcf.rb
+- lib/hts/version.rb
+- lib/htslib.rb
+homepage: https://github.com/kojix2/ruby-htslib
+licenses:
+- MIT
+metadata: {}
+post_install_message: 
+rdoc_options: []
+require_paths:
+- lib
+required_ruby_version: !ruby/object:Gem::Requirement
+  requirements:
+  - - ">="
+    - !ruby/object:Gem::Version
+      version: '2.4'
+required_rubygems_version: !ruby/object:Gem::Requirement
+  requirements:
+  - - ">"
+    - !ruby/object:Gem::Version
+      version: 1.3.1
+requirements: []
+rubygems_version: 3.1.2
+signing_key: 
+specification_version: 4
+summary: HTSlib bindings for Ruby
+test_files: []