ngs-ci 0.0.1.a

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.
Files changed (29) hide show
  1. checksums.yaml +7 -0
  2. data/.coveralls.yml +1 -0
  3. data/.gitignore +15 -0
  4. data/.rspec +1 -0
  5. data/.travis.yml +19 -0
  6. data/Gemfile +4 -0
  7. data/LICENSE.txt +674 -0
  8. data/README.md +43 -0
  9. data/Rakefile +6 -0
  10. data/TODO.md +31 -0
  11. data/TODO.org +39 -0
  12. data/bin/ngs-ci +125 -0
  13. data/lib/NGSCI/calculator.rb +289 -0
  14. data/lib/NGSCI/cmd.rb +23 -0
  15. data/lib/NGSCI/read.rb +31 -0
  16. data/lib/NGSCI/version.rb +3 -0
  17. data/lib/NGSCI.rb +31 -0
  18. data/ngs-ci.gemspec +35 -0
  19. data/spec/lib/NGSCI_spec.rb +10 -0
  20. data/spec/lib/bin_spec.rb +51 -0
  21. data/spec/lib/calculator_spec.rb +316 -0
  22. data/spec/lib/cmd_spec.rb +17 -0
  23. data/spec/lib/read_spec.rb +35 -0
  24. data/spec/spec_helper.rb +11 -0
  25. data/spec/test_files/empty.bam +0 -0
  26. data/spec/test_files/test.bam +0 -0
  27. data/spec/test_files/test.bam.bai +0 -0
  28. data/spec/test_files/test.fa +2 -0
  29. metadata +209 -0
checksums.yaml ADDED
@@ -0,0 +1,7 @@
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+ ---
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+ SHA1:
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+ metadata.gz: 85d1cc53730fb57307136cd2313e81c60e55aad2
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+ data.tar.gz: c6724259d4f7709b728bb7df07a3cbdcaa352173
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+ SHA512:
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+ metadata.gz: 334662df0f16af26954bc29d99bfe6ecb59289f892a34de669d57be2125482a557ce4657086f167cf50afd31f00cbdc8ae8e41e2905c7269a25b3a41adce33a9
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+ data.tar.gz: 354bd86f5d1274c0cf26dc266b41f348d8ff26d1572101bd3196c72dc8aaad9f994d5703730777a91c8efa30d392bf8217d14b5a5c8a40f7998b2af2ff456ad3
data/.coveralls.yml ADDED
@@ -0,0 +1 @@
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+ service_name: travis-ci
data/.gitignore ADDED
@@ -0,0 +1,15 @@
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+ /.bundle/
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+ /.yardoc
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+ /Gemfile.lock
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+ /_yardoc/
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+ /coverage/
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+ /doc/
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+ /pkg/
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+ /spec/reports/
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+ /tmp/
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+ *.bundle
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+ *.so
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+ *.o
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+ *.a
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+ mkmf.log
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+ *~
data/.rspec ADDED
@@ -0,0 +1 @@
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+ --color
data/.travis.yml ADDED
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+ language: ruby
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+ rvm:
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+ - "2.0.0"
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+ - "2.1.0"
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+ before_script:
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+ - bundle install
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+ os:
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+ - linux
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+ - osx
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+ #matrix:
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+ # allow_failures:
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+ # - os: osx
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+ # - rvm: "2.2.0"
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+ notifications:
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+ email:
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+ recipients:
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+ - mrals@udel.edu
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+ on_failure: change
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+ on_success: never
data/Gemfile ADDED
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+ source 'https://rubygems.org'
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+
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+ # Specify your gem's dependencies in SCI.gemspec
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+ gemspec