rbbt-util 4.1.0 → 4.2.0

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Files changed (25) hide show
  1. data/bin/run_workflow.rb +4 -1
  2. data/lib/rbbt/annotations.rb +138 -53
  3. data/lib/rbbt/persist.rb +30 -12
  4. data/lib/rbbt/persist/tsv.rb +1 -1
  5. data/lib/rbbt/resource/path.rb +1 -1
  6. data/lib/rbbt/tsv.rb +7 -1
  7. data/lib/rbbt/tsv/accessor.rb +21 -16
  8. data/lib/rbbt/tsv/attach/util.rb +1 -10
  9. data/lib/rbbt/tsv/manipulate.rb +21 -3
  10. data/lib/rbbt/tsv/parser.rb +24 -5
  11. data/lib/rbbt/tsv/util.rb +1 -1
  12. data/lib/rbbt/util/chain_methods.rb +12 -23
  13. data/lib/rbbt/util/misc.rb +133 -144
  14. data/lib/rbbt/util/named_array.rb +113 -0
  15. data/lib/rbbt/util/open.rb +17 -10
  16. data/lib/rbbt/workflow/accessor.rb +9 -1
  17. data/lib/rbbt/workflow/step.rb +9 -7
  18. data/share/lib/R/util.R +28 -6
  19. data/test/rbbt/test_annotations.rb +16 -2
  20. data/test/rbbt/test_persist.rb +37 -1
  21. data/test/rbbt/test_tsv.rb +12 -0
  22. data/test/rbbt/tsv/test_attach.rb +1 -1
  23. data/test/rbbt/util/test_chain_methods.rb +1 -1
  24. data/test/rbbt/util/test_misc.rb +10 -0
  25. metadata +5 -4
data/test/rbbt/util/test_chain_methods.rb CHANGED
@@ -15,7 +15,7 @@ end
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  class TestChaimMethods < Test::Unit::TestCase
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  def test_chained_reverse_get
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  a = ["test", "TEST"]
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- TestChainedModule.setup_chain(a)
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+ a.extend TestChainedModule
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  assert_equal "test".reverse, a[0]
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  assert_equal "TEST".reverse, a[1]
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  end
data/test/rbbt/util/test_misc.rb CHANGED
@@ -96,6 +96,7 @@ class TestMisc < Test::Unit::TestCase
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  a = [[1],[2]]
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  a = NamedArray.setup a, %w(1 2)
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  a.merge [3,4]
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+ ddd a
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  assert_equal [1,3], a[0]
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  end
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@@ -141,6 +142,15 @@ class TestMisc < Test::Unit::TestCase
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  assert_equal nil, inputs[:four]
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  end
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+ def test_mean
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+ assert_equal 2, Misc.mean([1,2,3])
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+ assert_equal 3, Misc.mean([1,2,3,4,5])
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+ end
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+
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+ def __test_sd
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+ assert_equal Math.sqrt(2), Misc.sd([1,3])
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+ end
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+
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  # def test_divide
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  # assert_equal 2, Misc.divide(%w(1 2 3 4 5 6 7 8 9),2).length
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  # end
metadata CHANGED
@@ -1,13 +1,13 @@
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1
  --- !ruby/object:Gem::Specification
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  name: rbbt-util
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  version: !ruby/object:Gem::Version
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- hash: 59
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+ hash: 55
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  prerelease:
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  segments:
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  - 4
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- - 1
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+ - 2
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  - 0
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- version: 4.1.0
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+ version: 4.2.0
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  platform: ruby
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  authors:
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  - Miguel Vazquez
@@ -15,7 +15,7 @@ autorequire:
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  bindir: bin
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  cert_chain: []
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- date: 2011-11-17 00:00:00 +01:00
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+ date: 2012-01-13 00:00:00 +01:00
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  default_executable:
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  dependencies:
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  - !ruby/object:Gem::Dependency
@@ -160,6 +160,7 @@ files:
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  - lib/rbbt/util/filecache.rb
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  - lib/rbbt/util/log.rb
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  - lib/rbbt/util/misc.rb
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+ - lib/rbbt/util/named_array.rb
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  - lib/rbbt/util/open.rb
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  - lib/rbbt/util/simpleDSL.rb
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  - lib/rbbt/util/simpleopt.rb