bio-table 0.0.4 → 0.0.5

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Files changed (18) hide show
  1. data/README.md +85 -22
  2. data/VERSION +1 -1
  3. data/bin/bio-table +45 -18
  4. data/features/cli.feature +11 -1
  5. data/lib/bio-table.rb +1 -0
  6. data/lib/bio-table/filter.rb +2 -1
  7. data/lib/bio-table/formatter.rb +19 -1
  8. data/lib/bio-table/rdf.rb +106 -0
  9. data/lib/bio-table/table_apply.rb +10 -2
  10. data/lib/bio-table/tableload.rb +8 -4
  11. data/lib/bio-table/tablerow.rb +2 -1
  12. data/lib/bio-table/tablewriter.rb +1 -1
  13. data/test/data/regression/table1-STDIN.ref +1138 -0
  14. data/test/data/regression/table1-columns-indexed.ref +0 -2
  15. data/test/data/regression/table1-columns-regex.ref +0 -2
  16. data/test/data/regression/table1-columns.ref +0 -2
  17. data/test/data/regression/table1-rdf1.ref +415 -0
  18. metadata +24 -21
metadata CHANGED
@@ -1,7 +1,7 @@
1
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  --- !ruby/object:Gem::Specification
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  name: bio-table
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  version: !ruby/object:Gem::Version
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- version: 0.0.4
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+ version: 0.0.5
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  prerelease:
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  platform: ruby
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  authors:
@@ -9,11 +9,11 @@ authors:
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  autorequire:
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  bindir: bin
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  cert_chain: []
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- date: 2012-07-27 00:00:00.000000000Z
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+ date: 2012-08-14 00:00:00.000000000Z
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  dependencies:
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  - !ruby/object:Gem::Dependency
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  name: bio-logger
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- requirement: &16091140 !ruby/object:Gem::Requirement
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+ requirement: &14291180 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
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  - - ! '>='
@@ -21,10 +21,10 @@ dependencies:
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  version: '0'
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  type: :runtime
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  prerelease: false
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- version_requirements: *16091140
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+ version_requirements: *14291180
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  - !ruby/object:Gem::Dependency
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  name: rspec
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- requirement: &16090400 !ruby/object:Gem::Requirement
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+ requirement: &14290640 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
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  - - ~>
@@ -32,10 +32,10 @@ dependencies:
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  version: 2.8.0
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  type: :development
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  prerelease: false
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- version_requirements: *16090400
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+ version_requirements: *14290640
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  - !ruby/object:Gem::Dependency
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  name: rdoc
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- requirement: &16089660 !ruby/object:Gem::Requirement
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+ requirement: &14290140 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
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  - - ~>
@@ -43,10 +43,10 @@ dependencies:
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  version: '3.12'
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  type: :development
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  prerelease: false
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- version_requirements: *16089660
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+ version_requirements: *14290140
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  - !ruby/object:Gem::Dependency
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  name: cucumber
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- requirement: &16088560 !ruby/object:Gem::Requirement
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+ requirement: &14289640 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
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  - - ! '>='
@@ -54,10 +54,10 @@ dependencies:
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  version: '0'
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  type: :development
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  prerelease: false
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- version_requirements: *16088560
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+ version_requirements: *14289640
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  - !ruby/object:Gem::Dependency
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  name: bundler
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- requirement: &16072420 !ruby/object:Gem::Requirement
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+ requirement: &14289120 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
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  - - ! '>'
@@ -65,10 +65,10 @@ dependencies:
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  version: 1.0.0
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  type: :development
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  prerelease: false
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- version_requirements: *16072420
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+ version_requirements: *14289120
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  - !ruby/object:Gem::Dependency
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  name: jeweler
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- requirement: &16070240 !ruby/object:Gem::Requirement
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+ requirement: &14288640 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
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  - - ~>
@@ -76,10 +76,10 @@ dependencies:
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  version: 1.8.3
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  type: :development
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  prerelease: false
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- version_requirements: *16070240
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+ version_requirements: *14288640
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  - !ruby/object:Gem::Dependency
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  name: bio
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- requirement: &16068560 !ruby/object:Gem::Requirement
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+ requirement: &14288120 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
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  - - ! '>='
@@ -87,10 +87,10 @@ dependencies:
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  version: 1.4.2
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  type: :development
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  prerelease: false
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- version_requirements: *16068560
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+ version_requirements: *14288120
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  - !ruby/object:Gem::Dependency
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  name: rdoc
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- requirement: &16066880 !ruby/object:Gem::Requirement
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+ requirement: &14287620 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
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  - - ~>
@@ -98,10 +98,10 @@ dependencies:
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  version: '3.12'
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  type: :development
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  prerelease: false
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- version_requirements: *16066880
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+ version_requirements: *14287620
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  - !ruby/object:Gem::Dependency
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  name: regressiontest
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- requirement: &16065840 !ruby/object:Gem::Requirement
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+ requirement: &14287100 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
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  - - ! '>='
@@ -109,7 +109,7 @@ dependencies:
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  version: '0'
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  type: :development
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  prerelease: false
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- version_requirements: *16065840
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+ version_requirements: *14287100
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  description: Functions and tools for tranforming and changing tab delimited and comma
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  separated table files - useful for Excel sheets and SQL/RDF output
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  email: pjotr.public01@thebird.nl
@@ -146,6 +146,7 @@ files:
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  - lib/bio-table/merge.rb
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  - lib/bio-table/overlap.rb
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  - lib/bio-table/parser.rb
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+ - lib/bio-table/rdf.rb
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  - lib/bio-table/rewrite.rb
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  - lib/bio-table/table.rb
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  - lib/bio-table/table_apply.rb
@@ -159,9 +160,11 @@ files:
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  - test/data/input/table1.csv
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  - test/data/input/table2.csv
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  - test/data/regression/table1-0_05.ref
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+ - test/data/regression/table1-STDIN.ref
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  - test/data/regression/table1-columns-indexed.ref
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  - test/data/regression/table1-columns-regex.ref
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  - test/data/regression/table1-columns.ref
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+ - test/data/regression/table1-rdf1.ref
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  - test/data/regression/table1-rewrite-rownames.ref
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  homepage: http://github.com/pjotrp/bioruby-table
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  licenses:
@@ -178,7 +181,7 @@ required_ruby_version: !ruby/object:Gem::Requirement
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  version: '0'
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  segments:
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  - 0
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- hash: 28606870096125310
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+ hash: -3323394519404685763
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  required_rubygems_version: !ruby/object:Gem::Requirement
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  none: false
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  requirements: