rbbt-util 1.1.0 → 1.2.1
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- data/lib/rbbt-util.rb +2 -0
- data/lib/rbbt.rb +1 -0
- data/lib/rbbt/util/R.rb +24 -0
- data/lib/rbbt/util/bed.rb +325 -0
- data/lib/rbbt/util/cmd.rb +2 -1
- data/lib/rbbt/util/data_module.rb +25 -34
- data/lib/rbbt/util/excel2tsv.rb +2 -3
- data/lib/rbbt/util/log.rb +5 -0
- data/lib/rbbt/util/misc.rb +29 -1
- data/lib/rbbt/util/open.rb +1 -0
- data/lib/rbbt/util/persistence.rb +109 -0
- data/lib/rbbt/util/pkg_data.rb +114 -62
- data/lib/rbbt/util/rake.rb +78 -0
- data/lib/rbbt/util/tc_hash.rb +7 -1
- data/lib/rbbt/util/tsv.rb +582 -153
- data/lib/rbbt/util/workflow.rb +1 -2
- data/share/lib/R/util.R +89 -0
- data/test/rbbt/util/test_R.rb +9 -0
- data/test/rbbt/util/test_bed.rb +136 -0
- data/test/rbbt/util/test_data_module.rb +10 -10
- data/test/rbbt/util/test_misc.rb +1 -0
- data/test/rbbt/util/test_persistence.rb +60 -0
- data/test/rbbt/util/test_pkg_data.rb +113 -0
- data/test/rbbt/util/test_rake.rb +54 -0
- data/test/rbbt/util/test_tsv.rb +91 -46
- data/test/rbbt/util/test_workflow.rb +5 -2
- data/test/test_helper.rb +4 -0
- data/test/test_pkg.rb +0 -10
- data/test/test_rbbt.rb +3 -48
- metadata +21 -6
metadata
CHANGED
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@@ -1,13 +1,13 @@
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1
1
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--- !ruby/object:Gem::Specification
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2
2
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name: rbbt-util
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3
3
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version: !ruby/object:Gem::Version
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4
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-
hash:
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5
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-
prerelease:
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4
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+
hash: 29
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5
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+
prerelease:
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6
6
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segments:
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7
7
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- 1
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8
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+
- 2
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9
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- 1
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9
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-
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10
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-
version: 1.1.0
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10
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+
version: 1.2.1
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11
11
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platform: ruby
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12
12
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authors:
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13
13
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- Miguel Vazquez
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@@ -15,7 +15,7 @@ autorequire:
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15
15
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bindir: bin
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16
16
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cert_chain: []
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17
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18
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-
date:
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18
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+
date: 2011-01-30 00:00:00 +01:00
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19
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default_executable:
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20
20
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dependencies:
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21
21
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- !ruby/object:Gem::Dependency
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@@ -101,6 +101,8 @@ files:
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101
101
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- LICENSE
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102
102
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- lib/rbbt-util.rb
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103
103
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- lib/rbbt.rb
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104
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+
- lib/rbbt/util/R.rb
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105
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+
- lib/rbbt/util/bed.rb
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104
106
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- lib/rbbt/util/cachehelper.rb
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105
107
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- lib/rbbt/util/cmd.rb
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106
108
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- lib/rbbt/util/data_module.rb
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@@ -109,9 +111,11 @@ files:
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109
111
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- lib/rbbt/util/log.rb
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110
112
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- lib/rbbt/util/misc.rb
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111
113
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- lib/rbbt/util/open.rb
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114
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+
- lib/rbbt/util/persistence.rb
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112
115
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- lib/rbbt/util/pkg_config.rb
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113
116
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- lib/rbbt/util/pkg_data.rb
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114
117
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- lib/rbbt/util/pkg_software.rb
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118
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+
- lib/rbbt/util/rake.rb
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115
119
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- lib/rbbt/util/simpleDSL.rb
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116
120
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- lib/rbbt/util/simpleopt.rb
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117
121
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- lib/rbbt/util/tc_hash.rb
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@@ -119,12 +123,18 @@ files:
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119
123
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- lib/rbbt/util/tsv.rb
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120
124
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- lib/rbbt/util/workflow.rb
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121
125
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- share/install/software/lib/install_helpers
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126
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+
- share/lib/R/util.R
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127
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+
- test/rbbt/util/test_R.rb
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128
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+
- test/rbbt/util/test_bed.rb
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122
129
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- test/rbbt/util/test_cmd.rb
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123
130
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- test/rbbt/util/test_data_module.rb
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124
131
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- test/rbbt/util/test_excel2tsv.rb
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125
132
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- test/rbbt/util/test_filecache.rb
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126
133
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- test/rbbt/util/test_misc.rb
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127
134
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- test/rbbt/util/test_open.rb
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135
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+
- test/rbbt/util/test_persistence.rb
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136
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+
- test/rbbt/util/test_pkg_data.rb
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137
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+
- test/rbbt/util/test_rake.rb
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128
138
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- test/rbbt/util/test_simpleDSL.rb
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129
139
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- test/rbbt/util/test_simpleopt.rb
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130
140
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- test/rbbt/util/test_tc_hash.rb
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@@ -166,17 +176,22 @@ required_rubygems_version: !ruby/object:Gem::Requirement
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166
176
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requirements: []
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167
177
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168
178
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rubyforge_project:
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169
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-
rubygems_version: 1.
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179
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+
rubygems_version: 1.4.2
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170
180
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signing_key:
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171
181
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specification_version: 3
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172
182
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summary: Utilities for the Ruby Bioinformatics Toolkit (rbbt)
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173
183
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test_files:
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184
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+
- test/rbbt/util/test_R.rb
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185
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+
- test/rbbt/util/test_bed.rb
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174
186
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- test/rbbt/util/test_cmd.rb
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175
187
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- test/rbbt/util/test_data_module.rb
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176
188
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- test/rbbt/util/test_excel2tsv.rb
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177
189
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- test/rbbt/util/test_filecache.rb
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178
190
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- test/rbbt/util/test_misc.rb
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179
191
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- test/rbbt/util/test_open.rb
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192
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+
- test/rbbt/util/test_persistence.rb
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193
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+
- test/rbbt/util/test_pkg_data.rb
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194
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+
- test/rbbt/util/test_rake.rb
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180
195
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- test/rbbt/util/test_simpleDSL.rb
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181
196
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- test/rbbt/util/test_simpleopt.rb
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182
197
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- test/rbbt/util/test_tc_hash.rb
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