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author | Christoph Helma <helma@in-silico.ch> | 2010-11-24 13:13:40 +0100 |
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committer | Christoph Helma <helma@in-silico.ch> | 2010-11-24 13:13:40 +0100 |
commit | 7067bd44d5c97618ec6a968bbdfe6d6bda12a1cd (patch) | |
tree | 8d10b0b82ca124c1f2a99ec97658a89218c2b9b3 /lib/dataset.rb | |
parent | 7c743456c42ffa85e81db6d975ebd7ed260f81f0 (diff) |
opentox-ruby-api-wrapper renamed to opentox-ruby
Diffstat (limited to 'lib/dataset.rb')
-rw-r--r-- | lib/dataset.rb | 17 |
1 files changed, 16 insertions, 1 deletions
diff --git a/lib/dataset.rb b/lib/dataset.rb index 4737ea1..c5704ae 100644 --- a/lib/dataset.rb +++ b/lib/dataset.rb @@ -32,6 +32,21 @@ module OpenTox dataset end + # Create dataset from CSV file (format specification: http://toxcreate.org/help) + # - loads data_entries, compounds, features + # - sets metadata (warnings) for parser errors + # - you will have to set remaining metadata manually + # @param [String] file CSV file path + # @return [OpenTox::Dataset] Dataset object with CSV data + def self.create_from_csv_file(file) + dataset = Dataset.create + parser = Parser::Spreadsheets.new + parser.dataset = dataset + parser.load_csv(File.open(file).read) + dataset.save + dataset + end + # Find a dataset and load all data. This can be time consuming, use Dataset.new together with one of the load_* methods for a fine grained control over data loading. # @param [String] uri Dataset URI # @return [OpenTox::Dataset] Dataset object with all data @@ -299,7 +314,7 @@ module OpenTox def measured_activities(compound) source = @metadata[OT.hasSource] - @data_entries[compound.uri].collect{|f,v| v if f.match(/#{source}/)}.compact + @data_entries[compound.uri].collect{|f,v| v if f.match(/#{source}/)}.compact.flatten end def neighbors(compound) |