Top Level Namespace

Includes:
AbortIf, AbortIf::Assert, Iroki::Color, Iroki::Const, Iroki::CoreExt::File, Iroki::CoreExt::Hash, Iroki::Utils

Defined Under Namespace

Modules: Bio, Iroki

Constant Summary

Constants included from Iroki::Color

Iroki::Color::BLUE, Iroki::Color::BLUE_HUE, Iroki::Color::COLORS, Iroki::Color::DARK_GREEN, Iroki::Color::FULLY_SATURATED, Iroki::Color::GRAY, Iroki::Color::GREEN, Iroki::Color::GREEN_HUE, Iroki::Color::HSL, Iroki::Color::PURE_COLOR, Iroki::Color::PURE_LIGHT, Iroki::Color::RGB, Iroki::Color::WHITE, Iroki::Color::WHITE_HUE

Constants included from Iroki::Const

Iroki::Const::FIG

Instance Method Summary collapse

Methods included from Iroki::Utils

#add_color_to_leaf_branch, #color_nodes, #get_color, #leaf?

Methods included from Iroki::CoreExt::File

#check_file, #parse_color_map_iroki, #parse_name_map, #valid_newick?

Methods included from Iroki::CoreExt::Hash

#duplicate_values?

Methods included from Iroki::Color

default_color_tag, default_color_tag=, get_tag, tag_from_color, tag_from_hex

Instance Method Details

#branch_tag?(str) ⇒ Boolean

TODO spec this for hex matching

Returns:

  • (Boolean) 


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# File 'lib/iroki/core_ext/file/file.rb', line 31

def branch_tag? str
  m = str.match(/\Abranch:(#?\p{Alnum}+)\Z/i)

  m[1] if m
end

#color_given?(str) ⇒ Boolean

Copyright 2016 Ryan Moore Contact: [email protected]

This file is part of Iroki.

Iroki is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

Iroki is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with Iroki. If not, see <www.gnu.org/licenses/>.

Returns:

  • (Boolean) 


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# File 'lib/iroki/core_ext/file/file.rb', line 19

def color_given? str
  str && !str.empty?
end

#label_tag?(str) ⇒ Boolean

TODO spec this for hex matching

Returns:

  • (Boolean) 


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# File 'lib/iroki/core_ext/file/file.rb', line 24

def label_tag? str
  m = str.match(/\Alabel:(#?\p{Alnum}+)\Z/i)

  m[1] if m
end

#valid_numerical_val?(str) ⇒ Boolean

Copyright 2016 Ryan Moore Contact: [email protected]

This file is part of Iroki.

Iroki is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

Iroki is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with Iroki. If not, see <www.gnu.org/licenses/>.

Returns:

  • (Boolean) 


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# File 'lib/iroki/biom.rb', line 19

def valid_numerical_val? str
  # looks something like sci notation
  str.match(/[-+]?[0-9]?\.?[0-9]?[eE]?[-+]?[0-9]+/)
end