def parse_str(self, string):
try:
return Color.from_str(string.strip())
except:
try:
return presets.get_value('color:' + string.strip())
except:
pass
raise ValueError('must be a color, such as navajowhite or #15a5ff')
def to_markup(self, color=presets.get_value('color:black')):
"""Return markup appropriate for a tooltip.
color can optionally be applied to a pertinent segment of the returned markup.
"""
template = "<span foreground=%r weight='bold'>%s</span> %s-%s"
markup = template % (color.to_str(), self.name.replace('<', '<'), self.region.start, self.region.start + self.region.length)
if self.description:
markup += " (%s)" % self.description
return markup
class RegexColormapSetting(ColormapSetting):
element_setting_type = RegexColorMappingSetting
colormap_class = RegexColormap.from_mappings
presets.register_type('colormap', ColormapSetting)
presets.register_type('colormap.regex', RegexColormapSetting)
presets.add_builtin('color:clustalx_blue', Color(25, 127, 229))
presets.add_builtin('color:clustalx_cyan', Color(25, 178, 178))
presets.add_builtin('color:clustalx_green', Color(25, 204, 25))
presets.add_builtin('color:clustalx_magenta', Color(204, 76, 204))
presets.add_builtin('color:clustalx_orange', Color(229, 153, 76))
presets.add_builtin('color:clustalx_pink', Color(229, 127, 127))
presets.add_builtin('color:clustalx_red', Color(229, 51, 25))
presets.add_builtin('color:clustalx_yellow', Color(204, 204, 0))
cm = ResidueColormap(VILMAFCW=presets.get_value('color:clustalx_blue'),
HY=presets.get_value('color:clustalx_cyan'),
TSNQ=presets.get_value('color:clustalx_green'),
DE=presets.get_value('color:clustalx_magenta'),
G=presets.get_value('color:clustalx_orange'),
KR=presets.get_value('color:clustalx_red'),
P=presets.get_value('color:clustalx_yellow'))
presets.add_builtin('colormap:clustalx', cm)
presets.add_builtin('colormap.regex:highlight_unaligned',
RegexColormap.from_mappings([
(r'[.-]+', Color(1.0, 1.0, 1.0)),
(r'(?<!-)-+(?!-)', Color(25, 127, 229)),
(r'^[.-]+|[.-]+$', Color(229, 51, 25)),
(r'[a-z]+', Color.from_str('#1919dddd1919')), #Color(25, 204, 25)),
(r'[xX]+', Color(.7, 0, .9))]))