o RÅ€g€ã@s@dZddlmZddlmZGdd„dƒZedkreƒZdSdS) zÇFeature module. Provides: - Feature - class to wrap Bio.SeqFeature objects with drawing information For drawing capabilities, this module uses reportlab to define colors: http://www.reportlab.com é)Úcolorsé)ÚColorTranslatorc@sZeZdZdZdddejdddfdd„Zdd„Zdd „Zd d „Z d d „Z dd„Z dd„Z dS)ÚFeaturea«Class to wrap Bio.SeqFeature objects for GenomeDiagram. Attributes: - parent FeatureSet, container for the object - id Unique id - color color.Color, color to draw the feature - hide Boolean for whether the feature will be drawn or not - sigil String denoting the type of sigil to use for the feature. Currently either "BOX" or "ARROW" are supported. - arrowhead_length Float denoting length of the arrow head to be drawn, relative to the bounding box height. The arrow shaft takes up the remainder of the bounding box's length. - arrowshaft_height Float denoting length of the representative arrow shaft to be drawn, relative to the bounding box height. The arrow head takes the full height of the bound box. - name_qualifiers List of Strings, describes the qualifiers that may contain feature names in the wrapped Bio.SeqFeature object - label Boolean, 1 if the label should be shown - label_font String describing the font to use for the feature label - label_size Int describing the feature label font size - label_color color.Color describing the feature label color - label_angle Float describing the angle through which to rotate the feature label in degrees (default = 45, linear only) - label_position String, 'start', 'end' or 'middle' denoting where to place the feature label. Leave as None for the default which is 'start' for linear diagrams, and at the bottom of the feature as drawn on circular diagrams. - label_strand Integer -1 or +1 to explicitly place the label on the forward or reverse strand. Default (None) follows th feature's strand. Use -1 to put labels under (linear) or inside (circular) the track, +1 to put them above (linear) or outside (circular) the track. - locations List of tuples of (start, end) ints describing where the feature and any subfeatures start and end - type String denoting the feature type - name String denoting the feature name - strand Int describing the strand on which the feature is found NrcCsš|dur|}tƒ|_||_||_||_||_d|_d|_d|_d|_ d|_ gd¢|_ ||_ d|_ d|_tj|_d |_d|_d|_|durK| |¡dSdS) aInitialize. Arguments: - parent FeatureSet containing the feature - feature_id Unique id for the feature - feature Bio.SeqFeature object to be wrapped - color color.Color Color to draw the feature (overridden by backwards compatible argument with UK spelling, colour). Either argument is overridden if 'color' is found in feature qualifiers - border color.Color Color to draw the feature border, use None for the same as the fill color, False for no border. - label Boolean, 1 if the label should be shown NrÚBOXgà?gš™™™™™Ù?)ÚgeneÚlabelÚnameÚ locus_tagÚproductÚ Helveticaéé-)rÚ_colortranslatorÚparentÚidÚcolorÚborderÚ_featureÚhideÚsigilÚarrowhead_lengthÚarrowshaft_heightÚname_qualifiersrÚ label_fontÚ label_sizerÚblackÚ label_colorÚ label_angleÚlabel_positionÚ label_strandÚ set_feature)ÚselfrÚ feature_idÚfeaturerrrÚcolour©r&úW/var/www/html/myenv/lib/python3.10/site-packages/Bio/Graphics/GenomeDiagram/_Feature.pyÚ__init__Fs. ÿzFeature.__init__cCs||_| ¡dS)z/Define the Bio.SeqFeature object to be wrapped.N)rÚ_Feature__process_feature)r"r$r&r&r'r!{s zFeature.set_featurecCsôg|_g}|jjjD]}t|jƒ}t|jƒ}|j ||f¡|||g7}q t|jj ƒ|_ |jjj dur7d|_ nt|jjj ƒ|_ d|jj vrR|j   |jj dd¡|_|j |_|jD]}||jj vrl|jj |d|_nqYt|ƒt|ƒ|_|_dS)zFExamine wrapped feature and set some properties accordingly (PRIVATE).Nrr)Ú locationsrÚlocationÚpartsÚintÚstartÚendÚappendÚstrÚtypeÚstrandÚ qualifiersrÚ artemis_colorrr rÚminÚmax)r"Úboundsr+r.r/Ú qualifierr&r&r'Ú__process_feature€s,   ÿ  þzFeature.__process_featurecCs|jS)z+Return the unwrapped Bio.SeqFeature object.)r)r"r&r&r'Ú get_feature szFeature.get_featurecCs|j |¡}||_dS)zIBackwards compatible variant of set_color(self, color) using UK spelling.N©rÚ translater)r"r%rr&r&r'Ú set_colour¤s  zFeature.set_colourcCs|j |¡}||_dS)aSet the color in which the feature will be drawn. Arguments: - color The color to draw the feature - either a colors.Color object, an RGB tuple of floats, or an integer corresponding a colors in colors.txt Nr<)r"rr&r&r'Ú set_color©s zFeature.set_colorcCs t|j|ƒS)z‹Get attribute by name. If the Feature class doesn't have the attribute called for, check in self._feature for it. )Úgetattrr)r"r r&r&r'Ú __getattr__¶s zFeature.__getattr__) Ú__name__Ú __module__Ú __qualname__Ú__doc__rÚ lightgreenr(r!r)r;r>r?rAr&r&r&r'rs * ø5  rÚ__main__N)rEÚ reportlab.librÚ_ColorsrrrBÚgdfr&r&r&r'Ús ' þ