PyOpenWorm.cell module

class PyOpenWorm.cell.Cell(name=None, lineageName=None, **kwargs)

Bases: PyOpenWorm.biology.BiologyType

A biological cell.

All cells with the same name are considered to be the same object.

Parameters:

name : str

The name of the cell

lineageName : str

The lineageName of the cell

blast(self)

Return the blast name.

Example:

>>> c = Cell(name="ADAL")
>>> c.blast() # Returns "AB"

Note that this isn’t a Property. It returns the blast extracted from the ‘’first’’ lineageName saved.

defined_augment(self)

This fuction must return False if identifier_augment() would raise an IdentifierMissingException. Override it when defining a non-standard identifier for subclasses of DataObjects.

identifier_augment(self, *args, **kwargs)

Override this method to define an identifier in lieu of one explicity set.

One must also override defined_augment() to return True whenever this method could return a valid identifier. IdentifierMissingException should be raised if an identifier cannot be generated by this method.

Raises:

IdentifierMissingException

description

A description of the cell

divisionVolume

The volume of the cell at division

Example:

>>> v = Quantity("600","(um)^3")
>>> c = Cell(lineageName="AB plapaaaap")
>>> c.divisionVolume(v)

lineageName

The lineageName of the cell Example:

>>> c = Cell(name="ADAL")
>>> c.lineageName() # Returns ["AB plapaaaapp"]

name

The ‘adult’ name of the cell typically used by biologists when discussing C. elegans