cadnano.fileio.lattice module¶

class HoneycombDnaPart¶

Bases: object

SCAF_LOW = [[1, 11], [8, 18], [4, 15]] SCAF_HIGH = [[2, 12], [9, 19], [5, 16]] STAP_LOW = [[6, 16], [3, 13], [10, 20]] STAP_HIGH = [[7, 17], [4, 14], [0, 11]]

# from 0: DR U DL aka 210 90 330 SCAF_LOW = [[1, 12], [8, 19], [5, 15]] SCAF_HIGH = [[2, 13], [9, 20], [6, 16]] STAP_LOW = [[17], [3], [10]] STAP_HIGH = [[18], [4], [11]]

HELICAL_PITCH = 10.5¶

STEP = 21¶

SUB_STEP_SIZE = 7.0¶

TURNS_PER_STEP = 2.0¶

TWIST_OFFSET = -34.285714285714285¶

TWIST_PER_BASE = 34.285714285714285¶

static isEvenParity(row, column)¶

static isOddParity(row, column)¶

static latticeCoordToPositionXY(radius, row, column, scale_factor=1.0)¶: make sure radius is a float

static legacyLatticeCoordToPositionXY(radius, row, column, scale_factor=1.0)¶: make sure radius is a float

static positionToLatticeCoord(radius, x, y, scale_factor=1.0)¶

static positionToLatticeCoordRound(radius, x, y, round_up_row, round_up_col, scale_factor=1.0)¶

class SquareDnaPart¶

Bases: object

SCAF_LOW = [[4, 26, 15], [18, 28, 7], [10, 20, 31], [2, 12, 23]] SCAF_HIGH = [[5, 27, 16], [19, 29, 8], [11, 21, 0], [3, 13, 24]] STAP_LOW = [[31], [23], [15], [7]] STAP_HIGH = [[0], [24], [16], [8]]

HELICAL_PITCH = 10.666666666666666¶

STEP = 32¶

SUB_STEP_SIZE = 8.0¶

TURNS_PER_STEP = 3.0¶

TWIST_OFFSET = 196.875¶

TWIST_PER_BASE = 33.75¶

static isEvenParity(row, column)¶

static isOddParity(row, column)¶

static latticeCoordToPositionXY(radius, row, column, scale_factor=1.0)¶

static legacyLatticeCoordToPositionXY(radius, row, column, scale_factor=1.0)¶

static positionToLatticeCoord(radius, x, y, scale_factor=1.0)¶

static positionToLatticeCoordRound(radius, x, y, scale_factor=1.0)¶