view smart_toolShed/SMART/Java/Python/structure/Bins.py @ 0:e0f8dcca02ed

Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.

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# Copyright INRA-URGI 2009-2010
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"""
Some functions about bins
"""

def getMinBin():
    return 3


def getMaxBin():
    return 7


def getBin(start, end):
    for i in range(getMinBin(), getMaxBin() + 1):
        binLevel = 10 ** i
        if int(start / binLevel) == int(end / binLevel):
            return int(i * 10 ** (getMaxBin() + 1) + int(start / binLevel))
    return int((getMaxBin() + 1) * 10 ** (getMaxBin() + 1))


def getOverlappingBins(start, end):
    array  = []
    bigBin = int((getMaxBin() + 1) * 10 ** (getMaxBin() + 1))
    for i in range(getMinBin(), getMaxBin() + 1):
        binLevel = 10 ** i
        array.append((int(i * 10 ** (getMaxBin() + 1) + int(start / binLevel)), int(i * 10 ** (getMaxBin() + 1) + int(end / binLevel))))
    array.append((bigBin, bigBin))
    return array


def getIterator(maxValue = None):
    if maxValue == None:
        maxValue = 10 ** (getMaxBin() + getMinBin()) - 1
    for i in range(getMinBin(), getMaxBin() + 1):
        binLevel = 10 ** i
        binBit   = i * 10 ** (getMaxBin() + 1)
        for j in range(0, maxValue / binLevel+1):
            yield binBit + j
    yield int((getMaxBin() + 1) * 10 ** (getMaxBin() + 1))


def getNbBins(maxValue = None):
    if maxValue == None:
        maxValue = 10 ** (getMaxBin() + getMinBin()) - 1
    nbBins = 0
    for i in range(getMinBin(), getMaxBin() + 1):
        nbBins += maxValue / 10 ** i
    return nbBins + 1