view seg2matrix/CGData/GenomicMatrix.py @ 37:e81019e3ac99

Updated synapseGetDataset to look at the filename rather than the (no longer existant) content type field to determine if the data is in zip format

import csv
import CGData
import CGData.BaseMatrix

class GenomicMatrix(CGData.BaseMatrix.BaseMatrix):

    __format__ = {
            "name" : "genomicMatrix",
            "type" : "type",
            "form" : "matrix",
            "rowType" : "probeMap",
            "colType" : "idMap",
            "valueType" : "float",
            "nullString" : "NA",
            "links" : {
                "dataSubType" : {}
            }
        }    

    def __init__(self):
        CGData.BaseMatrix.BaseMatrix.__init__(self)

    def init_blank(self, cols, rows):
        super(GenomicMatrix, self).init_blank(cols=cols,rows=rows)
        if 'cgdata' not in self:
            self['cgdata'] = { 'type' : 'genomicMatrix' }

    def get_probe_list(self):
        return self.get_row_list()

    def get_sample_list(self):
        return self.get_col_list()
    
    def get_data_subtype(self):
        return self.get('cgdata', {}).get('dataSubType', None)