Added Unit Tests

[ameknas-phac]

Added unit tests for utils, mcluster, and multi level clustering

[mattheww95]

Looks good, we can hold off merging the PR till the other tests are completed.

[ameknas-phac]

ok

[kylacochrane]

Out of 21 tests, 18 are passing with pytest.

However, three tests are still failing, and they all reside in the test_GAS_matrix_splitter.py file. All three failures occur within the same function, prep_batch_ranges, in the matrix_splitter.py class:

def prep_batch_ranges(self):
        self.num_batches = int(self.num_lines / self.batch_size)
        rem = self.batch_size % self.num_batches
        ranges = []
        for i in range(0,self.num_batches):
            ranges.append(i*self.batch_size,i*self.batch_size+self.batch_size)
        if rem != 0:
            r = ranges[-1]
            r[1] = self.num_lines
        self.ranges = ranges

Error:

>           ranges.append(i*self.batch_size,i*self.batch_size+self.batch_size)
E           TypeError: list.append() takes exactly one argument (2 given)
genomic_address_service/classes/matrix_splitter.py:54: TypeError

Suggested Fix:
A possible resolution for this issue, could be to have the append() method receive a single argument, which in this case is a tuple containing both values. The corrected line in matrix_splitter.py could be:

ranges.append((i*self.batch_size, i*self.batch_size+self.batch_size))

[sgsutcliffe]

Out of 21 tests, 18 are passing with pytest.

However, three tests are still failing, and they all reside in the test_GAS_matrix_splitter.py file. All three failures occur within the same function, prep_batch_ranges, in the matrix_splitter.py class:

def prep_batch_ranges(self):
        self.num_batches = int(self.num_lines / self.batch_size)
        rem = self.batch_size % self.num_batches
        ranges = []
        for i in range(0,self.num_batches):
            ranges.append(i*self.batch_size,i*self.batch_size+self.batch_size)
        if rem != 0:
            r = ranges[-1]
            r[1] = self.num_lines
        self.ranges = ranges

Error:

>           ranges.append(i*self.batch_size,i*self.batch_size+self.batch_size)
E           TypeError: list.append() takes exactly one argument (2 given)
genomic_address_service/classes/matrix_splitter.py:54: TypeError

Suggested Fix: A possible resolution for this issue, could be to have the append() method receive a single argument, which in this case is a tuple containing both values. The corrected line in matrix_splitter.py could be:

ranges.append((i*self.batch_size, i*self.batch_size+self.batch_size))

That solved that issue! @kylacochrane 41bdffe