Python 2.6.5 (r265:79063, Apr 16 2010, 13:09:56) 
[GCC 4.4.3] on linux2
Type "copyright", "credits" or "license()" for more information.

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IDLE 2.6.5      
>>> a = []
>>> i = 1
>>> a.append([])
>>> a
[[]]
>>> j = 1
>>> a[-1].append(i**j)
>>> a
[[1]]
>>> j += 1
>>> a[-1].append(i**j)
>>> a
[[1, 1]]
>>> a[-1][-1]
1
>>> a[-1][0]
1
>>> i += 1
>>> j = 1
>>> a.append([])
>>> a
[[1, 1], []]
>>> a[-1].append(i**j)
>>> a
[[1, 1], [2]]
>>> j += 1
>>> a[-1].append(i**j)
>>> a
[[1, 1], [2, 4]]
>>> a[2][1]

Traceback (most recent call last):
  File "<pyshell#21>", line 1, in <module>
    a[2][1]
IndexError: list index out of range
>>> a[1][0]
2
>>> 
>>> 
>>> a = float("3.0")
>>> a
3.0
>>> b = int(a)
>>> b
3
>>> b = str(a)
>>> b
'3.0'
>>> a = float("bacteria")

Traceback (most recent call last):
  File "<pyshell#31>", line 1, in <module>
    a = float("bacteria")
ValueError: invalid literal for float(): bacteria
>>> import parseTdt
>>> expression = parseTdt.parseTdt("supp2data.tdt")
>>> len(expression)
3
>>> len(expression[0])
2467
>>> len(expression[1])
2467
>>> len(expression[2])
2467
>>> reload(parseTdt)
<module 'parseTdt' from '/home/karmic/Projects/Courses/BmsMinicourse/examples2/parseTdt.py'>
>>> expression = parseTdt.parseTdt("supp2data.tdt")
>>> len(expression[0])
2467
>>> len(expression[0])
2467
>>> expression[0][:5]
['YBR166C', 'YOR357C', 'YLR292C', 'YGL112C', 'YIL118W']
>>> expression[1][:5]
['TYR1   TYROSINE BIOSYNTHESIS    PREPHENATE DEHYDROGENASE (NADP+', 'GRD19  SECRETION        GOLGI PROTEIN RETENTION', 'SEC72  SECRETION        ER PROTEIN TRANSLOCATION SUBCOMPLEX SUBUNIT', 'TAF60  TRANSCRIPTION       TFIID 60 KD SUBUNIT', 'RHO3   CYTOSKELETON        GTP-BINDING PROTEIN, RHO FAMILY']
>>> len(expression[0])
2467
>>> len(expression[0][0])
7
>>> len(expression[2])
2467
>>> len(expression[2][0])
79
>>> count = 0
>>> for i in expression[2][0]:
	if(count == None):
		count 
KeyboardInterrupt
>>> for i in expression[2][0]:
	if(i == None):
		count += 1

		
>>> count
1
>>> sum(1 for i in expression[2][0] if (i == None))
1
>>> ratios = expression[2]
>>> ratios[3][21]
-0.040000000000000001
>>> (genes, annotations, ratios)= expression
>>> genes[3]
'YGL112C'
>>> annotations[32]
'DRS2   TRANSPORT        CA(2+) TRANSPORTING ATPASE'
>>> ratios[4][1]
0.01
>>> ratios[4][1:23]
[0.01, -0.81000000000000005, None, -0.29999999999999999, 0.48999999999999999, 0.080000000000000002, 0.19, -0.029999999999999999, -0.32000000000000001, -0.34000000000000002, -0.22, -0.029999999999999999, -0.059999999999999998, 0.059999999999999998, 0.070000000000000007, 0.10000000000000001, 0.029999999999999999, -0.17999999999999999, -0.20000000000000001, -0.12, 0.16, -0.17000000000000001]
>>> import tdtClass
>>> expression = tdtClass("supp2data")

Traceback (most recent call last):
  File "<pyshell#64>", line 1, in <module>
    expression = tdtClass("supp2data")
TypeError: 'module' object is not callable
>>> expression = tdtClass.TdtRatios("supp2data")

Traceback (most recent call last):
  File "<pyshell#65>", line 1, in <module>
    expression = tdtClass.TdtRatios("supp2data")
  File "/home/karmic/Projects/Courses/BmsMinicourse/examples2/tdtClass.py", line 8, in __siit__
    fp = open(filename)
IOError: [Errno 2] No such file or directory: 'supp2data'
>>> expression = tdtClass.TdtRatios("supp2data.tdt")
>>> expression
<tdtClass.TdtRatios instance at 0xb63fab8c>
>>> dir(expression)
['__doc__', '__init__', '__module__', 'annotations', 'genes', 'header', 'ratios']
>>> expression.genes[4]
'YIL118W'
>>>