[Libroadrunner-devel] New beta8

[Andy S. <and...@gm...>]

Uploaded new beta8 to SF, binaries for Linux64 and Win32.

This version has the newest libsbml 5.11 — no problems found yet. 

Adds reading matrix rows via row/column name:

In [2]: r=RoadRunner("feedback.xml")
Notice: Using LLVM symbol/value cache

In [3]: mat = r.getFullStoichiometryMatrix()

# print the mat
In [4]: mat
Out[4]:
    J0, J1, J2, J3, J4
S1 [[  1, -1,  0,  0,  0],
S2  [  0,  1, -1,  0,  0],
S3  [  0,  0,  1, -1,  0],
S4  [  0,  0,  0,  1, -1]]


# can look up by either row or col name, use a col name here
In [5]: mat['J0']
Out[5]: array([ 1.,  0.,  0.,  0.])

# row name here
In [6]: mat['S4']
Out[6]: array([ 0.,  0.,  0.,  1., -1.])

# if the arg does not match either the row or col names, it falls through to the Numpy mp_subscript function.
# here bumpy pulls the 2nd row
In [7]: mat[2]
Out[7]: [ 0.  0.  1. -1.  0.]

# standard bumpy error message if invalid subscript arg. 
In [8]: mat['xxx']
---------------------------------------------------------------------------
ValueError                                Traceback (most recent call last)
<ipython-input-8-1d4dda1fffaf> in <module>()
----> 1 mat['xxx']

ValueError: field named xxx not found.