tansey / gfl Goto Github PK

The README mentions a maketrails script to be used for preprocessing but the repo contains no such script. Can that be added?

thank you

Hi,

I have tried running the example data but I found error when I used "solve_gfl()". Please find the error below.

>>> solve_gfl(y,edges) Traceback (most recent call last): File "<stdin>", line 1, in <module> File "build/bdist.linux-x86_64/egg/pygfl/easy.py", line 35, in solve_gfl File "build/bdist.linux-x86_64/egg/pygfl/trails.py", line 357, in decompose_graph AttributeError: 'DegreeView' object has no attribute 'iteritems'

Thank you

Got an error while running solve_gfl in easy.py using python2.
Error code: "NetworkXError: Frozen graph can't be modified" (File "trail.py", line 391, in decompose_graph)

And I have found the graph producing the error:
Node number 36,
edges:

0 6
0 8
0 9
1 7
1 10
1 11
2 4
2 5
3 4
3 5
3 6
3 7
8 12
8 14
9 13
9 15
10 16
11 17
12 13
12 18
13 19
14 20
15 21
16 24
16 26
17 25
17 27
18 22
19 23
20 22
21 23
24 28
25 29
26 30
27 31
28 32
28 34
29 33
29 35
30 32
31 33

codes to reproduce the error:

from pygfl.easy import solve_gfl
import numpy as np
a = np.random.rand(36)
edges = np.loadtxt('edges.txt')
solve_gfl(a,edges)

The errror only occurs in python2. No error is reported while utilizing python3, which is strange.

I am trying to make my project compatible with python3. But it's huge and managed by many co-workers.

Could you help to fix this error? I am doubting that there is something different in networkx between python2 and python3.

Thank you very much!

I installed from source locally (linux machine):

python setup.py build
python setup.py install --user

and when I try to import pygfl I get the following error:

---------------------------------------------------------------------------
OSError                                   Traceback (most recent call last)
<ipython-input-1-6c0addf780fb> in <module>()
----> 1 import pygfl

build/bdist.linux-x86_64/egg/pygfl/__init__.py in <module>()

build/bdist.linux-x86_64/egg/pygfl/easy.py in <module>()

build/bdist.linux-x86_64/egg/pygfl/solver.py in <module>()

/usr/lib/python2.7/ctypes/__init__.pyc in LoadLibrary(self, name)
    438 
    439     def LoadLibrary(self, name):
--> 440         return self._dlltype(name)
    441 
    442 cdll = LibraryLoader(CDLL)

/usr/lib/python2.7/ctypes/__init__.pyc in __init__(self, name, mode, handle, use_errno, use_last_error)
    360 
    361         if handle is None:
--> 362             self._handle = _dlopen(self._name, mode)
    363         else:
    364             self._handle = handle

OSError: libgraphfl.so: cannot open shared object file: No such file or directory

The same error occurs when I pip install on a Mac machine

I am looking for python code for fused lasso for logistic regression for Windows
may you recommend one?

Hi, thank you for sharing the codes. It is very helpful.

I am wondering if it's possible to add weigths on edges, so that the loss function will be
L(y,\beta)+\sum_{i<j}A_{ij}|\beta_i-\beta_j|

Can this project solve it with a few modifications?