pysparse-users

[Pysparse-users] Compiling pysparse on a 64 bit machine

[Artur P. <art...@gm...>]

I hope someone can help me

I am trying to compile pysparse on a 64 bit machine with openSuse 10.3.

It compiles but gives an error acessing the sparse arrays. I read on
the README file that there is an incompatibility issue with pysparse
and numpy on 64bit machines and that a patch is needed. I have
installed version 1.1.0 of Numpy do I need the patch or the problem is
somewhere else?

Thanking in advance.

Best regards

-artur palha

Re: [Pysparse-users] Compiling pysparse on a 64 bit machine

[Daniel W. <dan...@gm...>]

On Thu, Jul 3, 2008 at 8:50 AM, Artur Palha <art...@gm...> wrote:
> I hope someone can help me
>
> I am trying to compile pysparse on a 64 bit machine with openSuse 10.3.
>
> It compiles but gives an error acessing the sparse arrays.

What is the error? I use pysparse on a 64 bit machine without problems.

> I read on
> the README file that there is an incompatibility issue with pysparse
> and numpy on 64bit machines and that a patch is needed.

According to the CVS log, the message was there from the initial
import of pysparse. I'll remove it.

> I have
> installed version 1.1.0 of Numpy do I need the patch or the problem is
> somewhere else?

Can you give some more details?

-- 
Daniel Wheeler

Re: [Pysparse-users] Compiling pysparse on a 64 bit machine

[Artur P. <art...@gm...>]

Thank you for the help, again.

The error it gives is:

IndexError: first index is invalid

And the error comes up when I try to assign a value to an entry of the
B matrix in this way:

B[ GN[e,n,m], GN[e,i,j] ] += something

B is the sparse matrix and GN is a 3d array.

I have checked that the values of GN are correct. The exact same code
works on another machine. I even tried a simpler code and it gives the
same error. The strange thing is that if I try to do it in ipython,
line by line, it works. Even if I assign a the value of GN to another
variable, as:

a = GN[e,n,m]
b = GN[e,i,j]

and then try:

B[a,b] += something

it does not work also, or if I assing to a and b constant values as:

a = 1
b = 2

B[a,b] += something

It only works if I do:

B[1,2] += something

Any help?

Thank you

-artur palha

On Thu, Jul 3, 2008 at 6:06 PM, Daniel Wheeler
<dan...@gm...> wrote:
> On Thu, Jul 3, 2008 at 8:50 AM, Artur Palha <art...@gm...> wrote:
>> I hope someone can help me
>>
>> I am trying to compile pysparse on a 64 bit machine with openSuse 10.3.
>>
>> It compiles but gives an error acessing the sparse arrays.
>
> What is the error? I use pysparse on a 64 bit machine without problems.
>
>> I read on
>> the README file that there is an incompatibility issue with pysparse
>> and numpy on 64bit machines and that a patch is needed.
>
> According to the CVS log, the message was there from the initial
> import of pysparse. I'll remove it.
>
>> I have
>> installed version 1.1.0 of Numpy do I need the patch or the problem is
>> somewhere else?
>
> Can you give some more details?
>
> --
> Daniel Wheeler
>

Re: [Pysparse-users] Compiling pysparse on a 64 bit machine

[Daniel W. <dan...@gm...>]

Put the simplest script that you can together that demonstrates the
problem and I'll try running it on a variety machines that we have
here and perhaps see what is going on.

Cheers.

On Wed, Jul 9, 2008 at 9:16 AM, Artur Palha <art...@gm...> wrote:
> Thank you for the help, again.
>
> The error it gives is:
>
> IndexError: first index is invalid
>
> And the error comes up when I try to assign a value to an entry of the
> B matrix in this way:
>
> B[ GN[e,n,m], GN[e,i,j] ] += something
>
> B is the sparse matrix and GN is a 3d array.
>
> I have checked that the values of GN are correct. The exact same code
> works on another machine. I even tried a simpler code and it gives the
> same error. The strange thing is that if I try to do it in ipython,
> line by line, it works. Even if I assign a the value of GN to another
> variable, as:
>
> a = GN[e,n,m]
> b = GN[e,i,j]
>
> and then try:
>
> B[a,b] += something
>
> it does not work also, or if I assing to a and b constant values as:
>
> a = 1
> b = 2
>
> B[a,b] += something
>
> It only works if I do:
>
> B[1,2] += something
>
> Any help?
>
> Thank you
>
> -artur palha
>
> On Thu, Jul 3, 2008 at 6:06 PM, Daniel Wheeler
> <dan...@gm...> wrote:
>> On Thu, Jul 3, 2008 at 8:50 AM, Artur Palha <art...@gm...> wrote:
>>> I hope someone can help me
>>>
>>> I am trying to compile pysparse on a 64 bit machine with openSuse 10.3.
>>>
>>> It compiles but gives an error acessing the sparse arrays.
>>
>> What is the error? I use pysparse on a 64 bit machine without problems.
>>
>>> I read on
>>> the README file that there is an incompatibility issue with pysparse
>>> and numpy on 64bit machines and that a patch is needed.
>>
>> According to the CVS log, the message was there from the initial
>> import of pysparse. I'll remove it.
>>
>>> I have
>>> installed version 1.1.0 of Numpy do I need the patch or the problem is
>>> somewhere else?
>>
>> Can you give some more details?
>>
>> --
>> Daniel Wheeler
>>
>



-- 
Daniel Wheeler

Re: [Pysparse-users] Compiling pysparse on a 64 bit machine

[Artur P. <art...@gm...>]

Hello Daniel

Once again I manage to solve the problem.

When I was trying to make a simple program that mimics the problem I
have, to send you, as you asked, I found the problem. Maybe there is a
bug with pysparse or the problem is mine.

The simplest program is:

import numpy
import pysparse

GN = numpy.array([0,1,2,3])

B = pysparse.spmatrix.ll_mat(10, 10, 10)

for i in range(0,2):
    B[GN[i], GN[i]] += 10

print B


If you do this it works. But if you use:

GN = numpy.array([0,1,2,3], dtype="int32")

It gives the error I stated.

If one prints the dtype of GN of the first code, it states that it is
int64. Hence the problem is that one cannot give in32 as an index to a
ll_mat on a 64bit machine, or at least on mine.

Once again thank you for your help!

-artur palha

On Wed, Jul 9, 2008 at 3:16 PM, Artur Palha <art...@gm...> wrote:
> Thank you for the help, again.
>
> The error it gives is:
>
> IndexError: first index is invalid
>
> And the error comes up when I try to assign a value to an entry of the
> B matrix in this way:
>
> B[ GN[e,n,m], GN[e,i,j] ] += something
>
> B is the sparse matrix and GN is a 3d array.
>
> I have checked that the values of GN are correct. The exact same code
> works on another machine. I even tried a simpler code and it gives the
> same error. The strange thing is that if I try to do it in ipython,
> line by line, it works. Even if I assign a the value of GN to another
> variable, as:
>
> a = GN[e,n,m]
> b = GN[e,i,j]
>
> and then try:
>
> B[a,b] += something
>
> it does not work also, or if I assing to a and b constant values as:
>
> a = 1
> b = 2
>
> B[a,b] += something
>
> It only works if I do:
>
> B[1,2] += something
>
> Any help?
>
> Thank you
>
> -artur palha
>
> On Thu, Jul 3, 2008 at 6:06 PM, Daniel Wheeler
> <dan...@gm...> wrote:
>> On Thu, Jul 3, 2008 at 8:50 AM, Artur Palha <art...@gm...> wrote:
>>> I hope someone can help me
>>>
>>> I am trying to compile pysparse on a 64 bit machine with openSuse 10.3.
>>>
>>> It compiles but gives an error acessing the sparse arrays.
>>
>> What is the error? I use pysparse on a 64 bit machine without problems.
>>
>>> I read on
>>> the README file that there is an incompatibility issue with pysparse
>>> and numpy on 64bit machines and that a patch is needed.
>>
>> According to the CVS log, the message was there from the initial
>> import of pysparse. I'll remove it.
>>
>>> I have
>>> installed version 1.1.0 of Numpy do I need the patch or the problem is
>>> somewhere else?
>>
>> Can you give some more details?
>>
>> --
>> Daniel Wheeler
>>
>

Re: [Pysparse-users] Compiling pysparse on a 64 bit machine

[Daniel W. <dan...@gm...>]

I had a similar problem with pytrilinos that required the swig
interface to be fixed. It should work whatever int type is chosen. I
might look into this at some point. Cheers.

On Thu, Jul 10, 2008 at 6:11 AM, Artur Palha <art...@gm...> wrote:
> Hello Daniel
>
> Once again I manage to solve the problem.
>
> When I was trying to make a simple program that mimics the problem I
> have, to send you, as you asked, I found the problem. Maybe there is a
> bug with pysparse or the problem is mine.
>
> The simplest program is:
>
> import numpy
> import pysparse
>
> GN = numpy.array([0,1,2,3])
>
> B = pysparse.spmatrix.ll_mat(10, 10, 10)
>
> for i in range(0,2):
>    B[GN[i], GN[i]] += 10
>
> print B
>
>
> If you do this it works. But if you use:
>
> GN = numpy.array([0,1,2,3], dtype="int32")
>
> It gives the error I stated.
>
> If one prints the dtype of GN of the first code, it states that it is
> int64. Hence the problem is that one cannot give in32 as an index to a
> ll_mat on a 64bit machine, or at least on mine.
>
> Once again thank you for your help!
>
> -artur palha
>
> On Wed, Jul 9, 2008 at 3:16 PM, Artur Palha <art...@gm...> wrote:
>> Thank you for the help, again.
>>
>> The error it gives is:
>>
>> IndexError: first index is invalid
>>
>> And the error comes up when I try to assign a value to an entry of the
>> B matrix in this way:
>>
>> B[ GN[e,n,m], GN[e,i,j] ] += something
>>
>> B is the sparse matrix and GN is a 3d array.
>>
>> I have checked that the values of GN are correct. The exact same code
>> works on another machine. I even tried a simpler code and it gives the
>> same error. The strange thing is that if I try to do it in ipython,
>> line by line, it works. Even if I assign a the value of GN to another
>> variable, as:
>>
>> a = GN[e,n,m]
>> b = GN[e,i,j]
>>
>> and then try:
>>
>> B[a,b] += something
>>
>> it does not work also, or if I assing to a and b constant values as:
>>
>> a = 1
>> b = 2
>>
>> B[a,b] += something
>>
>> It only works if I do:
>>
>> B[1,2] += something
>>
>> Any help?
>>
>> Thank you
>>
>> -artur palha
>>
>> On Thu, Jul 3, 2008 at 6:06 PM, Daniel Wheeler
>> <dan...@gm...> wrote:
>>> On Thu, Jul 3, 2008 at 8:50 AM, Artur Palha <art...@gm...> wrote:
>>>> I hope someone can help me
>>>>
>>>> I am trying to compile pysparse on a 64 bit machine with openSuse 10.3.
>>>>
>>>> It compiles but gives an error acessing the sparse arrays.
>>>
>>> What is the error? I use pysparse on a 64 bit machine without problems.
>>>
>>>> I read on
>>>> the README file that there is an incompatibility issue with pysparse
>>>> and numpy on 64bit machines and that a patch is needed.
>>>
>>> According to the CVS log, the message was there from the initial
>>> import of pysparse. I'll remove it.
>>>
>>>> I have
>>>> installed version 1.1.0 of Numpy do I need the patch or the problem is
>>>> somewhere else?
>>>
>>> Can you give some more details?
>>>
>>> --
>>> Daniel Wheeler
>>>
>>
>



-- 
Daniel Wheeler