Mailman 3 January 2002 - SciPy-Dev

fblas1
by Pearu Peterson 08 Feb '02

08 Feb '02

Hi! I have commited a complete fblas1 and partially implemented fblas2 interfaces to scipy CVS repository. I also have troubles with cblas1 from atlas 3.3.13. Just too many functions from atlas just crash when I am trying to wrap them. However, using identical (well, almost) wrappers for fortran blas, they work fine. So, I don't think that these crashes are due to the interface but more like atlas generated (or may be just me;). Here is a simple example: File foo_axpy.c: /* gcc -g foo_axpy.c -L/usr/local/lib/atlas -lcblas -lf77blas -latlas -DDMALLOC -ldmalloc */ #include <stdio.h> //#include <dmalloc.h> extern cblas_saxpy(); extern saxpy_(); int main () { float x[2] = {6,2}; float *y = (float *)malloc(2*sizeof(float)); int n = 2; int incx = 1; int incy = 1; float a = 5.4; y[0] = 4.2; y[1] = 4.5; //cblas_saxpy(n,a,x,incx,y,incy); saxpy_(&n,&a,x,&incx,y,&incy); printf("y[0]=%f\n",y[0]); printf("y[0]=%f\n",y[1]); free(y); } Could someone try to compile and run this program, both with atlas and fortran version of saxpy? Do they work for you? If I am using cblas_saxpy, then the program always crashes. Can you tell what I am doing wrong here? Regards, Pearu

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Problem solved ---- Sorry!
by Andreas Lorenz 30 Jan '02

30 Jan '02

I calld inline with arguments taht were not used in the code... That caused the error .... :-( Bug or feature? :-) Andreas

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Problems with weave
by Andreas Lorenz 30 Jan '02

30 Jan '02

Hi! I worte an inline function using weave but when I try to run it it compiles but the I get this error: running build_ext building 'sc_4c24e4aef4fbfb5310eb79f279bcaaaf1' extension gcc -D_FILE_OFFSET_BITS=64 -DHAVE_LARGEFILE_SUPPORT -O2 -mcpu=i486 -march=i486 -fPIC -I/usr/lib/python2.1/site-packages/weave -I/usr/lib/python2.1/site-packages/weave/blitz-20001213 -I/usr/include/python2.1 -c /root/.python21_compiled/sc_4c24e4aef4fbfb5310eb79f279bcaaaf1.cpp -o /tmp/python21_intermediate/sc_4c24e4aef4fbfb5310eb79f279bcaaaf1.o /root/.python21_compiled/sc_4c24e4aef4fbfb5310eb79f279bcaaaf1.cpp:550: warning: `convert_to_numpy' redefined /root/.python21_compiled/sc_4c24e4aef4fbfb5310eb79f279bcaaaf1.cpp:549: warning: this is the location of the previous definition skipping /usr/lib/python2.1/site-packages/weave/CXX/IndirectPythonInterface.cxx (/tmp/python21_intermediate/IndirectPythonInterface.o up-to-date) skipping /usr/lib/python2.1/site-packages/weave/CXX/cxxextensions.c (/tmp/python21_intermediate/cxxextensions.o up-to-date) skipping /usr/lib/python2.1/site-packages/weave/CXX/cxxsupport.cxx (/tmp/python21_intermediate/cxxsupport.o up-to-date) skipping /usr/lib/python2.1/site-packages/weave/CXX/cxx_extensions.cxx (/tmp/python21_intermediate/cxx_extensions.o up-to-date) g++ -shared /tmp/python21_intermediate/sc_4c24e4aef4fbfb5310eb79f279bcaaaf1.o /tmp/python21_intermediate/IndirectPythonInterface.o /tmp/python21_intermediate/cxxextensions.o /tmp/python21_intermediate/cxxsupport.o /tmp/python21_intermediate/cxx_extensions.o -o /root/.python21_compiled/sc_4c24e4aef4fbfb5310eb79f279bcaaaf1.so Traceback (most recent call last): File "MultiLayer0.1.2.py", line 1520, in ? evolvepop(200,38,"FUTURE+1",5) File "MultiLayer0.1.2.py", line 1473, in evolvepop n.calcerror() File "MultiLayer0.1.2.py", line 1070, in calcerror verbose = 2) File "/usr/lib/python2.1/site-packages/weave/inline_tools.py", line 331, in inline results = attempt_function_call(code,local_dict,global_dict) File "/usr/lib/python2.1/site-packages/weave/inline_tools.py", line 374, in attempt_function_call raise ValueError, 'function with correct signature not found' ValueError: function with correct signature not found Anyone any idea??? Regards, Andreas Lorenz

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Find a Mortgage Loan... Refinance, 2nd, Purchase, Home Improvement BB gtw
by Dee Young 25 Jan '02

25 Jan '02

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Can I call Python-functions from """code"""?
by Andreas Lorenz 24 Jan '02

24 Jan '02

Is there a way to cll my self-defined Python-functions from the embeded C++ code?? And if so, how??? Andreas Lorenz

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~~Find a Mortgage Loan... Refinance, 2nd, Purchase, Home Improvement unywd
by Willie Maddox 23 Jan '02

23 Jan '02

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Problems using Weave
by Andreas Lorenz 22 Jan '02

22 Jan '02

Hi everyone, I have installed Numeric + Weave. But when I Try to run the binary_search.py example I get the following error: Binary search for 50000 items in 100000 length list of integers: speed in python: 1.38124608994 speed of bisect: 1.17039096355 speed up: 1.18 running build_ext building 'sc_2c6cc4f1f91a224f83f8465d7fb0b46a4' extension gcc -D_FILE_OFFSET_BITS=64 -DHAVE_LARGEFILE_SUPPORT -O2 -mcpu=i486 -march=i486 - fPIC -I/home/ude6/Python/weave-0.2.1/weave -I/usr/include/python2.1 -c /home/ude 6/.python21_compiled/sc_2c6cc4f1f91a224f83f8465d7fb0b46a4.cpp -o /tmp/python21_i ntermediate/sc_2c6cc4f1f91a224f83f8465d7fb0b46a4.o /home/ude6/.python21_compiled/sc_2c6cc4f1f91a224f83f8465d7fb0b46a4.cpp: In funct ion `struct PyObject * compiled_func(PyObject *, PyObject *)': /home/ude6/.python21_compiled/sc_2c6cc4f1f91a224f83f8465d7fb0b46a4.cpp:530: impl icit declaration of function `int convert_to_list(...)' Traceback (most recent call last): File "binary_search.py", line 161, in ? search_compare(a,n) File "binary_search.py", line 126, in search_compare c_int_search(a,i) File "binary_search.py", line 56, in c_int_search return inline_tools.inline(code,['seq','t'],verbose = 2) File "../inline_tools.py", line 321, in inline auto_downcast = auto_downcast, File "../inline_tools.py", line 415, in compile_function verbose=verbose, **kw) File "../ext_tools.py", line 349, in compile verbose = verbose, **kw) File "../build_tools.py", line 194, in build_extension setup(name = module_name, ext_modules = [ext],verbose=verb) File "/var/tmp/python-root//usr/lib/python2.1/distutils/core.py", line 157, in setup build_tools.CompileError: error: command 'gcc' failed with exit status 1 Any suggestions??? Andreas Lorenz

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Patch for broken scipy.plt.plot_objects.py
by a.schmolck＠gmx.net 22 Jan '02

22 Jan '02

Hi, I didn't find anything specific on the www.scipy.org on how to submit patches, so I hope submitting them here is OK. I hit upon a bug in plt.imagesc, that took me quite a long time to track down. Basically, it won't display any non-square matrices correctly. However, reshaping a flat array (which I happen to mostly work with), incorrectly (i.e. reshape(a.flat,(col, row)) instead of reshape(a.flat, (row, col))), will result in the plot one expected. I was therefore quite dumbfounded when I found that plt.imagesc(reshape(a.flat,(col, row))) worked but plt.imagesc(transpose(reshape(a.flat,(col,row)))) produced garbage. Here is a fix (plus anoter small change), which I hope should work. alex -- Alexander Schmolck Postgraduate Research Student Department of Computer Science University of Exeter A.Schmolck(a)gmx.net http://www.dcs.ex.ac.uk/people/aschmolc/

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Anyone out there have the latest ATLAS (3.1.13) for windows/PIII
by eric 21 Jan '02

21 Jan '02

Hey group, Some errors have turned up in older versions of ATLAS, with the linalg module. Pearu (or was it Travis O.?) reported that they went away with 3.1.13. Problem, is the build for this version fails on my machine. https://sourceforge.net/projects/math-atlas/ I was wondering if anyone else out there has a successful build on a Windows machine with a Pentium III that links with SciPy. Or, if you have this architecture and cygwin, could you try downloading and building ATLAS? I'd like to find out if it is my machine setup or the ATLAS build process. thanks, eric -- Eric Jones <eric at enthought.com> Enthought, Inc. [www.enthought.com and www.scipy.org] (512) 536-1057

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Info on what needs to be changed in the stats module
by eric 20 Jan '02

20 Jan '02

Hey group, Questions on the stats module keep coming up, and it really needs some work. I don't have time to do it, but I've tried to outline what changes need to be made. They are detailed here: http://www.scipy.org/Members/eric/stats_notes.html If someone picked this up, the world would be a better place. Any takers? eric -- Eric Jones <eric at enthought.com> Enthought, Inc. [www.enthought.com and www.scipy.org] (512) 536-1057

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