[scikits] Updated generic optimizer (and egg download link)
Hi, I did not improve much of the code, but here is a link to the scikit : http://download.gna.org/pypeline/ I will add other step and perhaps line search modules, as well as helper functions for fitting purpose (least squares or more robust fits), but I can't give you a dead line. The code works very well, I use it for my PhD searches, and it really saves me a lot of time/troubles. I'll add in another scikit a neighboorhood search (Kd-tree in biopython) as well once I've found a solution for the matrix lib I use.. Matthieu P.S. : pypeline is an "old" project similar in many aspects to what David wanted to do for his SoC, but much more general, for those who might be intrigued. It's being developped slowly, but steadily.
On Mon, 25 Jun 2007, Matthieu Brucher apparently wrote:
I did not improve much of the code, but here is a link to the scikit : http://download.gna.org/pypeline/
You are calling this a SciKit, but I believe the code is not yet placed in the SciKits repository http://projects.scipy.org/scipy/scikits/browser/trunk Am I right? I think that would be a better way to "expose' it. Cheers, Alan Isaac
You are calling this a SciKit, but I believe the code is not yet placed in the SciKits repository http://projects.scipy.org/scipy/scikits/browser/trunk Am I right? I think that would be a better way to "expose' it.
You're right, it's not an official scikit. I don't think that someone in charge said something about it when I asked if it should be a scikit or not, only Michael McNeil Forbes. Matthieu
can you inform, how this egg should be installed? (scikits_optimizers-0.5.dev_r700-py2.5.egg) it has neither INSTALL.txt, no setup.py, that is required in scikits page. when I run python scikits_optimizers-0.5.dev_r700-py2.5.egg it yields File "scikits_optimizers-0.5.dev_r700-py2.5.egg", line 1 SyntaxError: Non-ASCII character '\x89' in file scikits_optimizers-0.5.dev_r700-py2.5.egg on line 2, but no encoding declared; see http://www.python.org/peps/pep-0263.html for details D. Matthieu Brucher wrote:
You are calling this a SciKit, but I believe the code is not yet placed in the SciKits repository http://projects.scipy.org/scipy/scikits/browser/trunk Am I right? I think that would be a better way to "expose' it.
You're right, it's not an official scikit. I don't think that someone in charge said something about it when I asked if it should be a scikit or not, only Michael McNeil Forbes.
Matthieu ------------------------------------------------------------------------
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Egg should be installed with easy_install, IIRC. tarball have setup.py file, but the egg generation process did not include it. I'll add additional info for installation. Matthieu 2007/6/29, dmitrey <openopt@ukr.net>:
can you inform, how this egg should be installed?
(scikits_optimizers-0.5.dev_r700-py2.5.egg)
it has neither INSTALL.txt, no setup.py, that is required in scikits page. when I run python scikits_optimizers-0.5.dev_r700-py2.5.egg it yields File "scikits_optimizers-0.5.dev_r700-py2.5.egg", line 1 SyntaxError: Non-ASCII character '\x89' in file scikits_optimizers-0.5.dev_r700-py2.5.egg on line 2, but no encoding declared; see http://www.python.org/peps/pep-0263.html for details
D.
Matthieu Brucher wrote:
You are calling this a SciKit, but I believe the code is not yet placed in the SciKits repository http://projects.scipy.org/scipy/scikits/browser/trunk Am I right? I think that would be a better way to "expose' it.
You're right, it's not an official scikit. I don't think that someone in charge said something about it when I asked if it should be a scikit or not, only Michael McNeil Forbes.
Matthieu ------------------------------------------------------------------------
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Could you upload your tarball into you filearea http://download.gna.org/pypeline/ ? I still can't install the egg with neither python2.4 no python2.5, I receive same error message. D. Matthieu Brucher wrote:
Egg should be installed with easy_install, IIRC. tarball have setup.py file, but the egg generation process did not include it. I'll add additional info for installation.
Matthieu
2007/6/29, dmitrey <openopt@ukr.net <mailto:openopt@ukr.net>>:
can you inform, how this egg should be installed?
(scikits_optimizers-0.5.dev_r700-py2.5.egg)
it has neither INSTALL.txt, no setup.py, that is required in scikits page. when I run python scikits_optimizers-0.5.dev_r700-py2.5.egg it yields File "scikits_optimizers- 0.5.dev_r700-py2.5.egg", line 1 SyntaxError: Non-ASCII character '\x89' in file scikits_optimizers-0.5.dev_r700-py2.5.egg on line 2, but no encoding declared; see http://www.python.org/peps/pep-0263.html for details
D.
Matthieu Brucher wrote: > > You are calling this a SciKit, but I believe the code is not > yet placed in the SciKits repository > http://projects.scipy.org/scipy/scikits/browser/trunk > Am I right? I think that would be a better way to "expose' it. > > > You're right, it's not an official scikit. > I don't think that someone in charge said something about it when I > asked if it should be a scikit or not, only Michael McNeil Forbes. > > Matthieu > ------------------------------------------------------------------------ > > _______________________________________________ > SciPy-user mailing list > SciPy-user@scipy.org <mailto:SciPy-user@scipy.org> > http://projects.scipy.org/mailman/listinfo/scipy-user >
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egg files are archives, so you can't execute them. If setuptools is installed, you should have easy_install. I'm trying to build a tarball, but it seems there is catch with sdist and bdist... The former includes everything in my repository (not only the optimizers, but everything else...) and the latter saves the absolute path instead of the relative... Matthieu 2007/6/29, dmitrey <openopt@ukr.net>:
Could you upload your tarball into you filearea http://download.gna.org/pypeline/ ? I still can't install the egg with neither python2.4 no python2.5, I receive same error message. D.
Then, maybe, it would be more easy to upload the package into scikits svn server than construct a tarball? D Matthieu Brucher wrote:
egg files are archives, so you can't execute them. If setuptools is installed, you should have easy_install. I'm trying to build a tarball, but it seems there is catch with sdist and bdist... The former includes everything in my repository (not only the optimizers, but everything else...) and the latter saves the absolute path instead of the relative...
Matthieu
2007/6/29, dmitrey <openopt@ukr.net <mailto:openopt@ukr.net>>:
Could you upload your tarball into you filearea http://download.gna.org/pypeline/ ? I still can't install the egg with neither python2.4 no python2.5, I receive same error message. D.
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Yes, it should, although I'm puzzled with setuptools behaviour. But David Cournapeau had problems too with sdist and bdist. 2007/6/29, dmitrey <openopt@ukr.net>:
Then, maybe, it would be more easy to upload the package into scikits svn server than construct a tarball? D
Matthieu Brucher wrote:
I'm trying to build a tarball, but it seems there is catch with sdist and bdist... The former includes everything in my repository This is one of the 'features' I don't like with setuptools - anything under revision control is included when you do sdist. IIRC, even if you specifically exclude it in MANIFEST.in.
participants (4)
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Alan G Isaac -
Andrew Straw -
dmitrey -
Matthieu Brucher