Mailman 3 September 2016 - SciPy-User

How to display a RGB image (MFISH)?
by jp 02 Apr '23

02 Apr '23

Hi, I have written a script to try to combine five images into a three channels RGB images<http://dip4fish.blogspot.com/2011/05/trying-to-combine-mfish-images-into-rg…> . The resulting RGB image looks like a grey scale image instead of a color one. I have three np.array Rnorm, Gnorm, Bnorm which are copied into a rgb array: *rgb = np.zeros((shape[0],shape[1],3),dtype=float) mxr=np.max(R) mxg=np.max(G) mxb=np.max(B) Rnorm=np.uint8((255*(R/mxr)))Gnorm=np.uint8((255*(R/mxg)))Bnorm=np.uint8((255*(R/mxb)))#copy each RGB component in an RGB array rgb[:,:,0]=Rnorm rgb[:,:,1]=Gnorm rgb[:,:,2]=Bnorm* *pylab.subplot(224, aspect='equal',frameon=False, xticks=[], yticks=[]) pylab.imshow(rgb) pylab.show()* Any advice? Thank you Jean-Patrick

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Invitation to connect on LinkedIn
by Jelle Feringa via LinkedIn 28 Jul '22

28 Jul '22

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Help required regding Eigenvectors
by Sudheer Phani 14 Mar '22

14 Mar '22

Hello All, I have been encountering some strange problems with the calculation of eigen vectors using python. The problem is with the sign of the eigen vectors calculated. On Very few occasions the eigen vectors calculated using python have an opposite sign than the actual eigenvectors, though the magnitude is correct. Can any one of you plz help me in this regard and suggest me some solution if you have encoutered similar problems . Any help in this regd is appreciated Thanks in Advace regds Sudheer

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ANN: SfePy 2016.3
by Robert Cimrman 30 Sep '16

30 Sep '16

I am pleased to announce release 2016.3 of SfePy. Description ----------- SfePy (simple finite elements in Python) is a software for solving systems of coupled partial differential equations by the finite element method or by the isogeometric analysis (limited support). It is distributed under the new BSD license. Home page: http://sfepy.org Mailing list: http://groups.google.com/group/sfepy-devel Git (source) repository, issue tracker: http://github.com/sfepy/sfepy Highlights of this release -------------------------- - Python 3 support - testing with Travis CI - new classes for homogenized coefficients - using argparse instead of optparse For full release notes see http://docs.sfepy.org/doc/release_notes.html#id1 (rather long and technical). Cheers, Robert Cimrman --- Contributors to this release in alphabetical order: Robert Cimrman Jan Heczko Thomas Kluyver Vladimir Lukes

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[ANN] Spyder 3.0 is released!
by Carlos Córdoba 27 Sep '16

27 Sep '16

Hi all, On the behalf of the Spyder Project Contributors (https://github.com/spyder-ide/spyder/graphs/contributors), I’m pleased to announce that Spyder 3.0 has been released and is available for Windows, GNU/Linux and MacOS X: https://github.com/spyder-ide/spyder/releases Spyder is a free, open-source (MIT license) interactive development environment for the Python language with advanced editing, interactive testing, debugging and introspection features. It was designed to provide MATLAB-like features integrated help, interactive console, variable explorer with GUI-based editors for NumPy arrays and Pandas dataframes), it is strongly oriented towards scientific computing and software development. This release represents more than two years of development since version 2.3.0 was released, and it introduces major enhancements and new features. The most important ones are: * Third-party plugins: External developers can now create plugins that extend Spyder in novel and interesting ways. For example, we already have plugins for the line-profiler and memory-profiler projects, and also a graphical frontend for the conda package manager. These plugins can be distributed as pip and/or conda packages for authors convenience. * Improved projects support: Projects have been revamped and improved significantly in Spyder 3.0. With our new projects support, people will have the possibility of easily working on different coding efforts at the same time. That’s because projects save the state of open files in the Editor and allow Python packages created as part of the project to be imported in our consoles. * Support for much more programming languages: Spyder relies now on the excellent Pygments library to provide syntax highlight and suggest code completions in the Editor, for all programming languages supported by it. * A new file switcher: Spyder 3.0 comes with a fancy file switcher, very similar in spirit to the one present in Sublime Text. This is a dialog to select among the open files in the Editor, by doing a fuzzy search through their names. It also lets users to view the list of classes, methods and functions defined in the current file, and select one of them. This dialog is activated with |Ctrl+P|. * A Numpy array graphical builder: Users who need to create NumPy arrays in Spyder for matrices and vectors can do it now in a graphical way by pressing |Ctrl+M| in the Editor or the Consoles. This will open an empty 2D table widget to be filled with the data required by the user. * A new icon theme based on FontAwesome. * A new set of default pane layouts for those coming from Rstudio or Matlab (under |View > Window layouts|). * A simpler and more intuitive way to introduce keyboard shortcuts. * Support for PyQt5, which fixes problems in MacOS X and in high definition screens. For a complete list of changes, please see here: https://github.com/spyder-ide/spyder/blob/3.x/CHANGELOG.md Spyder 2.3 has been a huge success (being downloaded almost 550,000 times!) and we hope 3.0 will be as successful as it. For that we fixed 203 important bugs, merged 218 pull requests from about 40 authors and added almost 2850 commits between these two releases. Don’t forget to follow Spyder updates/news on the project Github website: https://github.com/spyder-ide/spyder Last, but not least, we welcome any contribution that helps making Spyder an efficient scientific development/computing environment. Join us to help creating your favorite environment! Enjoy! -Carlos

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f2py and ifort
by Vasco Gervasi 24 Sep '16

24 Sep '16

Hi all, I am trying to compile a python module using f2py and ifort. Attached you will found a simple fortran subroutine to use as test. This is the command that I use to compile the module: > python C:\Anaconda2\Scripts\f2py.py -c -m foo foo.f90 --fcompiler=intelvem The module works on the same machine that I use to compile the module, but on another machine with just anaconda and mingw (without visual studio and ifort) it returns: > DLL load failed Even if I try to add the option --opts="-static" it returns the same error. Thanks

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Recommendation for optimize.root method to use
by David Goldsmith 11 Sep '16

11 Sep '16

Hi! I found http://docs.scipy.org/doc/scipy/reference/generated/scipy.optimize.root.htm… and thence found the three references therein, which I've downloaded, but I'm hoping for "instant gratification": my objective function, from R^4 to R, involves linear combinations of log and atan (neither of these are composed with the other) with rational functions of linear and quadratic polynomials as arguments: any recommendation as to which optimize.root method(s) I should use? Time is not of the essence, i.e., I don't necessarily need them to be super-fast. Thanks! DLG

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Installing NumPy/SciPy on Windows without the use of Pip
by Whalen, Joel C 07 Sep '16

07 Sep '16

Hello, I hope I am in the right place with my request. I haven't been able to find anything on stack overflow or your website that gives alternatives to building your python package without the use of Pip. My work network does not allow the network traffic of an automated web tool such as Pip, so I've been installing all python packages manually. The problem is when I go to "python setup.py install" in C:\Python27\Lib\site-packages\numpy-1.11+mkl-cp27-cp27m-win32\numpy, the setup file does not allow you to invoke it directly and instead prints "This is the wrong setup.py file to run". My question is: What *is* the correct setup.py file? I can't seem to find it in the source code or anyone talking about this online. Perhaps I'm approaching this incorrectly, and would appreciate any and all input. Thank you for your consideration, - Joel

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