Mailman 3 February 2014 - SciPy-Dev

GSOC
by Charles R Harris Feb. 13, 2014

Feb. 13, 2014

Thought I'd forward this to the lists in case we need to do something. Hi everyone, > > Just a friendly reminder that applications for mentoring organizations > close in about 24 hours. Please get your applications in soon, we will > not accept late applications for any reason! > > Thanks, > Carol Chuck

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Distance functions
by Jaime Fernández del Río Feb. 5, 2014

Feb. 5, 2014

I plan to have a first fully functional version of the new distance module for scipy.spatial during this week, see https://github.com/scipy/scipy/pull/3163. The main feature of this new implementation is broadcasting support, so that you can compute multiple distances with a single function call, e.g.: >>> import scipy.spatial.umath_distance as udist >>> import numpy as np >>> u = np.random.rand(4, 3) >>> v = np.random.rand(4, 3) >>> udist.euclidean(u, v) array([ 0.77251733, 0.93810526, 0.81122198, 0.87690279]) Or even all pairwise distances: >>> v = np.random.rand(5, 3) >>> udist.euclidean(u[:, None, :], v) array([[ 1.14347901, 0.38593543, 0.83640822, 0.87086049, 1.04517368], [ 0.92483017, 0.71607629, 0.93401924, 0.5825294 , 0.92202074], [ 0.72273632, 0.81842944, 1.0669884 , 0.85308725, 0.83356081], [ 0.22143423, 0.81656032, 0.78084203, 0.90199059, 0.35111241]]) Although this is the main new feature, now is the right time to ask for that other feature of distance you have been missing all this time, but were afraid to ask for. I have thrown a few of my own: 1. greatcircle, to compute distances on the surface of a sphere. 2. weighted hamming, city block, euclidean and sqeuclidean distances 3. pminkowski and pwminkowski, to compute the Minkowski and weighted Minkowski distances without the final raising to the power 1/p, i.e. what sqeuclidean is to euclidean, this are to minkowski. Any suggestions or comments are very welcome! Jaime -- (\__/) ( O.o) ( > <) Este es Conejo. Copia a Conejo en tu firma y ayúdale en sus planes de dominación mundial.

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Symbol not found: __ZNSt8ios_base4InitD1Ev for scipy.sparse
by Matthew Brett Feb. 4, 2014

Feb. 4, 2014

Hi, I am trying to install scipy master on OSX 10.9. I'm using export CC=clang export CXX=clang export FFLAGS=--ff2c from http://www.scipy.org/scipylib/building/macosx.html I built and installed numpy with these flags, then scipy. scipy installs: >>> scipy.__version__ '0.14.0.dev-6b18a3b' but then: >>> import scipy.sparse Traceback (most recent call last): File "<stdin>", line 1, in <module> File "/Users/mb312/.virtualenvs/py33-sp-devel/lib/python3.3/site-packages/scipy/sparse/__init__.py", line 206, in <module> from .csr import * File "/Users/mb312/.virtualenvs/py33-sp-devel/lib/python3.3/site-packages/scipy/sparse/csr.py", line 13, in <module> from .sparsetools import csr_tocsc, csr_tobsr, csr_count_blocks, \ File "/Users/mb312/.virtualenvs/py33-sp-devel/lib/python3.3/site-packages/scipy/sparse/sparsetools/__init__.py", line 5, in <module> from .csr import * File "/Users/mb312/.virtualenvs/py33-sp-devel/lib/python3.3/site-packages/scipy/sparse/sparsetools/csr.py", line 26, in <module> _csr = swig_import_helper() File "/Users/mb312/.virtualenvs/py33-sp-devel/lib/python3.3/site-packages/scipy/sparse/sparsetools/csr.py", line 22, in swig_import_helper _mod = imp.load_module('_csr', fp, pathname, description) File "/Users/mb312/.virtualenvs/py33-sp-devel/lib/python3.3/imp.py", line 183, in load_module return load_dynamic(name, filename, file) ImportError: dlopen(/Users/mb312/.virtualenvs/py33-sp-devel/lib/python3.3/site-packages/scipy/sparse/sparsetools/_csr.so, 2): Symbol not found: __ZNSt8ios_base4InitD1Ev Referenced from: /Users/mb312/.virtualenvs/py33-sp-devel/lib/python3.3/site-packages/scipy/sparse/sparsetools/_csr.so Expected in: flat namespace in /Users/mb312/.virtualenvs/py33-sp-devel/lib/python3.3/site-packages/scipy/sparse/sparsetools/_csr.so Here's clang version info: $ clang -v Apple LLVM version 5.0 (clang-500.2.79) (based on LLVM 3.3svn) Target: x86_64-apple-darwin13.0.0 Thread model: posix I noticed a similar issue here: https://github.com/scipy/scipy/issues/3053 but I think I have clean install (into a virtualenv). Any hints as to where to look next? Cheers, Matthew

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Add detrend=None for scipy.signal.welch et al.
by Maximilian Singh Feb. 1, 2014

Feb. 1, 2014

Hey all, I suggest to add the possibility to turn off the 'detrend' functionality in scipy.signal.welch and scipy.signal.periodogram, e.g. by giving 'detrend=None' as parameter. Although detrending is an useful option, there are also use cases where DC should not be suppressed. Do you agree that this is common enough to be added? -Max

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