[Biopython-dev] NumPy 1.7 and NPY_NO_DEPRECATED_API warnings

[Michiel de Hoon]

Fixed; please let us know if you encounter any problems.

-Michiel.



--------------------------------------------
On Mon, 9/23/13, Peter Cock <p.j.a.cock at googlemail.com> wrote:

 Subject: [Biopython-dev] NumPy 1.7 and NPY_NO_DEPRECATED_API warnings
 To: "Biopython-Dev Mailing List" <biopython-dev at biopython.org>
 Date: Monday, September 23, 2013, 4:58 PM
 
 Hi all,
 
 I'm seeing the following warning from NumPy 1.7 with Python
 3.3 on Mac
 OS X, and on Linux too. I believe the NumPy version is the
 critical
 factor:
 
 building 'Bio.Cluster.cluster' extension
 building 'Bio.KDTree._CKDTree' extension
 building 'Bio.Motif._pwm' extension
 building 'Bio.motifs._pwm' extension
 
 all give:
 
 /Users/peterjc/lib/python3.3/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2:
 warning: "Using
       deprecated NumPy API, disable it by
 #defining
 NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings]
 
 According to this page,
 http://docs.scipy.org/doc/numpy-dev/reference/c-api.deprecations.html
 
 If we add this line it should confirm our code is clean for
 NumPy 1.7
 (and implies to side effects on older NumPy):
 
 #define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION
 
 Unfortunately that seems all four modules have problems
 doing
 that, presumably planned NumPy C API changes we need to
 handle via a version conditional #ifdef?
 
 Peter
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