From: David D. <don...@gm...> - 2012-06-19 02:37:25
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Hi Anthony, Thanks for the response. Installed HDF5 1.8.9 using the following flags for configure. `./configure --prefix=/usr/local --with-szlib=/Library/Frameworks/Python.framework/Versions/Current CPPFLAGS=-I/Library/Frameworks/Python.framework/Versions/Current/include LDFLAGS=-L/Library/Frameworks/Python.framework/Versions/Current/lib` Also, I had to modify the optimization flag for gcc-4 in order to pass the make check part (as noted on the HDF5 page). `Conversion Tests fail on Mac OS X 10.7 (Lion) Users have reported that when building HDF5, the conversion tests failed (make check) in dt_arith.chk. A workaround is to edit ./< HDF5source >/config/gnu-flags, search for PROD_CFLAGS under "gcc-4.*", and change the value for PROD_CFLAGS to "-O0".` Then: 'make' 'make check' 'sudo make install' Is there a better way? Is tables somehow having a hard time finding the HDF5 library do you think? Thanks! Best Regards, David On Sat, Jun 16, 2012 at 12:57 AM, Anthony Scopatz <sc...@gm...> wrote: > Hi David, > > How did you build / install HDF5? > > Be Well > Anthony > > On Fri, Jun 15, 2012 at 7:14 PM, David Donovan <don...@gm...> wrote: >> >> Hi Everyone, >> >> I am having problems running the tests for PyTables on Mac OS X Lion. >> I have tried HDF5 version 1.8.5 as well, but I still get the same issue. >> >> Any thoughts would be helpful... >> >> Thanks for any help you can provide. >> >> Best Regards, >> David Donovan >> >> >> impPython 2.7.1 (r271:86832, Jul 31 2011, 19:30:53) >> [GCC 4.2.1 (Based on Apple Inc. build 5658) (LLVM build 2335.15.00)] on >> darwin >> Type "help", "copyright", "credits" or "license" for more information. >> >>> import tables >> table>>> tables.test() >> >> -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-= >> PyTables version: 2.3.1 >> HDF5 version: 1.8.9 >> NumPy version: 1.7.0.dev-0c5f480 >> Numexpr version: 2.0.1 (not using Intel's VML/MKL) >> Zlib version: 1.2.5 (in Python interpreter) >> LZO version: 2.06 (Aug 12 2011) >> BZIP2 version: 1.0.6 (6-Sept-2010) >> Blosc version: 1.1.2 (2010-11-04) >> Cython version: 0.16 >> Python version: 2.7.1 (r271:86832, Jul 31 2011, 19:30:53) >> [GCC 4.2.1 (Based on Apple Inc. build 5658) (LLVM build 2335.15.00)] >> Platform: darwin-i386 >> Byte-ordering: little >> Detected cores: 2 >> >> -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-= >> Performing only a light (yet comprehensive) subset of the test suite. >> If you want a more complete test, try passing the --heavy flag to this >> script >> (or set the 'heavy' parameter in case you are using tables.test() call). >> The whole suite will take more than 4 hours to complete on a relatively >> modern CPU and around 512 MB of main memory. >> >> -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-= >> >> .....................................................................................................................................FSegmentation >> fault: 11 >> >> >> ------------------------------------------------------------------------------ >> Live Security Virtual Conference >> Exclusive live event will cover all the ways today's security and >> threat landscape has changed and how IT managers can respond. Discussions >> will include endpoint security, mobile security and the latest in malware >> threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ >> _______________________________________________ >> Pytables-users mailing list >> Pyt...@li... >> https://lists.sourceforge.net/lists/listinfo/pytables-users > > > > ------------------------------------------------------------------------------ > Live Security Virtual Conference > Exclusive live event will cover all the ways today's security and > threat landscape has changed and how IT managers can respond. Discussions > will include endpoint security, mobile security and the latest in malware > threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ > _______________________________________________ > Pytables-users mailing list > Pyt...@li... > https://lists.sourceforge.net/lists/listinfo/pytables-users > |