Opened 14 years ago

Closed 14 years ago

## #6493 closed defect (fixed)

# [with patch, positive review] new scipy-0.7.p2 spkg is broken on 64-bit OS X, due to numpy

Reported by: | was | Owned by: | mabshoff |
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Priority: | major | Milestone: | sage-4.1.1 |

Component: | packages: standard | Keywords: | |

Cc: | Merged in: | sage-4.1.1.alpha0 | |

Authors: | William Stein | Reviewers: | Robert Miller |

Report Upstream: | N/A | Work issues: | |

Branch: | Commit: | ||

Dependencies: | Stopgaps: |

### Description

To replicate this on OS X:

- export SAGE64="yes"
- Try to build Sage, which will fail because of Fortran
- install the experimental fortran spkg:
sage -i fortran-OSX64-20090120

- fix ratpoints using the spkg in #6492
- continue the build and get the following error. Note that scipy used to work, for sage-4.0. So something got messed up when we ugpraded scipy.

... Fortran f77 compiler: sage_fortran -Wall -ffixed-form -fno-second-underscore -arch ppc -arch i686 -fPIC -O3 -funroll-loops Fortran f90 compiler: sage_fortran -Wall -fno-second-underscore -arch ppc -arch i686 -fPIC -O3 -funroll-loops Fortran fix compiler: sage_fortran -Wall -ffixed-form -fno-second-underscore -Wall -fno-second-underscore -arch ppc -arch i686 -fPIC -O3 -funroll-loops creating build/temp.macosx-10.3-i386-2.6 creating build/temp.macosx-10.3-i386-2.6/scipy creating build/temp.macosx-10.3-i386-2.6/scipy/fftpack creating build/temp.macosx-10.3-i386-2.6/scipy/fftpack/src creating build/temp.macosx-10.3-i386-2.6/scipy/fftpack/src/dfftpack compile options: '-I/Users/was/build/64bit/sage-4.1.rc1/local/lib/python2.6/site-packages/numpy/core/include -c' sage_fortran:f77: scipy/fftpack/src/dfftpack/dcosqb.f scipy/fftpack/src/dfftpack/dcosqb.f:0: error: CPU you selected does not support x86-64 instruction set lipo: can't figure out the architecture type of: /var/tmp//cc7wivPN.out scipy/fftpack/src/dfftpack/dcosqb.f:0: error: CPU you selected does not support x86-64 instruction set lipo: can't figure out the architecture type of: /var/tmp//cc7wivPN.out error: Command "sage_fortran -Wall -ffixed-form -fno-second-underscore -arch ppc -arch i686 -fPIC -O3 -funroll-loops -I/Users/was/build/64bit/sage-4.1.rc1/local/lib/python2.6/site-packages/numpy/core/include -c -c scipy/fftpack/src/dfftpack/dcosqb.f -o build/temp.macosx-10.3-i386-2.6/scipy/fftpack/src/dfftpack/dcosqb.o" failed with exit status 1 Error building scipy. real 0m28.097s user 0m26.180s sys 0m1.497s sage: An error occurred while installing scipy-0.7.p2 Please email sage-devel http://groups.google.com/group/sage-devel explaining the problem and send the relevant part of of /Users/was/build/64bit/sage-4.1.rc1/install.log. Describe your computer, operating system, etc. If you want to try to fix the problem, yourself *don't* just cd to /Users/was/build/64bit/sage-4.1.rc1/spkg/build/scipy-0.7.p2 and type 'make'. Instead type "/Users/was/build/64bit/sage-4.1.rc1/sage -sh" in order to set all environment variables correctly, then cd to /Users/was/build/64bit/sage-4.1.rc1/spkg/build/scipy-0.7.p2 (When you are done debugging, you can type "exit" to leave the subshell.) make[1]: *** [installed/scipy-0.7.p2] Error 1 real 39m40.718s user 34m27.276s sys 4m20.496s Error building Sage. wstein@bsd:~/build/64bit/sage-4.1.rc1$

### Change History (3)

### comment:1 follow-up: 3 Changed 14 years ago by

Summary: | new scipy-0.7.p2 spkg is broken on 64-bit OS X → [with patch; needs review] new scipy-0.7.p2 spkg is broken on 64-bit OS X |
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### comment:2 Changed 14 years ago by

Authors: | → William Stein |
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Reviewers: | → Robert Miller |

Summary: | [with patch; needs review] new scipy-0.7.p2 spkg is broken on 64-bit OS X → [with patch; positive review] new scipy-0.7.p2 spkg is broken on 64-bit OS X, due to numpy |

### comment:3 Changed 14 years ago by

Merged in: | → sage-4.1.1.alpha0 |
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Resolution: | → fixed |

Status: | new → closed |

Summary: | [with patch; positive review] new scipy-0.7.p2 spkg is broken on 64-bit OS X, due to numpy → [with patch, positive review] new scipy-0.7.p2 spkg is broken on 64-bit OS X, due to numpy |

Replying to was:

It turns out this is caused by a bug in numpy :-). I commented out the not-needed line that is patched here http://projects.scipy.org/numpy/ticket/1087 and the build completes fine. So here is a new numpy spkg.

With this package and the patched ratpoints, sage builds completely 64-bit on OS X.

http://sage.math.washington.edu/home/wstein/patches/numpy-1.3.0.p0.spkg

I'm renaming this spkg to `numpy-1.3.0.p1.spkg`

since there is already an spkg called `numpy-1.3.0.p0.spkg`

in Sage 4.1. This is to prevent confusion later on: people might wonder why Sage 4.1 and (the upcoming) Sage 4.1.1 each has a numpy spkg with the same name as each other, but patched differently. The renamed spkg is up at

http://sage.math.washington.edu/home/mvngu/patch/numpy-1.3.0.p1.spkg

**Note:**See TracTickets for help on using tickets.

It turns out this is caused by a bug in numpy :-). I commented out the not-needed line that is patched here http://projects.scipy.org/numpy/ticket/1087 and the build completes fine. So here is a new numpy spkg.

With this package and the patched ratpoints, sage builds completely 64-bit on OS X.

http://sage.math.washington.edu/home/wstein/patches/numpy-1.3.0.p0.spkg