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boegel avatar boegel commented on September 26, 2024

relevant error messages pasted on IRC:

(.text+0x20): undefined reference to `main'
ATL_f77wrap_gesv.c:(.text+0x64): undefined reference to `ATL_xerbla'
ATL_f77wrap_getnb.c:(.text+0x5): undefined reference to `ATL_dGetNB'
ATL_f77wrap_getrf.c:(.text+0x6a): undefined reference to `ATL_xerbla'
ATL_f77wrap_getnb.c:(.text+0x5): undefined reference to `ATL_sGetNB'
ATL_f77wrap_gesv.c:(.text+0x64): undefined reference to `ATL_xerbla'
ATL_f77wrap_getnb.c:(.text+0x5): undefined reference to `ATL_zGetNB'
ATL_f77wrap_getrf.c:(.text+0x6a): undefined reference to `ATL_xerbla'
ATL_f77wrap_getnb.c:(.text+0x5): undefined reference to `ATL_cGetNB'
ATL_getrfC.c:(.text+0x296): undefined reference to `ATL_zcplxinvert'
ATL_getrfR.c:(.text+0x294): undefined reference to `ATL_zcplxinvert'
collect2: ld returned 1 exit status
Running from numpy source directory./home/clusterusers/fgeorgatos/.local/easybuild/build/Python/3.2.3/goalf-1.1.0-no-OFED/numpy/numpy-1.6.1/build/py3k/numpy/distutils/system_info.
   Atlas (http://math-atlas.sourceforge.net/) libraries not found.
   Directories to search for the libraries can be specified in the
   numpy/distutils/site.cfg file (section [atlas]) or by setting
   the ATLAS environment variable.
 warnings.warn(AtlasNotFoundError.__doc__)
   Atlas (http://math-atlas.sourceforge.net/) libraries not found.
   Directories to search for the libraries can be specified in the
   numpy/distutils/site.cfg file (section [atlas]) or by setting

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boegel avatar boegel commented on September 26, 2024

Just to clarify: this occurs when building the numpy packages in the Python 3.2.3 module, using the goalf-1.1.0-no-OFED toolkit.

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boegel avatar boegel commented on September 26, 2024

The build is failing on my end with your branch as well, but I'm not sure whether it has the same cause.

I'm not seeing the "undefined reference to ATL_xxx" stuff, but the build does crash.

I dived into the log, this seems to be the cause:


== 2012-08-18 17:39:47,977 eb_Python INFO No class found for eb_numpy, using default eb_DefaultPythonPackage instead.
== 2012-08-18 17:39:47,977 eb_Python DEBUG Installing package eb_numpy through default class eb_DefaultPythonPackage

You renamed the Numpy class to eb_Numpy, while it should be eb_numpy. numpy (lower-case) is the official name of the package, hence...

Same for Nose to eb_nose and Scipy to eb_scipy.

Testing now whether this fixes the build.

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boegel avatar boegel commented on September 26, 2024

The fix above does fix the issue. @fgeorgatos, see fgeorgatos/easybuild#1 to this fix into your repo online (and then just pull from your repo again in your working copy using git pull origin 86_encoding_scheme).

Side-note: building only Python packages in an existing Python installation is broken because of #104.

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boegel avatar boegel commented on September 26, 2024

Fix worked on @fgeorgatos end, pull request for his branch is coming up, so closing this.

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