[Bioc-devel] Installing libsbml for rsbml on a mac?

[Michael Lawrence]

Does this work for you?

https://github.com/mythosil/homebrew-libsbml

Michael

On Fri, Apr 3, 2020 at 2:20 AM Martin Morgan <mtmorgan.bioc using gmail.com>
wrote:

> The INSTALL file for rsbml says
>
>   ~/b/git/rsbml master$ cat INSTALL
>   ...
>
>   To build rsbml on the Mac, first install libsbml with:
>   `brew install homebrew/science/libsbml`.
>
> but
>
>   ~/b/git/rsbml master$ brew install homebrew/science/libsbml
>   Error: homebrew/science was deprecated. This tap is now empty as all its
> formulae were
>   migrated.
>
> If I download and build from source
>
>   curl -O
> https://s3.amazonaws.com/linux-provisioning/libSBML-5.10.2-core-src.tar.gz
>   tar xzf libSBML-5.10.2-core-src.tar.gz
>   ./configure --enable-layout
>   make
>   make install
>
> when I install rsbml things go well enough until
>
>   ** testing if installed package can be loaded from temporary location
>   Error: package or namespace load failed for ‘rsbml’:
>    .onLoad failed in loadNamespace() for 'rsbml', details:
>     call: dyn.load(file, DLLpath = DLLpath, ...)
>     error: unable to load shared object
>  '/Users/ma38727/Library/Caches/pkgserver/library/78c7d37adb9cb6df9d8f1ec10fed882b/00LOCK-rsbml/00new/rsbml/libs/rsbml.so':
>
> dlopen(/Users/ma38727/Library/Caches/pkgserver/library/78c7d37adb9cb6df9d8f1ec10fed882b/00LOCK-rsbml/00new/rsbml/libs/rsbml.so,
> 6): Symbol not found: _ASTNode_isName
>   Referenced from: /usr/local/lib/libsbml.5.dylib
>   Expected in: flat namespace
>  in /usr/local/lib/libsbml.5.dylib
>  Error: loading failed
>  Execution halted
>
> Any hints?
>
> Thanks, Martin
>


-- 
Michael Lawrence
Senior Scientist, Bioinformatics and Computational Biology
Genentech, A Member of the Roche Group
Office +1 (650) 225-7760
michafla using gene.com

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