Good diagnostics there. I’d recommend
https://sqlite.org/2019/sqlite-autoconf-3270100.tar.gz
as the sources to use. Pushing to use system sqlite is
also an healthy option.
François
> On 16/02/2019, at 22:15, Emmanuel Charpentier <emanuel.charpent...@gmail.com>
> wrote:
>
> Ahem...
>
> It turns put that I can't reproduce my *origonal* problem : sustem's upgrade
> seems to ghave fixed rthe problem.
>
> Sorry for the noise...
>
> However, "spdep" still doesn't install, but the problem si totally different
> : its dependency "sf" doesn't compile due to a missing library call in ...
> libgdal.so, of all things, which claims :
>
> /usr/bin/ld: /usr/lib/libgdal.so: undefined reference to
> `sqlite3_column_origin_name'
> /usr/bin/ld: /usr/lib/libgdal.so: undefined reference to
> `sqlite3_column_table_name'
> collect2: error: ld returned 1 exit status
> /usr/bin/ld: /usr/lib/libgdal.so: undefined reference to
> `sqlite3_column_origin_name'
> /usr/bin/ld: /usr/lib/libgdal.so: undefined reference to
> `sqlite3_column_table_name'
> collect2: error: ld returned 1 exit status
>
> This is more explainable: "our" sqlite3 is at 3.22, whereas system's sqlite3
> is at 3.26+fossilbc891ac6b (whatever that means...).
>
> I might try to update "our" sqlite3 *if* I can figure what is the "right"
> source.... Debian unstable has 3.27 ; I might try that.
>
> Hints ? Suggestions ?
>
>
> Le samedi 16 février 2019 10:00:45 UTC+1, François Bissey a écrit :
> Can you send us the error message you get when installing sp/spdep?
> What version of openblas do you have on your system? The latest beta
> of sage uses openblas 0.3.5 which is latest available release.
>
> François
>
> > On 16/02/2019, at 21:46, Emmanuel Charpentier <emanuel.c...@gmail.com>
> > wrote:
> >
> > Dear list,
> >
> > I started to get strange errors when installing some R packages ("sp" and
> > "spdep", for the record). Ultimately, it boils down to the fact that those
> > libraries need to use library system calls that exist in the system's
> > openblas (these packages do install fine in system's R) but not in "our"
> > openblas.
> >
> > A possible workaround would be to install Atlas systemwide and to point
> > SAGE_ATLAS_LIB to that. But using ATLAS has some drawbacks (e. g.
> > necessity to manually recompile in order to optimize BLAS and LAPACK).
> > Hence my question :
> >
> > Is there a way to install (i. e. compile) Sage using system's BLAS and
> > LAPACK provided by system's openblas ?
> >
> > PS : another workaround would be ti upgrade "our" openblas to a version
> > supporting the needed calls. I do not know how to do this, and it sems
> > soewhat intricate.
> >
> >
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