Apparently, I needed to also install libxml2-devel. I did recompile igraph
after each new installation. I am still having trouble with it, but not
because Python wont read graphml files, but because I am calling Python
from R in a system call, system('python myscript.py'), and while R can
write a graphml file, the python called from R can seem to read it. When I
call python from the command line, the file is read and then the python
script writes a new graphml file, which unfortunately R can't read. I know
its a permissions thing, but being a windows and sometimes Mac user, I am a
bit stumped by linux. I know when I run python from the command line it
has root permissions and R has the permissions for a user called 'shiny',
as this is on a shiny server. I think this means that a system call to
python from inside R would be looking for a python instance with shiny
permissions?
Again, slowly learning linux while trying to put apps on a shiny server.
Maybe it's a simple fix I just don't know, but here is some more background
info.
Thanks!!
Amanda Traud
On Thu, Oct 16, 2014 at 3:26 PM, Amanda Traud <[email protected]>
wrote:
> I have installed python-igraph and libxml2 and iconv and added libxml2 and
> iconv to the path, but unfortunately while R is recognizing graphml files
> and writing them very nicely, python still says that graphml support is
> disabled. I really need to be able to read and write graphml files in
> python.
>
> Please help!!
>
> --
> Amanda Traud
>
>
--
Amanda Traud
Data Scientist, Biomathematics PhD
L-3 Data Tactics
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