[Biopython-dev] Fwd: [biopython] Fix Biopython installation with pip (#172)

Kai Blin kai.blin at biotech.uni-tuebingen.de
Mon Apr 15 11:58:22 UTC 2013

On 2013-04-11 12:17, Peter Cock wrote:

Hi folks,

>> Sure, I've got a zoo of Ubuntu systems to try this on, and I'd actually be
>> very interested in this. I'll give it a go.
> A whole zoo of Ubuntu systems? Sounds like an excellent test set :)

So, my tests were run like this:

- set up an Ubuntu server install of the given version.
- installed build-essential python-dev git-core python-virtualenv
- ran:
$ git clone git://github.com/chapmanb/biopython.git
$ virtualenv test
$ source test/bin/activate
$ pushd biopython
$ pip install .
$ popd
$ python -c "import Bio; print Bio.__version__"

Current results are:
10.04: works great
12.04: fails, telling me that numpy is required
12.10: fails, telling me that numpy is required


Dipl.-Inform. Kai Blin         kai.blin at biotech.uni-tuebingen.de
Institute for Microbiology and Infection Medicine
Division of Microbiology/Biotechnology
Eberhard-Karls-Universität Tübingen
Auf der Morgenstelle 28                 Phone : ++49 7071 29-78841
D-72076 Tübingen                        Fax :   ++49 7071 29-5979
Homepage: http://www.mikrobio.uni-tuebingen.de/ag_wohlleben

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