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Fwd: Probmes in running scipy with amd64

From Lennart Sorensen@21:1/5 to Francesco Pietra on Mon May 1 17:50:02 2017

On Sun, Apr 30, 2017 at 06:59:56AM -0400, Francesco Pietra wrote:

All python bugs solved by installing Anaconda2. The drug-hunting software
is running in Debian9 (stretch) on Anaconda2 python.

Or another way of looking at it:

All scipy bugs worked around by giving it exactly the version of
everything that it assumes.

scipy is not very robust when it comes to dealing with variations in
python library versions.

My impression is that the scientific software in general does not spend
time on making things portable, as long as it works in the one environment
they work in. Anything more would be time wasted that could have been
spent on something else.

--
Len Sorensen

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From Francesco Pietra@21:1/5 to All on Sun Apr 30 14:10:02 2017

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All python bugs solved by installing Anaconda2. The drug-hunting software
is running in Debian9 (stretch) on Anaconda2 python.

francesco pietra
---------- Forwarded message ----------
From: Francesco Pietra <chiendarret@gmail.com>
Date: Sun, Apr 30, 2017 at 3:00 AM
Subject: Probmes in running scipy with amd64
To: amd64 Debian <debian-amd64@lists.debian.org>

Since a few days I am trying to get scipy support to a drug-hunting code. I first used a clean jessie (scipy 14), installing

apt-get install python-numpy python-scipy

whereby, on running the drug hunting code, I got the scipy error:

File "/usr/lib/python2.7/dist-packages/scipy/optimize/optimize.py", line 17

from *future* import division, print_function, absolute_import
SyntaxError: future feature print_function is not defined

Then I installed other packages (huge installation), as indicated on the
web for getting a working scipy:

apt-get install python-numpy python-scipy python-matplotlib ipython ipython-notebook python-pandas python-sympy python-nose

(for stretch ipython-notebook was not available, while it was for jessie)

dropping into the same error as above.

I assumed that the available python lacked that function. Therefore, I went
to stretch (scipy 18), now getting the error:

File "/usr/lib/python2.7/dist-packages/scipy/optimize/optimize.py", line 769

with warnings.catch_warnings():
^
SyntaxError: invalid syntax

On these events, I was advised to abandon python as available in debian and installing anaconda python. Such advice seems to imply (although it was not said) that python, or pieces of python, in debian are buggy.
Before following that advice (anaconda python, from its web presentation,
seems more a shortcut for those not having root privilege, which is not my case), I am asking about experience in using scipy with debian, and whether there is any trick, or configuration, to be followed in its installation.

Thanks a lot for sharing experience

francesco pietra

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<div dir="ltr"><div>All python bugs solved by installing Anaconda2. The drug-hunting software is running in Debian9 (stretch) on Anaconda2 python. </div>francesco pietra <div><div><div class="gmail_quote">---------- Forwarded message ----------<

From: Francesco Pietra <<a href="mailto:chiendarret@gmail.com">chiendarret@gmail.com</a>> Date: Sun, Apr 30, 2017 at 3:00 AM Subject: Probmes in running scipy with amd64 To: amd64

Debian <<a href="mailto:debian-amd64@lists.debian.org">debian-amd64@lists.debian.org</a>> <div dir="ltr">Since a few days I am trying to get scipy support to a drug-hunting code. I first used a clean jessie (scipy 14),
installing <blockquote style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex" class="gmail_quote"><pre>apt-get install python-
numpy python-scipy</pre></blockquote>whereby, on running the drug hunting code, I got the scipy error: <blockquote style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex" class="gmail_quote">File "/usr/lib/python2.7/dist-
packages/scipy/optimize/optimize.py", line 17 
from future import division, print_function, absolute_import 
SyntaxError: future feature print_function is not defined </blockquote> Then I installed other packages (huge installation), as indicated on the web for getting a working scipy: <div><blockquote style="margin:0px 0px
0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex" class="gmail_quote"><pre>apt-
get install python-numpy python-scipy python-
matplotlib ipython ipython-notebook python-pandas 
python-sympy python-nose </pre></blockquote><div> </div><blockquote style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex" class="gmail_quote"><pre>(for stretch ipython-notebook was not available, while it was for jessie)</pre></blockquote>dropping into the same error as above. </div><div>I assumed that the available python lacked that function.
Therefore, I went to stretch (scipy 18), now getting the error: <blockquote style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex" class="gmail_quote">File "/usr/lib/python2.7/dist-packages/scipy/
optimize/optimize.py", line 769 
with warnings.catch_warnings(): ^ SyntaxError: invalid syntax </blockquote> </div><div>On these events, I was advised to abandon python as available in debian and installing anaconda python. Such advice seems to imply (although it was not said) that python, or pieces of python, in
debian are buggy. </div><div>Before following that advice (anaconda python, from its web presentation, seems more a shortcut for those not having root privilege, which is not my case), I am asking about experience in using scipy with debian, and
whether there is any trick, or configuration, to be followed in its installation. </div><div>Thanks a lot for sharing experience </div><div>
francesco pietra </div></div>
</div> </div></div></div>

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