[Simnibs-discuss] [UNCLASSIFIED] Unable to install simnibs 4.0

Oula Puonti oulap at drcmr.dk
Thu Feb 23 17:34:18 CET 2023 

Hi Aidan,

Okay, let's try to check if you can make scipy work at all on your
computer. Try this:

1) Create a fresh anaconda environment by calling:

conda create -n test_scipy python=3

2) Activate the environment

conda activate test_scipy

3) Install scipy

conda install scipy

4) Start the python interpreter:

python

5) Import everything from scipy

from scipy import *


Let me know if that throws an error.

Thanks,
Oula



On Thu, 2023-02-23 at 01:11 +0000, Aidan.Lewis wrote:
> Hi Oula,
>  
> Unfortunately, I am receiving the same error despite your
> instructions. See attached my anaconda script.
> Apologies.
>  
> Best,
> Aidan
>  
> From: Oula Puonti <oulap at drcmr.dk>
> Sent: Thursday, 23 February 2023 12:21 AM
> To: Aidan.Lewis <Aidan.Lewis at canberra.edu.au>
> Cc: discuss at simnibs.org
> Subject: Re: [Simnibs-discuss] [UNCLASSIFIED] Unable to install
> simnibs 4.0
>  
> Hi Aidan,
> 
> Sorry I copied the wrong link in. Please download the .yml file
> first,
> i.e., save the file from this link:
> 
> https://github.com/simnibs/simnibs/releases/download/v4.0.0/environment_win.yml
> 
> to your computer.
> 
> Then use conda and the file above to create the simnibs environment:
> 
> conda env create -f "%USERPROFILE%\Download\environment_win.yml"
> 
> assuming the .yml file is in your Download folder. After that
> activate
> the environment by calling:
> 
> conda activate simnibs_env
> 
> and finally install the simnibs wheel (here's where I made a mistake
> in
> the previous email):
> 
> pip install
> https://github.com/simnibs/simnibs/releases/download/v4.0.0/simnibs-4.0.0-cp39-cp39-win_amd64.whl
> 
> then try calling (with the environment active):
> 
> python 
> 
> import simnibs
> 
> 
> Best,
> Oula
> 
> 
> 
> 
> On Wed, 2023-02-22 at 00:35 +0000, Aidan.Lewis wrote:
> > Hello Oula,
> >  
> > The following error message occurs:
> >  
> > What best should I do from here?
> >  
> > Kind regards,
> > Aidan 
> >  
> > From: Oula Puonti <oulap at drcmr.dk>
> > Sent: Wednesday, 22 February 2023 9:41 AM
> > To: Aidan.Lewis <Aidan.Lewis at canberra.edu.au>;discuss at simnibs.org
> > Subject: Re: [Simnibs-discuss] [UNCLASSIFIED] Unable to install
> > simnibs 4.0
> >  
> > Hi Aidan,
> > 
> > Can you try the installation guide here:
> > 
> > https://simnibs.github.io/simnibs/build/html/installation/conda.html
> > 
> > Hopefully creating a fresh environment and pip installing simnibs
> > directly there solves the issue. The final command in the guide,
> > namely:
> > 
> > pip install -f https://github.com/simnibs/simnibs/releases/latest
> > simnibs
> > 
> > does not work, please use:
> > 
> > pip install
> > https://github.com/simnibs/simnibs/releases/download/v4.0.0/environment_win.yml
> > 
> > instead, i.e., pass the full path to the wheel. Once you've done
> > that,
> > run (while having the simnibs_env activated):
> > 
> > python
> > 
> > import simnibs
> > 
> > and see if that works. 
> > 
> > Not exactly sure what cause the issue, but people have reported
> > similar
> > problems here:
> > 
> > https://stackoverflow.com/questions/69057590/dll-load-failed-while-importing-arpack-from-scipy-integrate
> > 
> > and here:
> > 
> > https://github.com/conda/conda/issues/6396
> > 
> > 
> > Best,
> > Oula
> > 
> > 
> > On Tue, 2023-02-21 at 22:08 +0000, Aidan.Lewis wrote:
> > > Hi Oula,
> > >  
> > > I believe I successfully upgraded the scipy files, but the same
> > > error
> > > still occurred – whether I tried the install wizard or through
> > > python. See screenshots of the terminal lines of each. Please let
> > > me
> > > know if I have done something wrong.
> > >  
> > > Kind regards,
> > > Aidan
> > >  
> > > From: Oula Puonti <oulap at drcmr.dk>
> > > Sent: Wednesday, 22 February 2023 7:29 AM
> > > To: Aidan.Lewis <Aidan.Lewis at canberra.edu.au>;discuss at simnibs.org
> > > Subject: Re: [Simnibs-discuss] [UNCLASSIFIED] Unable to install
> > > simnibs 4.0
> > >  
> > > Hi Aidan,
> > > 
> > > Can you try to update scipy by running (in a terminal):
> > > 
> > > simnibs_python -m pip install --upgrade scipy
> > > 
> > > and then try typing (in a terminal):
> > > 
> > > simnibs_python
> > > 
> > > import simnibs
> > > 
> > > to see if that fixes the issue.
> > > 
> > > Best,
> > > Oula
> > > 
> > > 
> > > On Wed, 2023-02-15 at 23:09 +0000, Aidan.Lewis wrote:
> > > > Hi Oula,
> > > >  
> > > > Thank you for your response. That’s correct – 3.2 simnibs
> > > > successfully uninstalled and no files remain on my computer and
> > > > I
> > > > used the most recent installer available on the website.
> > > >  
> > > > My laptop is a Dell with an Intel® Core i7 v Pro. I am running
> > > > Windows 10 Enterprise. It is a work laptop that is owned by
> > > > University of Canberra (but please note I was still able to
> > > > install
> > > > 3.2 simnibs on this same laptop).
> > > >  
> > > > From: Oula Puonti <oulap at drcmr.dk>
> > > > Sent: Thursday, 16 February 2023 3:39 AM
> > > > To: Aidan.Lewis
> > > > <Aidan.Lewis at canberra.edu.au>;discuss at simnibs.org
> > > > Subject: Re: [Simnibs-discuss] [UNCLASSIFIED] Unable to install
> > > > simnibs 4.0
> > > >  
> > > > Hi Aidan,
> > > > 
> > > > Looks like you might be missing some scipy-specific libraries. 
> > > > 
> > > > Just to be sure: you don't have any old versions of simnibs
> > > > lying
> > > > around (probably not the case as you said you managed to
> > > > uninstall),
> > > > and you're a clean install of the new version with the
> > > > installer
> > > > downloaded from the website?
> > > > 
> > > > Could you also provide us with the details of the computer and
> > > > operating system you're trying to install simnibs on? Is it a
> > > > personal
> > > > computer (desktop/laptop) or a server?
> > > > 
> > > > Thanks,
> > > > Oula
> > > > 
> > > > 
> > > > On Wed, 2023-02-15 at 02:10 +0000, Aidan.Lewis wrote:
> > > > > Hello,
> > > > >  
> > > > > I have recently tried to upgrade from Simnibs 3.2 to 4. I
> > > > > successfully uninstalled 3.2, but an error message pops up in
> > > > > the
> > > > > final parts of installation. Please find attached my install
> > > > > log.
> > > > > I
> > > > > believe it has something to do with _arpack. Your assistance
> > > > > is
> > > > > greatly appreciated.
> > > > >  
> > > > > Kind regards,
> > > > > Aidan
> > > > >  
> > > > > Discipline of Psychology | School of Health Sciences 
> > > > > | University
> > > > > of
> > > > > Canberra
> > > > > University of Canberra Research Institute for Sport and
> > > > > Exercise | Active Brain | University of Canberra
> > > > > Bruce ACT, 2601 Australia
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