Issue w installing Niche environment

[SiegeVB]

• niche_vlaanderen version: /
• Python version: 3.6
• Operating System: Windows 7

Niche Python Package question

Description

@johanvdw @stijnvanhoey When I try to install the NICHE environment, I get following error: ResolvePackageNotFound and a list of packages. I tried to solve it by manually installing these packages, which didn't work. Then I tried moving these packages to pip in the .yml file but this just creates other problems... Any idea on how to solve this?

[stijnvanhoey]

There is indeed an issues with the provided niche_env file in the documentation, which we will need to fix. Thanks a lot for informing us.

As a workaround, let's try a step by step approach and if this works, we can adapt the documentation as such as well.

@SiegeVB , for your case, let's make sure the old relics are removed by first doing the following commands (removing current environment and cleaning up conda package list):

conda remove --name niche_env --all
conda clean --all -y

As an installation procedure to test:

1. create an (empty) niche environment and activate the environment

   conda create --name niche_env -y -q python=3.6
   activate niche_env

   (Note: Mac/linux users will use conda activate niche_env

2. Add the conda forge channel, a community created package repository:

conda config --add channels conda-forge

3. Install the requirered packages

conda install pandas pyyaml rasterio fiona matplotlib

(type y when asking to proceed)

4. Install niche_vlaanderen in the same environment

pip install niche_vlaanderen==1.0

Please try these instructions and have check if anyhting goes wrong when running the model. Certainly check eventual occurrence of this issue.

Make sure to activate the environment every time you running the model (activate niche_env).

Note: If you also want to use the jupyter notebook as environment to run the model, you will have to install it as well in the same environmnent: conda install jupyter notebook

[johanvdw]

If the above instructions work, can you run conda env export > newenv.yml and send me the file?

Than we can make sure other people also get your version.

[SiegeVB]

Unfortunately I get stuck at step 3 >>

I retried a couple of times as suggested, but it still doesn't work (and max retries exceeded?)

[stijnvanhoey]

This is indeed a network error and not an installation issue as such. Are you running this from inside the INBO network (hermand teirlinck) or at home (with or without VPN)?

@berthuygens is there any possibility that the INBO network is blocking any requests like this?

[cecileherr]

Maybe good to know: I was able to update my niche version today without problem (by using the same yml file on the website that Siege tried to use without success). Both of us were at INBO today (HT)

[johanvdw]

@stijnvanhoey : this is an anaconda problem

https://github.com/conda/conda/issues/6064#issuecomment-463219171

see also: https://github.com/conda/conda/issues/6007#issue-260057455

[stijnvanhoey]

so, @SiegeVB could you try also (after activating environment with activate niche_env:

conda config --set ssl_verify no

and next, do step 3 again?

[SiegeVB]

Still doesn't work, same error... Perhaps there is something wrong with some of my settings somehow, somewhere.... I guess it's easier if you can have a try on my computer yourself? But I'm not able to come to Brussels tomorrow and I see you are in vacation next week.

Op wo 20 feb. 2019 om 10:41 schreef Stijn Van Hoey <notifications@github.com

:

so, @SiegeVB https://github.com/SiegeVB could you try also:

conda config --set ssl_verify no

and next, do step 3 again?

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Siege Van Ballaert

Junior onderzoeker

Instituut voor Natuur- en Bosonderzoek

Herman Teirlinckgebouw, Site Thurn & Taxis

Havenlaan 88 bus73, 1000 Brussel Belgium

GSM: 0496 56 61 38

siege.vanballaert@inbo.be daphne.lingier@inbo.be

www.inbo.be

Ik werk niet op vrijdag.

[stijnvanhoey]

Indeed a conda error, got it working in the base environment of Siege, closing here.

[cecileherr]

Just one more question if you don't mind: is this a specific issue on Siege's computer or is it susceptible to be a problem for other (new) users? If the latest is true, we should think about adding an item in our FAQ

[johanvdw]

@cecileherr : This is a problem with anaconda. I am quite sure they will fix it soon as this affects a lot of their users.