setup problem

[mmeshhal]

I have a problem in installing the code

1. When I try: conda env create --file graphene-env.yml, I get:

Collecting package metadata (repodata.json): done
Solving environment: failed

ResolvePackageNotFound:
- pyyaml==5.1.1=py27h1de35cc_0
- scikit-learn==0.20.3=py27h27c97d8_0
- python==2.7.17=h97142e2_0
- numpy==1.16.5=py27hacdab7b_0

2. And pytest gives:

============================================================== test session starts ==============================================================
platform linux2 -- Python 2.7.17, pytest-3.3.2, py-1.5.2, pluggy-0.6.0
rootdir: /home/mm000/make-graphitics, inifile:
collected 1 item

tests/test_examples.py F [100%]

=================================================================== FAILURES ====================================================================
_________________________________________________________________ test_examples _________________________________________________________________

def test_examples():
    from os import listdir
    from os.path import isfile, join
    import subprocess

    path = "examples/"

    example_files = [f for f in listdir(path) if isfile(join(path, f))]
    example_files = [f for f in example_files if f[-3:] == ".py"]

    for example in example_files:
        return_code = subprocess.call(["python", path + example])

      assert not return_code

E assert not 1

tests/test_examples.py:13: AssertionError
------------------------------------------------------------- Captured stderr call --------------------------------------------------------------
Traceback (most recent call last):
File "examples/GO_sheet.py", line 1, in
import yaml
ImportError: No module named yaml
=========================================================== 1 failed in 0.16 seconds ============================================================

[velocirobbie]

Hi, sorry for the late reply,

The tests fail because obviously the necessary packages were not installed. I've tried it on my machine with no problem, could you tell me what version of conda you are using?

[mmeshhal]

I use conda3

[crisnaIITD]

Might just be too late but for those that may still run into this error.
The packages required are not in the conda repository (for your conda). You could try searching for required packages. For example try "conda search pyyaml | grep 5.1.1"
Here is my terminal output:

(base) [krishna@fedora bin]$ conda search pyyaml | grep 5.1.1
Retrying (Retry(total=2, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ProxyError('Cannot connect to proxy.', TimeoutError('timed out'))': /pkgs/r/linux-64/repodata.json

pyyaml                         5.1.1  py27h516909a_0  conda-forge         
pyyaml                         5.1.1  py27h7b6447c_0  pkgs/main           
pyyaml                         5.1.1  py36h516909a_0  conda-forge         
pyyaml                         5.1.1  py36h7b6447c_0  pkgs/main           
pyyaml                         5.1.1  py37h516909a_0  conda-forge         
pyyaml                         5.1.1  py37h7b6447c_0  pkgs/main      

This package requires pyyaml==5.1.1=py27h1de35cc_0 which is clearly not available in my conda too. The closest is either py27h516909a_0 or py27h7b6447c_0. Edit the yml file accordingly for missing packages and try again.
Worked for me. I wouldn't expect any major difference between the two packages (recommended in the yml file and the one I found). Still be aware of what you're doing.