create conda environment

[nalbright]

I am currently following the most recent installation workflow starting from clear slate to install everything from scratch:

All is well until I get to Create a Conda Environment When I execute: conda env create -f dahak-conda-environment.yml I receive: SpecNotFound: Can't process without name

I think it is looking for the .yml file, but cannot find one? Is there additional files that need installed to successfully create conda environment?
Thanks!

[charlesreid1]

I added this command on suggestion from @stephenturner . I've fixed the instructions to exclude the .yml file

[nalbright]

Cool, thanks. I was able to finish the install directions successfully. The only thing that I had to stray away from the documentation was during the last install of the Open Science Framework CLI client using pip. When I executed this command I got the prompt: "mkl-random 1.0.1 and 1.0.2 requires cython, which is not installed" I fixed this just by doing a pip install cython . Don't know if you want to add to documentation or not, but just a heads up. Thanks

[stephenturner]

I was able to install the osf with conda. the version on conda-forge is 0.0.3, same as on pypi https://anaconda.org/conda-forge/osfclient

On Thu, Jul 12, 2018 at 11:04 AM nalbright notifications@github.com wrote:

Closed #103 https://github.com/dahak-metagenomics/dahak/issues/103.

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[stephenturner]

my most up to date conda env file is

name: dahak
channels:
    - bioconda
    - conda-forge
    - defaults
dependencies:
    - art
    - singularity
    - snakemake
    - osfclient
    - sra-tools