snakemake not working correctly with Mac

[romainsacchi]

For some unknown reason, I cannot run the snakemake pipeline properly.
When it comes to the part of downloading and installing ecoinvent, snakemake triggers the same pipeline again.
Not sure how to solve this...

Creating project...
Installing biosphere...
Databases dictionary with 4 object(s):
	biosphere3
	cobalt
	dummy_bio
	dummy_db
Biosphere database already present!!! No setup is needed
Installing ecoinvent...
ecoinvent username: xxxxxx
ecoinvent password: 
logging in to ecoinvent homepage...
login successful!
downloading cutoff 3.8 ...
download finished!: /Users/romain/Library/Application Support/EcoInventDownLoader/cutoff38.7z

Extracting XML data from 19565 datasets
Creating project...
Creating project...
Creating project...
Creating project...
Creating project...

[tyrael147]

Could you please tell me how to use the snakemake file ? (maybe also include instructions in the README). I wanted to run it to compare it with your results but I don't know if the extracted output.zip folder is ok or I just don't know how to use it.

> pwd
/home/glarrea/bw-repro/outputs
> ls
config  envs  resources  scripts  Snakefile
> snakemake --cores 1
Building DAG of jobs...
MissingInputException in rule run in line 1 of /home/glarrea/bw-repro/outputs/Snakefile:
Missing input files for rule run:
    output: workflow/results/results.txt
    affected files:
        workflow/config/config.json

[romainsacchi]

I usually do snakemake -c1 --use-conda

[LaurentChion]

TL;DR jobs is an alias of cores.

I remembered we use --jobs -j for the hackathon and after looking at the documentation it say that its an alias for --core -c so it end up being the same command.
Command from hackathon: snakemake -j 1 --use-conda.

Documentation:

 --cores [N], -c [N]   Use at most N CPU cores/jobs in parallel. If N is omitted or 'all', the limit is set to the number of available CPU cores. In case of cluster/cloud execution, this argument sets the
                        maximum number of cores requested from the cluster or cloud scheduler. (See https://snakemake.readthedocs.io/en/stable/snakefiles/rules.html#resources-remote-execution for more info)This
                        number is available to rules via workflow.cores. (default: None)

  --jobs [N], -j [N]    Use at most N CPU cluster/cloud jobs in parallel. For local execution this is an alias for --cores. (default: None)