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I am trying to set up and run snakemake on Windows 10 following the instructions in the documentation. I have installed snakemake with conda. I verify the installation with snakemake --version. When I try to run a simple workflow (eg. the one in the tutorial) I get the following error:

ImportError: DLL load failed while importing _ctypes: The specified module could not be found.

Can anyone help?

Many thanks, Martha

snakemake version 7.16.0

conda verison 22.9.0

Snakefile:

rule bwa_map:
    input:
        "data/genome.fa",
        "data/samples/A.fastq"
    output:
        "mapped_reads/A.bam"
    shell:
        "bwa mem {input} | samtools view -Sb - > {output}"
Martha Hilton
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  • From [the documentation under 'Running the tutorial on your local machine'](https://snakemake.readthedocs.io/en/stable/tutorial/setup.html): " The tutorial assumes that you are using either Linux or MacOS X. " You'll have to specify much more detail what you mean by "following the instructions in the documentation" for set up on Windows. Have you seen [here](https://stackoverflow.com/a/67437837/8508004)? – Wayne Oct 21 '22 at 18:33

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