安装后无法使用snakemake

Question

我用conta安装了snakemake，我激活了环境，当我运行时

snakemake --help

：

Traceback (most recent call last):
>   File
> "/home/miniconda3/envs/snakemake/lib/python3.12/site-packages/snakemake/cli.py",
> line 2037, in main
>     parser, args = parse_args(argv)
>                    ^^^^^^^^^^^^^^^^   File "/home/miniconda3/envs/snakemake/lib/python3.12/site-packages/snakemake/cli.py",
> line 1629, in parse_args
>     parser = get_argument_parser()
>              ^^^^^^^^^^^^^^^^^^^^^   File "/home/miniconda3/envs/snakemake/lib/python3.12/site-packages/snakemake/cli.py",
> line 770, in get_argument_parser
>     lp_solvers = pulp.list_solvers(onlyAvailable=True)
>                  ^^^^^^^^^^^^^^^^^ AttributeError: module 'pulp' has no attribute 'list_solvers'. Did you mean: 'listSolvers'?

你能帮我解决这个问题吗？

Answer 1

你必须确保安装了pulp<2.8.0

Answer 2

尝试使用 mamba 安装snakemake，而不是使用

mamba install -n Snakemake Snakemake

这假设您安装了 mamba，即通过 conda 预先通过 conda install mamba 到基础环境中。