Jupyter notebook epi2meLabs“;差异基因表达;笔记本教程错误

Jupyter notebook epi2meLabs“;差异基因表达;笔记本教程错误,jupyter-notebook,google-colaboratory,jupyter-lab,Jupyter Notebook,Google Colaboratory,Jupyter Lab,我正试图在JupyterLab上运行Epi2melab“差异基因表达”笔记本教程,在完成所有步骤后,创建工作目录并安装建议的附加软件。我在步骤#7中遇到一个错误,将读取与引用序列对齐:未找到配置文件Config.yaml。我应该如何以及在哪里创建该文件 谢谢 这是我得到的代码和错误: !snakemake --snakefile pipeline-transcriptome-de/Snakefile all \ --configfile config.yaml -j 4 \ --

我正试图在JupyterLab上运行Epi2melab“差异基因表达”笔记本教程,在完成所有步骤后,创建工作目录并安装建议的附加软件。我在步骤#7中遇到一个错误,将读取与引用序列对齐:未找到配置文件Config.yaml。我应该如何以及在哪里创建该文件

谢谢

这是我得到的代码和错误:

!snakemake --snakefile pipeline-transcriptome-de/Snakefile all \
    --configfile config.yaml -j 4 \
    --until "build_minimap_index"

Traceback (most recent call last):
  File "/opt/conda/lib/python3.6/site-packages/snakemake/io.py", line 1564, in _load_configfile
    with open(configpath) as f:
FileNotFoundError: [Errno 2] No such file or directory: 'config.yaml'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/opt/conda/bin/snakemake", line 10, in <module>
    sys.exit(main())
  File "/opt/conda/lib/python3.6/site-packages/snakemake/__init__.py", line 2680, in main
    execute_subworkflows=not args.no_subworkflows,
  File "/opt/conda/lib/python3.6/site-packages/snakemake/__init__.py", line 503, in snakemake
    overwrite_config.update(load_configfile(f))
  File "/opt/conda/lib/python3.6/site-packages/snakemake/io.py", line 1594, in load_configfile
    config = _load_configfile(configpath)
  File "/opt/conda/lib/python3.6/site-packages/snakemake/io.py", line 1589, in _load_configfile
    raise WorkflowError("{} file {} not found.".format(filetype, configpath))
snakemake.exceptions.WorkflowError: Config file config.yaml not found.
!snakemake--snakefile管道转录组de/snakefile all\
--configfile config.yaml-j4\
--直到“建立小地图索引”
回溯(最近一次呼叫最后一次):
文件“/opt/conda/lib/python3.6/site packages/snakemake/io.py”,第1564行,在加载配置文件中
将open(configpath)作为f:
FileNotFoundError:[Errno 2]没有这样的文件或目录:“config.yaml”
在处理上述异常期间,发生了另一个异常:
回溯(最近一次呼叫最后一次):
文件“/opt/conda/bin/snakemake”,第10行,在
sys.exit(main())
文件“/opt/conda/lib/python3.6/site packages/snakemake/_init__.py”,第2680行,主文件
执行_子工作流=不args.no_子工作流,
文件“/opt/conda/lib/python3.6/site packages/snakemake/_init__.py”,snakemake中的第503行
覆盖配置更新(加载配置文件(f))
文件“/opt/conda/lib/python3.6/site packages/snakemake/io.py”,第1594行,加载配置文件
配置=\u加载\u配置文件(配置路径)
文件“/opt/conda/lib/python3.6/site packages/snakemake/io.py”,第1589行,在加载配置文件中
raise WorkflowError(“{}文件{}未找到。”.format(文件类型,配置路径))
snakemake.exceptions.WorkflowError:未找到配置文件Config.yaml。