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stratust / igpipeline

MIT License
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Issue running pipeline #1

Open kira-neller opened 3 years ago

kira-neller commented 3 years ago

Hello, and thank you for creating this pipeline!

I've followed the steps outlined in the documentation, but when I run snakemake --until SHM I receive this error:

Building DAG of jobs...
MissingInputException in line 273 of /igpipeline/Snakefile:
Missing input files for rule create_circos_plot:

I've ensured that I have the ig_analysis folder on my desktop, and within it are 2 folders, data (contains extracted data from the link) and results (empty).

Could you please advise?

stratust commented 3 years ago

Hi @kira-neller, I couldn't reproduce your problem. Which OS are you using docker?

VitaminBrad commented 3 years ago

Hello!

I'm experiencing the same exact error message when running the same line.

I'm on Windows 10: image

And this is my Docker version:

Client:
 Cloud integration: 1.0.14
 Version:           20.10.6
 API version:       1.41
 Go version:        go1.16.3
 Git commit:        370c289
 Built:             Fri Apr  9 22:49:36 2021
 OS/Arch:           windows/amd64
 Context:           default
 Experimental:      true

Server: Docker Engine - Community
 Engine:
  Version:          20.10.6
  API version:      1.41 (minimum version 1.12)
  Go version:       go1.13.15
  Git commit:       8728dd2
  Built:            Fri Apr  9 22:44:56 2021
  OS/Arch:          linux/amd64
  Experimental:     false
 containerd:
  Version:          1.4.4
  GitCommit:        05f951a3781f4f2c1911b05e61c160e9c30eaa8e
 runc:
  Version:          1.0.0-rc93
  GitCommit:        12644e614e25b05da6fd08a38ffa0cfe1903fdec
 docker-init:
  Version:          0.19.0
  GitCommit:        de40ad0