Skip to content

Add bclConvert in the Singularity Container#38

Open
lehmann-ju wants to merge 4 commits intoyigbt:bclConvert_centos7from
lehmann-ju:bclConvert_centos7
Open

Add bclConvert in the Singularity Container#38
lehmann-ju wants to merge 4 commits intoyigbt:bclConvert_centos7from
lehmann-ju:bclConvert_centos7

Conversation

@lehmann-ju
Copy link
Copy Markdown

  • add bclConvert in the singularity container
  • fix conda environment in the singularity container
  • update pip since virtualenv required a newer version + solve all dependencies
  • update the github workflow since it wont install Singularity correctly
  • get the installation file of bcl-convert via wget using a secret

It is necessary to add a secret BCL_CONVERT_INSTALLER to the bcl-convert installation file (f.e.: https://webdata.illumina.com/downloads/software/bcl-convert/bcl-convert-4.0.3-2.el7.x86_64.rpm) and a secret SINGULARITY_TOKEN for the access token to Sylabs.io.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment

Labels

None yet

Projects

None yet

Development

Successfully merging this pull request may close these issues.

1 participant