search

gtluu / timsconvert

https://gtluu.github.io/timsconvert/
Apache License 2.0
28 stars 16 forks source link

Interest in CWL wrapper #26

Open sneumann opened 2 years ago

sneumann commented 2 years ago

Hi, I would be interested in a Common Workflow Language (CWL) wrapper. I have CWL for msconvert and a few other (non-MS) file formats https://github.com/NFDI4Chem/formaTAPIRest/tree/main/cwl and we are aiming at an infrastructure to do continuous testing of conversions, including a few sanity checks on the results. I'll get the CWL at some stage, but if someone needs it sooner, happy to give support. Yours, Steffen

mwang87 commented 2 years ago

Hey Steffen, definitely open to this idea! I think one of the main issues we dealt with is the specific version of GLIBC for the Bruker APIs. It was super annoying, but we've done a workaround by pushing data to a remote server. We're happy to host and maintain this server in the cases where the underlying dynamic libs are an issue.

I think having a common place with CWL would be really cool though so happy to support with any changes needed. We happen to use NextFlow for almost everything now so that is our go to.

Best,

Ming