AKWB

Results 5 comments of AKWB

using my own Docker from Gitlab

thanks a lot!! I will try directly :-)

using my own Docker from Gitlab

I tried....and get an error: Oct-01 10:19:25.896 [main] DEBUG nextflow.cli.Launcher - $> /usr/local/bin/nextflow run gitlabContainerPipeline.nf --fastq ./data/4-Eco-G-Ryd_1.fastq.gz ./data/4-Eco-G-Ryd_2.fastq.gz -pr ofile docker Oct-01 10:19:25.991 [main] INFO nextflow.cli.CmdRun - N E X...

using my own Docker from Gitlab

I see...I used the command now without indicating --fastq: nextflow run gitlabContainerPipeline.nf -profile docker ..at least fastqc is running now. But I have other issues, i will try to solve...

using my own Docker from Gitlab

I have actually a trimmomatic issue... I made a docker with trimmomatic v.39. ...looks like the nextflow pipeline is referring to trimmomatic v. 0.36, which is the one you have...

Metaspades, finished abnormally, err code: -6

I have the same issue...job ran on my local machine.