-
This code block breaks the functionality of `nextflow config -show-profiles` with all nf-core pipelines:
https://github.com/nf-core/configs/blob/bb7f67e2b556e1deda34b51799d654603d9c8c9f/conf/bi.con…
ewels updated
2 years ago
-
Hi,
Thanks for the really useful tool. Apologies if I have missed this somewhere obvious, but can you let me know what settings you use within D-GENIES for the `minimap2` and `mashmap` searches? I …
-
Copied across description from https://github.com/nextflow-io/nextflow/issues/2418
In the latest snapshot release, the parameter JSON schema validation we have in nf-core pipelines seems to be …
-
In the latest snapshot release, the parameter JSON schema validation we have in nf-core pipelines seems to be failing before the pipeline execution as a result of a mismatch between the observed and e…
-
## Bug report
I made self-update to nextflow latest from 21.10 stable. I got error `Cause: No such property: ch_design_reads_csv for class`. Previous runs with 21.10 were successfull.
### Expec…
-
### Description of the bug
I am trying to process a dataset that consists of about 100 fastq files using the pipeline. I am running the pipeline on a HPC which is managed using Slurm. The first few…
-
I am getting this error:
Cannot invoke method toInteger() on null object
-- Check script '/home/ubuntu/.nextflow/assets/nf-core/sarek/main.nf' at line: 4183 or see '.nextflow.log' file for more…
-
## Check Documentation
## Description of the bug
I am trying to run rnaseq pipeline with singularity on HPC and it fails stright after running. I am not sure why it tries to run docker if I spec…
ghost updated
2 years ago
-
I'm using nf-core/sarek v2.6.1 with Nextflow-v20.10.0
I tried to change values of java memory for markdup without success.
`nextflow run nf-core/sarek -c ../genotoul_1.config --input input.tsv …
-
## Check Documentation
I have checked the following places for your error:
- [x] [nf-core website: troubleshooting](https://nf-co.re/usage/troubleshooting)
- [x] [nf-core/dualrnaseq pipelin…