Riccardo Rossi
02/20/2024, 2:21 PMcurl \
--retry 5 --continue-at - --max-time 120000 \
-L ftp.sra.ebi.ac.uk/vol1/fastq/SRR762/000/SRR7621290/SRR7621290_1.fastq.gz \
-o SRX4451231_SRR7621290_1.fastq.gz
with an exit status 56
curl: (56) Recv failure: Connection reset by peer
some other times the pipeline fails with an error 7:
curl: (7) Failed to connect to ftp.sra.ebi.ac.uk port 21 after 6564 ms: Connection refused
But if I run the same command above (curl) without nextflow the download proceeds and completes correctly.
In both cases (using nf-core/fetchngs & using SLURM/curl command) I'm using the same parameters. With nextflow the arguments --retry 5 --continue-at - --max-time 120000 are passed through the config file and the profile used is a slurm,singularity (orchestrator and container).
No useful (to me at least) additional info in the log files...
Anyone any idea on which side the issue could be?