could not get image manifest oras://community.wave.seqera.io/library/polars_pyyaml_seaborn_upsetplot:f266bc0cdfb4cc77
bug
### Description of the bug
Dear all,
I am trying to run the dev version of nf-core/circrna on a HPC but the pipeline gets stuck when trying to pull this image (oras://community.wave.seqera.io/library/polars_pyyaml_seaborn_upsetplot:f266bc0cdfb4cc77) with singularity (3.8.7-gcc-12.2.0-h4t6dps). I'll attach the .netflow.log file.
...
Pulling Singularity image oras://community.wave.seqera.io/library/polars_pyyaml_seaborn_upsetplot:f266bc0cdfb4cc77 [cache /gpfs/data/fs72371/jfreun86/nxt_simg/community.wave.seqera.io-library-polars_pyyaml_seaborn_upsetplot-f266bc0cdfb4cc77.img]
WARN: Process 'NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:FAIL_ON_EMPTY' cannot be executed by 'slurm' executor -- Using 'local' executor instead
ERROR ~ Error executing process > 'NFCORE_CIRCRNA:CIRCRNA:BSJ_DETECTION:COMBINEBEDS_READS (7)'
Caused by:
Failed to pull singularity image
command: singularity pull --name community.wave.seqera.io-library-polars_pyyaml_seaborn_upsetplot-f266bc0cdfb4cc77.img.pulling.1747903662491 oras://community.wave.seqera.io/library/polars_pyyaml_seaborn_upsetplot:f266bc0cdfb4cc77 > /dev/null
status : 255
hint : Try and increase singularity.pullTimeout in the config (current is "2h")
message:
FATAL: While pulling image from oci registry: error fetching image to cache: failed to get checksum for oras://community.wave.seqera.io/library/polars_pyyaml_seaborn_upsetplot:f266bc0cdfb4cc77: could not get image manifest, received mediaType: application/vnd.docker.distribution.manifest.v2+json
I already increased the pullTimeout from "1h" to "2h" but when resuming the pipeline it immedeatly stops again. Also I cannot seem to find this container on the website (https://seqera.io/containers/). Does it still exist?
Can you point me in the right direction on how to solve/work around this issue?
Thank you very much for your time and expertise!
[nextflow.log](https://github.com/user-attachments/files/20396988/nextflow.log)
### Command used and terminal output
```console
# Run nextflow pipeline with test profile
nextflow run nf-core/circrna -r dev \
-profile singularity \
-resume \
-c /gpfs/data/.../scripts/circRNA/nxt.config \
-params-file /gpfs/data/.../scripts/circRNA/params.yml \
--input /gpfs/data/.../01_data/circRNA/samplesheet.csv \
--outdir /gpfs/data/.../02_analysis/circRNA/output \
--phenotype /gpfs/data/.../01_data/circRNA/phenotype.csv
```
### Relevant files
_No response_
### System information
System information
Nextflow version 24.10.3
Hardware HPC
Executor slurm
Container engine: Singularity 3.8.7
OS AlmaLinux release 8.8 (Sapphire Caracal)
Version of nf-core/circrna (dev)
关闭于 2025-05-23 3 条评论