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bhattlab / lathe

A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
MIT License
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Failed to pull singularity image #27

Open DCossey opened 2 months ago

DCossey commented 2 months ago

Hello, I have just installed singularity along with all the dependencies. However, when I run the following command, I get the error below:

sudo snakemake --use-singularity --singularity-args '--bind /var/lib/minknow/data/pipeline_test/,/ ' -s /usr/local/software/lathe/Snakefile --configfile /usr/local/software/lathe/config.yaml --restart-times 0 --keep-going --latency-wait 30 {'SAMPLE_NAME': '', 'barcode1': ''} Building DAG of jobs... Pulling singularity image docker://quay.io/biocontainers/flye:2.4.2--py27he860b03_0. Pulling singularity image docker://quay.io/biocontainers/racon:1.3.2--he941832_0. Pulling singularity image shub://elimoss/lathe:htsbox. WorkflowError: Failed to pull singularity image from shub://elimoss/lathe:htsbox: WARNING: Authentication token file not found : Only pulls of public images will succeed FATAL: Failed to get manifest from Shub: No response received from singularity hub

File "/usr/lib/python3/dist-packages/snakemake/deployment/singularity.py", line 86, in pull

Any feedback on how I can get this to work? Have I written something wrong in the command?

Thanks,

Dan