[BUG]: pull is only supported for shub URIs

[virologist]

Is there an existing issue for this?

• [ ] I have searched the existing issues

Description of the Bug/Issue

"pull is only supported for shub URIs"

Nextflow command-line

nextflow run nf-flu \
  --input samplesheet.csv \
  --platform illumina \
  -profile singularity \
  --max_cpus 16

Error Message

ERROR ~ Error executing process > 'NF_FLU:ILLUMINA:CHECK_SAMPLE_SHEET (1)'
Caused by:
  Failed to pull singularity image
  command: singularity pull  --name depot.galaxyproject.org-singularity-shiptv-0.4.0--pyh5e36f6f_0.img.pulling.1706262399365 https://depot.galaxyproject.org/singularity/shiptv:0.4.0--pyh5e36f6f_0 > /dev/null
  status : 255
  message:
    ERROR: pull is only supported for shub URIs
 -- Check '.nextflow.log' file for details

Workflow Version

v3.3.6

Nextflow Executor

local

Nextflow Version

23.10.1

Java Version

java 17.0.6 2023-01-17 LTS Java(TM) SE Runtime Environment (build 17.0.6+9-LTS-190) Java HotSpot(TM) 64-Bit Server VM (build 17.0.6+9-LTS-190, mixed mode, sharing)

Hardware

Desktop

Operating System (OS)

Ubuntu 22

Conda/Container Engine

Singularity

Additional context

No response

[peterk87]

Hi @virologist thanks for reporting your issue. What version of Singularity do you have installed? Do you happen to have Apptainer installed?

FYI Singularity was recently renamed to Apptainer:

Singularity has been renamed to Apptainer as part of us moving the project to the Linux Foundation. This repo has been persisted as a snapshot right before the changes.

Source: https://github.com/apptainer/singularity

Are you able to access https://depot.galaxyproject.org/singularity/ on the network that you're executing the workflow on?