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RNA-seq Pipeline Cannot Pull Dupradar #6

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jennylsmith opened this issue Mar 20, 2024 · 0 comments
Open

RNA-seq Pipeline Cannot Pull Dupradar #6

jennylsmith opened this issue Mar 20, 2024 · 0 comments
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@jennylsmith
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On HPC, cannot pull dupradar from repository.

Error:
singularity pull
exit code 143

To Reproduce:

# For running on an interactive session on cybertron with singularity module loaded
nextflow run -c 'conf/seattlechildrens.config' \
    nf-core/rnaseq \
    -r 3.14.0 \
    -profile test,local_singularity \
    --outdir "/home/$USER/temp/nf-core-rnaseq-test" \
    --project "207f23bf-acb6-4835-8bfe-142436acb58c" 

# For executing the jobs on the HPC cluster with singularity containers
# doesn't work due to bioconductor-dupradar:1.28.0--r42hdfd78af_0
nextflow run -c 'conf/seattlechildrens.config' \
    nf-core/rnaseq \
    -r 3.14.0 \
    -profile test,PBS_singularity \
    --max_memory 32.GB \
    --outdir "/home/$USER/temp/nf-core-rnaseq-test" \
    --project "207f23bf-acb6-4835-8bfe-142436acb58c" 
@jennylsmith jennylsmith added the bug Something isn't working label Mar 20, 2024
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