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drpatelh avatar drpatelh commented on May 23, 2024 1

Edit: potential reason for not going with aspera ncbi/sra-tools#304 (comment)

Thanks @rsuchecki. So it's probably not worth going through the effort of implementing this afterall then. That settles it.

from viralrecon.

tamuanand avatar tamuanand commented on May 23, 2024

@drpatelh @pditommaso

This reply of mine is based of this comment from @drpatelh - nextflow-io/nextflow#1611 (comment)

I wanted to share what I know:

  • I have been working with EBI folks on Annotare/ArrayExpress. While it might be true that NCBI is moving SRA to the cloud, I think EBI/ENA still has data on-prem for SRA
  • according to the ArrayExpress EBI scientist who was helping me "aspera cli is free to use"

Vested interest :) - been requesting @pditommaso to have a fromSRA variant in nextflow for fastq file dump that can piggyback on asperacli with EBI/ENA and/or use the ncbi sra data in AWS/GCP

from viralrecon.

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