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Source: parallel-fastq-dump
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>
Section: science
Priority: optional
Build-Depends: debhelper-compat (= 13),
dh-python,
python3,
python3-setuptools,
sra-toolkit
Standards-Version: 4.6.0
Vcs-Browser: https://salsa.debian.org/med-team/parallel-fastq-dump
Vcs-Git: https://salsa.debian.org/med-team/parallel-fastq-dump.git
Homepage: https://github.com/rvalieris/parallel-fastq-dump
Rules-Requires-Root: no
Package: parallel-fastq-dump
Architecture: any
Depends: ${python3:Depends},
${misc:Depends},
sra-toolkit
Description: parallel fastq-dump wrapper
NCBI fastq-dump can be very slow sometimes, even if you have the resources
(network, IO, CPU) to go faster, even if you already downloaded the sra
file. This tool speeds up the process by dividing the work into multiple
threads.
.
This is possible because fastq-dump have options (-N and -X) to query
specific ranges of the sra file, this tool works by dividing the work
into the requested number of threads, running multiple fastq-dump in
parallel and concatenating the results back together, as if you had just
executed a plain fastq-dump call.
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