Repository revision
27:9a776b080193

Repository 'sra_tools'
hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/sra_tools

Faster Download and Extract Reads in FASTQ tool metadata
Miscellaneous
format from NCBI SRA
fasterq_dump
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/3.0.0+galaxy0
3.0.0+galaxy0
fasterq-dump --version | tr -d $'\n'
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/3.0.3+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/3.0.0+galaxy0 (this tool)
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.11.0+galaxy1
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.11.0+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.10.9+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.10.8+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.10.7+galaxy2
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.10.7+galaxy1
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.10.7+galaxy2
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.10.7+galaxy1
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.10.7+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.10.4+galaxy2
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.10.4+galaxy1
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump/2.10.4
fasterq_dump
Requirements (dependencies defined in the <requirements> tag set)
name version type
sra-tools 3.0.0 package
pigz 2.6 package
samtools 1.16.1 package
Functional tests
name inputs outputs required files
Test-1 input|accession: ERR086330
input|input_select: accession_number
Test-2 input|accession: SRR002702
input|input_select: accession_number
adv|split: --split-files
adv|skip_technical: False
Test-3 input|accession: ERR086330, SRR11953971
input|input_select: accession_number
Test-4 input|sra_file: SRR522874.sra
input|input_select: sra_file
adv|split: --split-files
adv|skip_technical: True
SRR522874.sra
Test-5 input|sra_file: SRR522874.sra
input|input_select: sra_file
adv|split: --split-files
adv|skip_technical: False
SRR522874.sra
Test-6 input|file_list: list_sra
input|input_select: file_list
adv|minlen: 21
list_sra
Test-7 input|file_list: sra_manifest.tabular
input|input_select: file_list
sra_manifest.tabular