Repository revision
21:494b2ec08162

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

Download and Extract Reads in FASTA/Q tool metadata
Miscellaneous
format from NCBI SRA
fastq_dump
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/2.10.7+galaxy1
2.10.7+galaxy1
fastq-dump --version
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/2.10.7+galaxy2
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/2.10.7+galaxy1 (this tool)
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/2.10.7+galaxy2
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/2.10.7+galaxy1 (this tool)
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/2.10.7+galaxy0
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/2.10.4+galaxy1
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/2.10.4
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/2.9.1.3
toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/1.2.5
fastq_dump
Requirements (dependencies defined in the <requirements> tag set)
name version type
sra-tools 2.10.7 package
pigz 2.3.4 package
Functional tests
name inputs outputs required files
Test-1 input|input_select: accession_number
outputformat: fastqsanger
input|accession: SRR044777
adv|skip_technical: True
attributes: name
name
Test-2 input|input_select: accession_number
outputformat: fastqsanger.gz
input|accession: SRR925743
adv|maxID: 5
attributes: name
name
Test-3 input|input_select: accession_number
outputformat: fastqsanger
input|accession: SRR925743
adv|maxID: 5
attributes: name
name
Test-4 input|input_select: file_list
outputformat: fastqsanger
input|file_list: list_pe
adv|maxID: 5
list_pe
Test-5 input|input_select: file_list
outputformat: fastqsanger
input|file_list: list_pe2
adv|maxID: 5
list_pe2
Test-6 input|input_select: file_list
outputformat: fastqsanger
input|file_list: list_se
adv|maxID: 5
list_se
Test-7 input|input_select: accession_number
outputformat: fastqsanger.gz
input|accession: SRR6982805
adv|table: SEQUENCE
adv|maxID: 2
attributes: name
name