| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_getfastabed/2.30.0+galaxy1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_getfastabed/2.30.0 |
| toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_getfastabed/2.29.2 |
| toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_getfastabed/2.29.0 |
| toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_getfastabed/2.27.1 |
| toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_getfastabed/2.19.0 |
| bedtools_getfastabed |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bedtools | 2.30.0 | package |
| Additional information about this tool |
#if str($fasta_source.fasta_source_selector) == 'history':
#set $fasta_file = $fasta_source.fasta
#else
#set $fasta_file = $fasta_source.fasta_id.fields.path
ln -s '${fasta_file}.fai' 'input.fasta.fai' &&
#end if
ln -s '$fasta_file' 'input.fasta' &&
bedtools getfasta
$name
$nameOnly
$tab
$strand
$split
-fi 'input.fasta'
-bed '$input'
-fo '$output'
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
input: nucBed1.bed fasta_source|fasta: nucBed1.fasta nameOnly: False tab: False split: False |
name: value |
nucBed1.bed nucBed1.fasta value |
| Test-2 |
input: nucBed1.bed fasta_source|fasta: nucBed1.fasta nameOnly: False tab: True split: False |
name: value |
nucBed1.bed nucBed1.fasta value |
| Test-3 |
input: nucBed1.bed fasta_source|fasta: nucBed1.fasta name: True tab: False split: False |
name: value |
nucBed1.bed nucBed1.fasta value |
| Test-4 |
input: nucBed2.bed fasta_source|fasta: nucBed1.fasta nameOnly: True tab: False split: False |
name: value |
nucBed2.bed nucBed1.fasta value |
| Test-5 |
input: nucBed2.bed fasta_source|fasta_id: testid fasta_source|fasta_source_selector: preloaded nameOnly: True tab: False split: False |
name: value |
nucBed2.bed value |