| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_closestbed/2.30.0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_closestbed/2.19.0 |
| bedtools_closestbed |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bedtools | 2.30.0 | package |
| Additional information about this tool |
closestBed
$strand
$addition
#if $addition2.addition2_select:
-D $addition2.addition2_select
$addition2.iu
$addition2.id
#end if
$io
-mdb $mdb
-t $ties
#if str($k):
-k $k
#end if
-a '$inputA'
#if str($overlap_with.source) == "data_table":
-b '$overlap_with.table.fields.path'
#else
-b
#for $file in $overlap_with.inputB:
'$file'
#end for
#end if
> '$output'
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
inputA: closestBedA.bed overlap_with|inputB: closestBedB.bed overlap_with|source: history |
name: value |
closestBedA.bed closestBedB.bed value |
| Test-2 |
inputA: closestBed_a.bed overlap_with|inputB: ['closestBed_b1.bed', 'closestBed_b2.bed'] overlap_with|source: history addition: True |
name: value |
closestBed_a.bed closestBed_b1.bed closestBed_b2.bed value |
| Test-3 |
inputA: closestBed_a.bed overlap_with|inputB: ['closestBed_b1.bed', 'closestBed_b2.bed'] overlap_with|source: history addition: True mdb: all |
name: value |
closestBed_a.bed closestBed_b1.bed closestBed_b2.bed value |
| Test-4 |
inputA: closestBed_c.bed overlap_with|inputB: closestBed_d.bed overlap_with|source: history addition2|addition2_select: ref |
name: value |
closestBed_c.bed closestBed_d.bed value |
| Test-5 |
inputA: closestBed_c.bed overlap_with|inputB: closestBed_d.bed overlap_with|source: history addition2|addition2_select: a |
name: value |
closestBed_c.bed closestBed_d.bed value |
| Test-6 |
inputA: closestBedA.bed overlap_with|inputB: a.bed overlap_with|source: history k: 3 |
name: value |
closestBedA.bed a.bed value |
| Test-7 |
inputA: closestBedA.bed overlap_with|source: data_table k: 3 |
name: value |
closestBedA.bed value |