| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/bamutil_diff/bamutil_diff/1.0.15+galaxy1 (this tool) |
| bamutil_diff |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bamutil | 1.0.15 | package |
| Additional information about this tool |
bam diff
--in1 '$in1'
--in2 '$in2'
#if $fields.choice == 'all':
--all
#elif $fields.choice == 'select':
$fields.flag
$fields.mapQual
$fields.mate
$fields.isize
$fields.seq
$fields.baseQual
$fields.noCigar
$fields.noPos
#if $fields.samtags.tagchoice == 'everyTag':
--everyTag
#elif $fields.samtags.tagchoice == 'specify':
--tags '$fields.samtags.tags'
#end if
#end if
--posDiff $posDiff
--recPoolSize -1
$onlyDiffs
--params
--noPhoneHome
--out $output_as
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
in1: in1.sam in2: in2.sam posDiff: 100000 onlyDiffs: True fields|choice: default output_as: diff.txt |
name: value |
in1.sam in2.sam value |
| Test-2 |
in1: in1.sam in2: in2.sam posDiff: 100000 onlyDiffs: True fields|flag: True fields|seq: True fields|samtags|tags: AS:i,MD:Z fields|samtags|tagchoice: specify fields|choice: select output_as: diff.sam |
name: value name: value name: value |
in1.sam in2.sam value |
| Test-3 |
in1: in1.sam in2: in3.sam posDiff: 100000 onlyDiffs: True fields|choice: default output_as: diff.txt |
name: value |
in1.sam in3.sam value |