| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/bax2bam/bax2bam/0.0.11+galaxy0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/bax2bam/bax2bam/0.0.9+galaxy0 |
| bax2bam |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bax2bam | 0.0.11 | package |
| Additional information about this tool |
## skipped -h/--help, --xml, -f, --output-xml, --ccs (see https://github.com/PacificBiosciences/pbbioconda/issues/215)
## run
bax2bam
#for $file in $files
'$file'
#end for
-o 'output'
$readtype
#if $pulsefeatures
--pulsefeatures=$pulsefeatures
#end if
$losslessframes
$internal
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
files: ['set.3.bax.h5', 'set.2.bax.h5', 'set.1.bax.h5'] readtype: --subread |
name: value name: value |
set.3.bax.h5 set.2.bax.h5 set.1.bax.h5 value |
| Test-2 |
files: ['set.3.bax.h5', 'set.2.bax.h5', 'set.1.bax.h5'] readtype: --hqregion |
name: value name: value |
set.3.bax.h5 set.2.bax.h5 set.1.bax.h5 value |
| Test-3 |
files: ['set.3.bax.h5', 'set.2.bax.h5', 'set.1.bax.h5'] readtype: --polymeraseread |
name: value |
set.3.bax.h5 set.2.bax.h5 set.1.bax.h5 value |
| Test-4 |
files: ['set.3.bax.h5', 'set.2.bax.h5', 'set.1.bax.h5'] readtype: --subread pulsefeatures: SubstitutionTag losslessframes: True internal: True |
name: value name: value |
set.3.bax.h5 set.2.bax.h5 set.1.bax.h5 value |