| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/earlhaminst/ete/ete_lineage_generator/3.1.2+galaxy1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/earlhaminst/ete/ete_lineage_generator/3.1.2 |
| toolshed.g2.bx.psu.edu/repos/earlhaminst/ete/ete_lineage_generator/3.1.1 |
| toolshed.g2.bx.psu.edu/repos/earlhaminst/ete/ete_lineage_generator/3.0.0b35 |
| ete_lineage_generator |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| ete3 | 3.1.2 | package |
| Additional information about this tool |
python '$__tool_directory__/ete_lineage_generator.py'
-s '$speciesFile'
-d '$database'
-o '$outputFile'
#if $ranks.levels == "full"
-f
#elif $ranks.levels == "manual"
#for $rank in str($ranks.manualranks).split(','):
-r $rank
#end for
#end if
#if $compresscond.compress == "-c"
$compresscond.compress
$compresscond.lower
#end if
$includeid
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
speciesFile: species.txt database: taxdump.sqlite ranks|levels: full compresscond|compress: |
name: value |
species.txt taxdump.sqlite value |
| Test-2 |
speciesFile: species.txt database: taxdump.sqlite ranks|levels: primary compresscond|compress: -c |
name: value |
species.txt taxdump.sqlite value |
| Test-3 |
speciesFile: species.txt database: taxdump.sqlite ranks|levels: primary compresscond|lower: True compresscond|compress: -c |
name: value |
species.txt taxdump.sqlite value |
| Test-4 |
speciesFile: species.txt database: taxdump.sqlite ranks|manualranks: ['kingdom', 'family'] ranks|levels: manual compresscond|compress: |
name: value |
species.txt taxdump.sqlite value |
| Test-5 |
speciesFile: species.txt database: taxdump.sqlite includeid: True |
name: value |
species.txt taxdump.sqlite value |
| Test-6 |
speciesFile: species_ids.txt database: taxdump.sqlite |
name: value |
species_ids.txt taxdump.sqlite value |