| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/bgruening/augustus_training/augustus_training/3.4.0+galaxy1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/bgruening/augustus_training/augustus_training/3.4.0 |
| toolshed.g2.bx.psu.edu/repos/bgruening/augustus_training/augustus_training/3.3.3 |
| toolshed.g2.bx.psu.edu/repos/bgruening/augustus_training/augustus_training/3.2.3+galaxy2 |
| toolshed.g2.bx.psu.edu/repos/bgruening/augustus_training/augustus_training/3.2.3+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/bgruening/augustus_training/augustus_training/3.2.3 |
| augustus_training |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| augustus | 3.4.0 | package |
| maker | 2.31.10 | package |
| Additional information about this tool |
cp -r `command -v augustus | xargs dirname`/../config/ augustus_dir/ &&
export AUGUSTUS_CONFIG_PATH=`pwd`/augustus_dir/ &&
maker2zff '${maker_gff}' &&
zff2gff3.pl genome.ann | perl -plne 's/\t(\S+)$/\t\.\t$1/' > genome.gff3 &&
autoAugTrain.pl --genome=${genome} --species=local --trainingset=genome.gff3 -v &&
cd 'augustus_dir/species/' && tar cvfz '${output_tar}' 'local'
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
genome: human_augustus.fa maker_gff: annot.gff3 |
human_augustus.fa annot.gff3 |