Closed macmanes closed 8 years ago
Yeah, this is a purposeful regression in 0.2.0, as --full wasn't being run in the annotation stage anyhow. I'll be putting together a list of known issues today and adding this, though it will be reactivated in an upcoming version.
On Thu, Dec 10, 2015 at 4:02 AM, Matt MacManes notifications@github.com wrote:
using dammit 0.2.0
$ dammit databases --install --full --database-dir /mnt/harmonia/
dammit! a tool for easy de novo transcriptome annotation
Camille Scott 2015
submodule: databases
--- Checking PATH for dependencies
[x] TransDecoder [x] LAST [x] HMMER [x] Infernal [x] crb-blast [x] BLAST+ [x] BUSCO
--- Dependency results
All dependencies satisfied!
--- Checking for database prep (dir: /mnt/harmonia)
[ ] download_and_gunzip:Pfam-A.hmm [ ] hmmpress:Pfam-A.hmm [ ] download_and_gunzip:Rfam.cm [ ] cmpress:Rfam.cm [ ] download_and_gunzip:aa_seq_euk.fasta [ ] lastdb:aa_seq_euk.fasta.db [ ] download_and_gunzip:ODB8_EukOGs_genes_ALL_levels.txt [ ] download_and_untar:harmonia-metazoa
--- Database results
Database prep incomplete
— Reply to this email directly or view it on GitHub https://github.com/camillescott/dammit/issues/36.
Camille Scott
Department of Computer Science Lab for Data Intensive Biology University of California, Davis
camille.scott.w@gmail.com
using dammit 0.2.0
submodule: databases