...
Pull the git repo using:
| Code Block |
|---|
nextflowgit pull command then add -rclone file:///work/pipelines/eresearch/vsd -b vsd-1.0 |
Install conda3 or miniconda3
...
| Code Block |
|---|
#!/bin/bash -l
#PBS -N blastdb_download
#PBS -l walltime=24:00:00
#PBS -l mem=60gb
#PBS -l ncpus=2
cd $PBS_O_WORKDIR
perl update_blastdb.pl --decompress nt [*]
perl update_blastdb.pl --decompress nr [*]
perl update_blastdb.pl taxdb
tar -xzf taxdb.tar.gz
|
The VSD workflow
The VSD workflow will perform the following steps by default:
...