Closed cbaakman closed 1 year ago
I've installed pandora using miniconda and downloaded the database using install_database. I also installed netMHCpan. I'm running PANDORA like this:
install_database
from PANDORA.Wrapper.Wrapper import Wrapper from PANDORA.Database import Database if __name__ == "__main__": db = Database.load('/projects/0/einf2380/softwares/PANDORA_databases/default/PANDORA_database.pkl') wrapper = Wrapper("/home/baakmanc/iedb-mhc-ligand-classI-seq-data.csv", header=True, MHC_class="I", delimiter=',', IDs_col=0, peptides_col=2, allele_name_col=1, M_chain_col=4, use_netmhcpan=True, verbose=True, database=db, num_cores=128, collective_output_dir='/projects/0/einf2380/data/iedb-models/')
However, empty directories are created. Closer inspection of the output shows that the following is thrown:
FileNotFoundError: [Errno 2] No such file or directory: '/home/baakmanc/miniconda3/envs/pandora/bin/data/allelenames'
Where can I get the file named allelenames ?
It appeared that this file needed to be downloaded here: https://services.healthtech.dtu.dk/services/NetMHCpan-4.1/data.tar.gz
I've installed pandora using miniconda and downloaded the database using
install_database
. I also installed netMHCpan. I'm running PANDORA like this:However, empty directories are created. Closer inspection of the output shows that the following is thrown:
Where can I get the file named allelenames ?