scottdaniel
commented
7 years ago Well, I'm not sure how I fixed it, but I did. I changed the way the prereq's for ProphET are installed to more closely match your https://github.com/jaumlrc/ProphET/blob/master/.travis.yml
The singularity container works and the source code is here: https://github.com/hurwitzlab/singularity-prophET
I think I almost have ProphET working.
I'm installing prophet into a singularity container for portability with the various HPC systems that I use (https://github.com/hurwitzlab/singularity-prophET).
Two problems: 1) Installation reports being completed even with error during the phage database setup.
2) Specific problem at the "Downloading Phage sequences ..." step of INSTALL.pl:
Could not find fetch_genomes_based_on_taxid.xml in ../../UTILS.dir/ at ../../UTILS.dir/fetch_genomes_based_on_taxid.pl line 66.Full install log is attached along with my singularity "setup" file since that shows all the packages I installed prior to INSTALL.pl. ubuntu.txt log.txt
Thanks!
Best, Scott Daniel, Ph.D. Postdoctoral Researcher Hurwitz Lab (hurwitzlab.org) University of Arizona