The shed-install command works really nice: you feed it a yaml and it installs the tools. Oops! You forgot a tool! No worries, just add it to the yaml and run shed-install again. It will skip the already installed tools.
This behaviour is not reproduced in the run-data-managers tool. If you run a yaml again, it will start indexing all the genomes in there. Even if they are already indexed. This is annoying if you have human genomes on the list which take a long time to index.
rhpvorderman
commented
6 years ago
The shed-install command works really nice: you feed it a yaml and it installs the tools. Oops! You forgot a tool! No worries, just add it to the yaml and run shed-install again. It will skip the already installed tools.
This behaviour is not reproduced in the run-data-managers tool. If you run a yaml again, it will start indexing all the genomes in there. Even if they are already indexed. This is annoying if you have human genomes on the list which take a long time to index.