Hi, I need to retrieve genomes and metagenomes (assemblies or raw sequences) from JGI DBs. It is doable (not easy though) using HTML forms and following links. However, I need to repeat this process hundreds of times, and I would appreciate to not waste my time anymore.
JGI does provide users with an (very brief) API documentation and an API XML schema (XSD) (usually understood only by Pierre alias @yokofakun ;-) ) and I cannot even make the curl "signing on" command work. Do you know a way to process this task automatically (e.g. using R, python, or any GNU tool...) given some IDs (like project or sample ID)?