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nigyta / dfast_core

DDBJ Fast Annotation and Submission Tool
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databases: specify location #30

Closed nick-youngblut closed 4 years ago

nick-youngblut commented 4 years ago

If dfast is installed via conda, then dfast_file_downloader.py will download all of the databases into the conda env. Conda was not meant to store large data files. Also, the databases must be re-downloaded each time the user creates a database that includes dfast, which can happen often if using snakemake or other pipeline software. It would be helpful to give the user the option to specify where the databases are downloaded to.

nigyta commented 4 years ago

Thank you for good suggestion! Actually, I have similar problem while using a pipeline using CWL. I'm going to add the option in the next update.

nigyta commented 4 years ago

In ver1.2.7, I have added an option --dbroot to specify the location of reference databases. You can do so by specifying DFAST_DB_ROOT environmental option too.

I haven't changed Bioconda recipe yet. Please wait a little more until I update it.