Disk usage when creating a new PGDB

asked 2020-10-22 06:42:02 -0600

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We recently installed pathway tools 24.0 on a PC running win 10, we have approx 600gb free space after installation. I then wanted to do a small test be creating a new PGDB using a genbank file for a bacterium (2.3 mb genome)

The pathologig tool worked fine, although I got an error message that it could not create BLAST databases due to insufficent disk space. I was a bit puzzled by that. I then checked and saw that the created database XXXcyc takes up 560 gb. This is way more space than the entire pathway tools software including the preinstalled databases.

Do user generated databases usually take up that much space? Or will much of the space be freed up, when the database has been through all checks, and the pathologic tool is closed?

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No, databases are typically a few GB to maybe 10-20 GB for large databases. Start by looking through the directory structure of your database and see where the space is being used.

pmidford gravatar imagepmidford ( 2020-10-22 18:10:20 -0600 )edit