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The prebuilt Mac OS X library and the build scripts are not correctly setting SQLITE_TEMP_STORE to either 2 or 3, which is required because these files are not encrypted (https://www.zetetic.net/sqlcipher/design/ , see section on "Database Encryption and Temporary Files")

I have attempted to do this myself but i'm not the best at bash / makefiles and i can't seem to get it right. in the sqlcipher repo though, their Makefile.in file has

# Flags controlling use of the in memory btree implementation
#
# SQLITE_TEMP_STORE is 0 to force temporary tables to be in a file, 1 to
# default to file, 2 to default to memory, and 3 to force temporary
# tables to always be in memory.
#
TEMP_STORE = -DSQLITE_TEMP_STORE=@TEMP_STORE@

any idea on how to properly have the makefile pass this variable to sqlcipher's makefile?

Is there a pre-compiled jar for windows? I fiddling with make files but failed to generate one.