Skip to content

Instantly share code, notes, and snippets.

@nhoffman
nhoffman / mysql2sqlite.sh
Created April 19, 2012 04:36 — forked from esperlu/mysql2sqlite.sh
MySQL to Sqlite converter
#!/bin/sh
# Converts a mysqldump file into a Sqlite 3 compatible file. It also extracts the MySQL `KEY xxxxx` from the
# CREATE block and create them in separate commands _after_ all the INSERTs.
# Awk is choosen because it's fast and portable. You can use gawk, original awk or even the lightning fast mawk.
# The mysqldump file is traversed only once.
# Usage: $ ./mysql2sqlite mysqldump-opts db-name | sqlite3 database.sqlite
# Example: $ ./mysql2sqlite --no-data -u root -pMySecretPassWord myDbase | sqlite3 database.sqlite
#!/usr/bin/python2.7
"""
Performs a web BLAST query against NR using DNA sequences read from a fasta
file, storing the results in a SQLite database.
Dependencies: BioPython
BioPython may be installed using the Python package index:
$ sudo easy_install -f http://biopython.org/DIST/ biopython