Magic wording suggested to Kevin Murphy (source unknown) for adding infrastructure costs "I am following NSERC guidelines in the institution of user fees for shared facilities, such as printing and file servers. These are charged according to the estimated level of usage."
They have other sources, but many require matching funds from industry
The Canada Foundation for Innovation (CFI) (http://www.innovation.ca/index.cfm) provides funding mostly for infrastructure (e.g., large equipment, etc.)
the Networks of Centres of Excellence (NCE) (http://www.nce-rce.gc.ca/index.htm) funds partnerships between university, government and industry
Microsoft has a fellowship program for new faculty (http://research.microsoft.com/ur/us/nff/) for $100,000 a year for 2 years. It's open to US and Canadian faculty members. The ligibility requirements are as of the application year you must:
be in your first, second, or third year as a faculty member
be in your first faculty position
be no more than 6 years from the completion of your most recent PhD