For the first time, pharmacists will wear face shields, check temperatures and screen for other symptoms before giving flu shots.
Both drugstores are now offering the seasonal flu shot with the precautionary measures in place.
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The stores will also clean surfaces between patients getting shots.
Patients will have to wear face masks and are encouraged to schedule an appointment and fill out paperwork online ahead of time.
Both CVS and Walgreens are expecting a big increase in demand for the vaccine.
The precautions come amid concerns about the overlap of the pandemic and flu season.