Solution 1.

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Please upgrade your Evaer to the most recent version(2.0.7.31) from the link https://www.evaer.com/EvaerSetup.exe and please enable the "Capture from Audio Devices" option at Evaer menu Tools > Options > Audio settings tab as below image shows to have the issue fixed. 

Upgrade link is http://www.evaer.com/upgrade.htm 

If the issue still exist, please temporarily turn off your Anti-virus software, the Anti-virus may get a false positive detection on latest Evaer. Then restart Skype and Evaer to have a test.

Solution 2.

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Please enable the option "Capture directly from Skype" option at Evaer menu Tools > Options > Audio settings tab.  Then restart Evaer and Skype, and please make sure your Evaer change to "Ready" status before your place the Skype call.