解決辦法
需要把 src 目錄標志為 Source Root——
在 src 目錄上點右鍵,選擇 Mark Directory As -> Sources Root:

.java 文件的圖標會發生改變:

EDIT
在 Project Structure 里修改output path:
Press Ctrl+Alt+Shift+S

參考
[http://stackoverflow.com/questions/30088957/intellij-doesnt-recognize-java-project-after-cloning](IntelliJ doesn't recognize java project after cloning)
