Lincecum signs two-year contract with Giants

Tim Lincecum is staying put with the San Francisco Giants just as he hoped, reaching agreement Tuesday on a two-year contract through the 2015 season.

The deal is pending a physical, which had yet to be scheduled, according to assistant GM Bobby Evans.

General manager Brian Sabean said when the season ended among his top priorities was to bring back the two-time N.L. Cy Young Award winner, who also indicated he cherishes familiarity and wanted stay with the only club he has known.

He pitched the Game 5 clincher in the 2010 World Series at Texas, then shifted to the bullpen and became a reliable reliever during the Giants’ 2012 run to their second title in three years.

Clearing the bases

The Dodgers have agreed to a $28 million, four-year contract with Cuban prospect Alexander Guerrero, according to a person familiar with the deal. The 26-year-old infielder defected from Cuba earlier this year and moved to Haiti. … Dodgers bench coach Trey Hillman’s contract option for 2014 wasn’t picked up, while most of the rest of manager Don Mattingly’s staff is expected to return. Mattingly is under contract, although his status has yet to be confirmed. … Mets right-hander Matt Harvey has had elbow-reconstruction surgery, and he will miss the entire 2014 season. Harvey went 9-5 this year.