<div class="pomodoro">
  <div class="row">
    <div class="col-md-6">
      <div class="row"><p>session length<p></div>
      <div class="row counter">
        <div class="col-md-4">
          <button class="btn btn-default" id="sessDec">-</button>        
        </div>
        <div class="col-md-2">
          <div id="session"></div>
        </div>
        <div class="col-md-4">
          <button class="btn btn-default" id="sessInc">+</button>
        </div>
      </div>
    </div>

    <div class="col-md-6">
      <div class="row"><p>break length<p></div>
      <div class="row counter">
        <div class="col-md-4">
          <button class="btn btn-default" id="breakDec">-</button>
        </div>
        <div class="col-md-2">
          <div id="break"></div>
        </div>
        <div class="col-md-4">
          <button class="btn btn-default" id="breakInc">+</button>        
        </div>
      </div>
    </div>
  </div>
    
  <div id="clock" class="row">
    <div class="timer"><div class="middle"></div></div>
  </div>
  <div class="row" id="statRow">
    <div id="stats"></div>
  </div>
  <div class="container">
    <div class="row" id="btns">
      <button class="btn btn-default btn-lg" id="start">start</button>
      <button class="btn btn-default btn-lg" id="stop">stop</button>
      <button class="btn btn-default btn-lg" id="clear">clear</button>
    </div>
  </div>
     
</div>
body {
  background: url("https://static.pexels.com/photos/6663/desk-white-black-header.jpg") no-repeat center center fixed;
  background-size: cover; 
}
.pomodoro {
  position: absolute;
  top: 50%;
  left: 50%;
  transform: translate(-50%, -50%);
  width: 500px;  
  padding-top: 15px;
  padding-bottom: 25px;  
}
p {
  text-align: center;
}
.flip-clock-wrapper{
  max-width: 460px;
  margin: 3em auto 2em;
  display: flex;
  justify-content: center;
}
.col-md-4{
  display: flex;
  justify-content: center;
}
.col-md-2{
  display: flex;
  justify-content: center;
  height: 34px;
  align-items: center;
}
.counter{
  display: flex;
  justify-content: center;
}
.clock{
  margin-top: 30px;
}
.container {
  width: 500px;
}
.middle{
    display:inline-block;
}
#btns{
  display: flex;
  justify-content: center;
}
#stop {
  margin-left: 10px;
  margin-right: 10px;
}
.btn {
  background-color: #333333;
  color: #CCCCCC;
}
#sessInc, #sessDec, #breakInc, #breakDec {  
  font-weight: bold;
}
#stats {
  background-color: #333333;
  width: 220px;
  height: 70px;  
  border-radius: 10px;
  color: #CCCCCC;
  font-size: 45px;
  text-align: center;
}
#statRow {
  display: flex;
  justify-content: center;
  margin-bottom: 20px;
}
View Compiled
$(document).ready(function(){
  var countS = 25;
  $("#session").html(countS);
  var countB = 5;
  $("#break").html(countB);
  var pos = "pomodoro";
  var countLama;
  var posLama;
  var count;
  $("#stats").html(pos);
  var clock = $(".timer").FlipClock(0, {
    countdown: true,
    clockFace: 'MinuteCounter',
    autoStart: false,
    callbacks: {
      interval: function(){
        if (clock.getTime() == 0){
          if (pos == "session"){
            clock.setTime(countB*60);
            clock.start();
            pos = "break";
            $("#stats").html(pos);
          } else if (pos == "break"){
            clock.setTime(countS*60);
            clock.start();
            pos = "session";
            $("#stats").html(pos);
          }
        }        
      }
    }
  })  
  //SESSION
  $("#sessInc").on("click", function(){
    if ($("#session").html() > 0){
      countS = parseInt($("#session").html());
      countS+=1;
      $("#session").html(countS);
      //clock.setTime(countS*60);
    }
  });
  $("#sessDec").on("click", function(){
    if ($("#session").html() > 1){
      countS = parseInt($("#session").html());
      countS-=1;
      $("#session").html(countS);
      //clock.setTime(countS*60);
    }
  });
  //BREAK
  $("#breakInc").on("click", function(){
    if ($("#break").html() > 0){
      countB = parseInt($("#break").html());
      countB+=1;
      $("#break").html(countB);
    }    
  });
  $("#breakDec").on("click", function(){
    if ($("#break").html() > 1){
      countB = parseInt($("#break").html());
      countB-=1;
      $("#break").html(countB);
    }
  });  
  $("#start").on("click", function(){
    if (count != countS || clock.getTime()==0){
      clock.setTime(countS*60);
      pos="session";
      $("#stats").html(pos);
    } else {
      pos = posLama;
      $("#stats").html(pos);
    }
    count = countS;    
    clock.start();    
  });
  $("#stop").on("click", function(){
    clock.stop();
    countLama = clock.getTime();
    posLama = $("#stats").html();
  });
  $("#clear").on("click", function(){
    clock.stop();
    pos = "pomodoro";
    $("#stats").html(pos);
    clock.setTime(0);
  });
});

External CSS

  1. https://cdnjs.cloudflare.com/ajax/libs/flipclock/0.7.8/flipclock.css
  2. https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.3.7/css/bootstrap.min.css

External JavaScript

  1. https://cdnjs.cloudflare.com/ajax/libs/jquery/3.1.0/jquery.min.js
  2. https://cdnjs.cloudflare.com/ajax/libs/flipclock/0.7.8/flipclock.min.js