Escaping html from JSP

I'd like to be able to run some java code, then in the middle print out a single line, then continue running the rest of my code.
When I try escaping out of the jsp with %>, adding a <br> then returning to the jsp code with <%, it's really weird, but it seems like the jsp compiler runs ALL my code, then goes back and prints out the html.
So
<%
while(condition){
code1
%>
<br>
<%
code2
Instead of executing code1, then printing out a line (same thing with <hr>), then doing code2, it does code1, code 2, and THEN prints out the blank line.
Also for some reason, when I do
PrintWriter output = response.getWriter();
output.println("string\n");
It ignores the line feed character and the result is no different from
output.print("string");
Am I doing something wrong? It shouldn't be this hard to insert a single blank line!!
Thanks.

Yeah, in my post I omitted the ending jsp tag. But in my actual code it's just the way you have it...there's something strange about the way the jsp compiler handles the html.
My actual code looks like this (now you see why, for simplification I just put down code1, code2!):
<%
PrintWriter output = response.getWriter();
String workdir = application.getRealPath("/")+"DA_web\\work\\";
String monitordir = application.getRealPath("/")+"DA_web\\monitor\\";
DiskFileUpload fu = new DiskFileUpload();
List fileItems = fu.parseRequest(request);
Iterator itr = fileItems.iterator();
while(itr.hasNext()) {
FileItem fi = (FileItem)itr.next();
//Check if not form field so as to only handle the file inputs
//else condition handles the submit button input
if(!fi.isFormField()) {
output.println("\nNAME: "+fi.getName());
output.println("\nSIZE: "+fi.getSize());
//System.out.println(fi.getOutputStream().toString());
               File tempfile = new File(fi.getName());
File fNew= new File(monitordir, tempfile.getName());
output.println(fNew.getAbsolutePath());
               output.println('\n');
%>
     <hr><br>
<%
if (fi.getName()!=null && fi.getName().length()>0 && fi.getSize()>0)
                    fi.write(fNew);
else {
System.out.println("Field ="+fi.getFieldName());
%>

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