After unpacking the Groundwork Monitor Community Edition 5.2 tarball and applying the patch, the installer still refuses to install because it thinks the java environment is broken.

From the installer.log:
{noformat}
Verifying Java configuration...
        verifying /usr/bin/java link
        verifying /etc/alternatives/java link
        >>broken alternatives<<
        verifying /etc/profile
        verifying /etc/profile.local
        verifying /etc/bash.bashrc.local
        >>broken profile<<
        verifying JAVA_HOME
        >>broken env<<
        3 items to fix
Java configuration is non compliant.
Your java config is not compliant. Shall the installer attempt to repair it? NO
ERROR: You will need to manually repair your Java config before continuing. Please take the following steps:
1) correctly set JAVA_HOME in /etc/profile
2) update /etc/alternatives/java to point to the installed Java SDK
3) update /usr/bin/java link to point to /etc/alternatives/java
4) reload environmental variables from /etc/profile with the command: `source /etc/profile`
Exiting installer.
{noformat}

This is because in *lib/GWInstaller/Host.pm* the /etc/alternatives/java symlink is verified against *$prefs->{java_home} . "/bin/java"*:
{noformat}
    450 #verify /etc/alternatives/java link
    451 if($debug){GWLogger::log("\tverifying /etc/alternatives/java link");}
    452 $altlinkval = readlink("/etc/alternatives/java");
    453 $java_bin = $prefs->{java_home} . "/bin/java";
    454 #GWLogger::log("alt: $altlinkval bin: $java_bin");
    455 unless($altlinkval eq $java_bin){
    456 if($debug){GWLogger::log("\t>>broken alternatives<<");}
    457 push(@to_fix,"alternatives");
    458 }
{noformat}

I found that in *lib/GWInstaller/Prefs.pm* java_home is set to */usr/java/jdk1.5.0_06* by init_prefs() through get_java_home() which contains:
{noformat}
     80 sub get_java_home{
     81 $home = "/usr/java/jdk1.5.0_06";
     82 # $home_cmd = "find / -name ". $self->{'java_rpm'} . " | head -1";
     83 return $home;
     84 }
{noformat}

I changed this to use the JAVA_HOME set in the environment to allow the installer to continue and complete the installation:
{noformat}
sub get_java_home{
        $home = "/usr/java/jdk1.5.0_06";
        $home = $ENV{JAVA_HOME} if($ENV{JAVA_HOME});
# $home_cmd = "find / -name ". $self->{'java_rpm'} . " | head -1";
        return $home;
}
{noformat}