--- loncom/loncron	2018/11/24 16:19:09	1.115
+++ loncom/loncron	2024/07/28 12:47:31	1.132
@@ -2,7 +2,7 @@
 
 # Housekeeping program, started by cron, loncontrol and loncron.pl
 #
-# $Id: loncron,v 1.115 2018/11/24 16:19:09 raeburn Exp $
+# $Id: loncron,v 1.132 2024/07/28 12:47:31 raeburn Exp $
 #
 # Copyright Michigan State University Board of Trustees
 #
@@ -34,6 +34,7 @@ use lib '/home/httpd/lib/perl/';
 use LONCAPA::Configuration;
 use LONCAPA::Checksumming;
 use LONCAPA;
+use LONCAPA::LWPReq;
 use Apache::lonnet;
 use Apache::loncommon;
 
@@ -41,9 +42,12 @@ use IO::File;
 use IO::Socket;
 use HTML::Entities;
 use Getopt::Long;
-use GDBM_File;
+use GDBM_File qw(GDBM_READER);
 use Storable qw(thaw);
 use File::ReadBackwards;
+use File::Copy;
+use Sys::Hostname::FQDN();
+
 #globals
 use vars qw (%perlvar %simplestatus $errors $warnings $notices $totalcount);
 
@@ -76,14 +80,14 @@ sub rotate_logfile {
 	rename("$file.2","$file.3");
 	rename("$file.1","$file.2");
 	rename("$file","$file.1");
-    } 
+    }
 }
 
 sub start_daemon {
     my ($fh,$daemon,$pidfile,$args) = @_;
     my $progname=$daemon;
     if ($daemon eq 'lonc') {
-	$progname='loncnew'; 
+	$progname='loncnew';
     }
     my $error_fname="$perlvar{'lonDaemons'}/logs/${daemon}_errors";
     &rotate_logfile($error_fname,$fh,'error logs');
@@ -117,7 +121,7 @@ sub checkon_daemon {
     if ($fh) {
         if (-e "$perlvar{'lonDaemons'}/logs/$daemon.log"){
 	    if (open(DFH,"tail -n25 $perlvar{'lonDaemons'}/logs/$daemon.log|")) {
-	        while (my $line=<DFH>) { 
+	        while (my $line=<DFH>) {
 	            &log($fh,"$line");
 	            if ($line=~/INFO/) { $notices++; }
 	            if ($line=~/WARNING/) { $notices++; }
@@ -128,9 +132,9 @@ sub checkon_daemon {
         }
         &log($fh,"</tt></p>");
     }
-    
+
     my $pidfile="$perlvar{'lonDaemons'}/logs/$daemon.pid";
-    
+ 
     my $restartflag=1;
     my $daemonpid;
     if (-e $pidfile) {
@@ -213,7 +217,7 @@ sub checkon_daemon {
             }
 	}
     }
-    
+
     my $fname="$perlvar{'lonDaemons'}/logs/$daemon.log";
     &rotate_logfile($fname,$fh,'logs');
 
@@ -226,19 +230,34 @@ sub log_machine_info {
     my ($fh)=@_;
     &log($fh,'<hr /><a name="machine" /><h2>Machine Information</h2>');
     &log($fh,"<h3>loadavg</h3>");
-	
+
+    my $cpucount;
+    if (open(PIPE,"lscpu |grep '^CPU(s)' 2>&1 |")) {
+        my $info = <PIPE>;
+        chomp($info);
+        ($cpucount) = ($info =~ /^\QCPU(s):\E\s+(\d+)$/);
+        close(PIPE);
+    }
+    if (!$cpucount) {
+        $cpucount = 1;
+    }
+    my %loadtarget = (
+                        error => 4.0*$cpucount,
+                        warn  => 2.0*$cpucount,
+                        note  => 1.0*$cpucount,
+                     );
     open (LOADAVGH,"/proc/loadavg");
     my $loadavg=<LOADAVGH>;
     close (LOADAVGH);
-    
+ 
     &log($fh,"<tt>$loadavg</tt>");
-    
+
     my @parts=split(/\s+/,$loadavg);
-    if ($parts[1]>4.0) {
+    if ($parts[1]>$loadtarget{'error'}) {
 	$errors++;
-    } elsif ($parts[1]>2.0) {
+    } elsif ($parts[1]>$loadtarget{'warn'}) {
 	$warnings++;
-    } elsif ($parts[1]>1.0) {
+    } elsif ($parts[1]>$loadtarget{'note'}) {
 	$notices++;
     }
 
@@ -246,14 +265,14 @@ sub log_machine_info {
     &log($fh,"<pre>");
 
     open (DFH,"df|");
-    while (my $line=<DFH>) { 
-	&log($fh,&encode_entities($line,'<>&"')); 
+    while (my $line=<DFH>) {
+	&log($fh,&encode_entities($line,'<>&"'));
 	@parts=split(/\s+/,$line);
 	my $usage=$parts[4];
 	$usage=~s/\W//g;
-	if ($usage>90) { 
+	if ($usage>90) {
 	    $warnings++;
-	    $notices++; 
+	    $notices++;
 	} elsif ($usage>80) {
 	    $warnings++;
 	} elsif ($usage>60) {
@@ -270,8 +289,8 @@ sub log_machine_info {
     my $psproc=0;
 
     open (PSH,"ps aux --cols 140 |");
-    while (my $line=<PSH>) { 
-	&log($fh,&encode_entities($line,'<>&"')); 
+    while (my $line=<PSH>) {
+	&log($fh,&encode_entities($line,'<>&"'));
 	$psproc++;
     }
     close (PSH);
@@ -293,7 +312,7 @@ sub start_logging {
     my %simplestatus=();
     my $now=time;
     my $date=localtime($now);
-    
+ 
 
     &log($fh,(<<ENDHEADERS));
 <!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
@@ -318,6 +337,7 @@ sub start_logging {
 <li><a href="#lonc">lonc</a></li>
 <li><a href="#lonnet">lonnet</a></li>
 <li><a href="#connections">Connections</a></li>
+<li><a href="#bashconf">bash readline config</a></li>
 <li><a href="#delayed">Delayed Messages</a></li>
 <li><a href="#errcount">Error Count</a></li>
 </ol>
@@ -409,12 +429,12 @@ sub recursive_clean_tmp {
                 ($cleaned,$old,$removed) = 
                      &recursive_clean_tmp($innerdir,$cleaned,$old,$removed,$errors);
                 my @doms = &Apache::lonnet::current_machine_domains();
-                
+
                 if (open(my $dirhandle,$fname)) {
                     unless (($innerdir eq 'helprequests') ||
                             (($innerdir =~ /^addcourse/) && ($innerdir !~ m{/\d+$}))) {
                         my @contents = grep {!/^\.\.?$/} readdir($dirhandle);
-                                      join('&&',@contents)."\n";    
+                                      join('&&',@contents)."\n";
                         if (scalar(grep {!/^\.\.?$/} readdir($dirhandle)) == 0) {
                             closedir($dirhandle);
                             if ($fname =~ m{^\Q$perlvar{'lonDaemons'}\E/tmp/}) {
@@ -467,7 +487,7 @@ sub recursive_clean_tmp {
                                 }
                             }
                         } elsif (ref($errors->{failopen}) eq 'ARRAY') {
-                            push(@{$errors->{failopen}},$fname); 
+                            push(@{$errors->{failopen}},$fname);
                         }
                     } else {
                         if (unlink($fname)) {
@@ -493,19 +513,38 @@ sub clean_lonIDs {
     my $cleaned=0;
     my $active=0;
     while (my $fname=<$perlvar{'lonIDsDir'}/*>) {
-	my ($dev,$ino,$mode,$nlink,
-	    $uid,$gid,$rdev,$size,
-	    $atime,$mtime,$ctime,
-	    $blksize,$blocks)=stat($fname);
-	my $now=time;
-	my $since=$now-$mtime;
-	if ($since>$perlvar{'lonExpire'}) {
-	    $cleaned++;
-	    &log($fh,"Unlinking $fname<br />");
-	    unlink("$fname");
-	} else {
-	    $active++;
-	}
+        my $now=time;
+        if (-l $fname) {
+            my $linkfname = readlink($fname);
+            if (-f $linkfname) {
+                if ($linkfname =~ m{^$perlvar{'lonIDsDir'}/[^/]+\.id$}) {
+                    my @data = stat($linkfname);
+                    my $mtime = $data[9];
+                    my $since=$now-$mtime;
+                    if ($since>$perlvar{'lonExpire'}) {
+                        if (unlink($linkfname)) {
+                            $cleaned++;
+                            &log($fh,"Unlinking $linkfname<br />");
+                            unlink($fname);
+                        }
+                    }
+                }
+            } else {
+               unlink($fname);
+            }
+        } elsif (-f $fname) {
+            my @data = stat($fname);
+            my $mtime = $data[9];
+            my $since=$now-$mtime;
+            if ($since>$perlvar{'lonExpire'}) {
+                if (unlink($fname)) {
+                    $cleaned++;
+                    &log($fh,"Unlinking $fname<br />");
+                }
+            } else {
+                $active++;
+            }
+        }
     }
     &log($fh,"<p>Cleaned up ".$cleaned." stale session token(s).</p>");
     &log($fh,"<h3>$active open session(s)</h3>");
@@ -519,7 +558,7 @@ sub clean_balanceIDs {
     my $cleaned=0;
     my $active=0;
     if (-d $perlvar{'lonBalanceDir'}) {
-        while (my $fname=<$perlvar{'balanceDir'}/*.id>) {
+        while (my $fname=<$perlvar{'lonBalanceDir'}/*.id>) {
             my ($dev,$ino,$mode,$nlink,
                 $uid,$gid,$rdev,$size,
                 $atime,$mtime,$ctime,
@@ -565,6 +604,34 @@ sub clean_webDAV_sessionIDs {
     }
 }
 
+# ------------------------------------------------------------ clean out ltiIDs
+
+sub clean_ltiIDs {
+    my ($fh)=@_;
+    &log($fh,'<hr /><a name="ltisessions" /><h2>LTI Session Pointers</h2>');
+    my $cleaned=0;
+    my $active=0;
+    if (-d $perlvar{'ltiIDsDir'}) {
+        while (my $fname=<$perlvar{'ltiIDsDir'}/*>) {
+            my ($dev,$ino,$mode,$nlink,
+                $uid,$gid,$rdev,$size,
+                $atime,$mtime,$ctime,
+                $blksize,$blocks)=stat($fname);
+            my $now=time;
+            my $since=$now-$mtime;
+            if ($since>$perlvar{'lonExpire'}) {
+                $cleaned++;
+                &log($fh,"Unlinking $fname<br />");
+                unlink("$fname");
+            } else {
+                $active++;
+            }
+        }
+    }
+    &log($fh,"<p>Cleaned up ".$cleaned." old LTI session pointers.</p>");
+    &log($fh,"<h3>$active unexpired LTI session pointers</h3>");
+}
+
 # ----------------------------------------------------------- clean out sockets
 sub clean_sockets {
     my ($fh)=@_;
@@ -602,16 +669,16 @@ sub rotate_lonnet_logs {
     print "Checking logs.\n";
     if (-e "$perlvar{'lonDaemons'}/logs/lonnet.log"){
 	open (DFH,"tail -n50 $perlvar{'lonDaemons'}/logs/lonnet.log|");
-	while (my $line=<DFH>) { 
+	while (my $line=<DFH>) {
 	    &log($fh,&encode_entities($line,'<>&"'));
 	}
 	close (DFH);
     }
     &log($fh,"</pre><h3>Perm Log</h3><pre>");
-    
+
     if (-e "$perlvar{'lonDaemons'}/logs/lonnet.perm.log") {
 	open(DFH,"tail -n10 $perlvar{'lonDaemons'}/logs/lonnet.perm.log|");
-	while (my $line=<DFH>) { 
+	while (my $line=<DFH>) {
 	    &log($fh,&encode_entities($line,'<>&"'));
 	}
 	close (DFH);
@@ -981,7 +1048,7 @@ sub write_serverhomeIDs {
                 eval {
                     local $SIG{ ALRM } = sub { die "TIMEOUT" };
                     alarm(10);
-                    $serverhomeID = 
+                    $serverhomeID =
                         &Apache::lonnet::get_server_homeID($name,1,'loncron');
                     alarm(0);
                 };
@@ -1026,9 +1093,97 @@ sub write_checksums {
     return;
 }
 
+sub write_hostips {
+    my $lontabdir = $perlvar{'lonTabDir'};
+    my $defdom = $perlvar{'lonDefDomain'};
+    my $lonhost = $perlvar{'lonHostID'};
+    my $newfile = "$lontabdir/currhostips.tab";
+    my $oldfile = "$lontabdir/prevhostips.tab";
+    my (%prevhosts,%currhosts,%ipchange);
+    if ((-e $newfile) && (-s $newfile)) {
+        move($newfile,$oldfile);
+        chmod(0644,$oldfile);
+        if (open(my $fh,'<',$oldfile)) {
+            while (my $line=<$fh>) {
+                chomp($line);
+                if ($line =~ /^([^:]+):([\d.]+)$/) {
+                    $prevhosts{$1} = $2;
+                }
+            }
+            close($fh);
+        }
+    }
+    my ($ip_info,$cached) =
+        &Apache::lonnet::is_cached_new('iphost','iphost');
+    if (!$cached) {
+        &Apache::lonnet::get_iphost();
+        ($ip_info,$cached) =
+        &Apache::lonnet::is_cached_new('iphost','iphost');
+    }
+    if (ref($ip_info) eq 'ARRAY') {
+        %currhosts = %{$ip_info->[1]};
+        if (open(my $fh,'>',$newfile)) {
+            foreach my $key (keys(%currhosts)) {
+                print $fh "$key:$currhosts{$key}\n";
+            }
+            close($fh);
+            chmod(0644,$newfile);
+        }
+    }
+    if (keys(%prevhosts) && keys(%currhosts)) {
+        foreach my $key (keys(%prevhosts)) {
+            unless ($currhosts{$key} eq $prevhosts{$key}) {
+                $ipchange{$key} = $prevhosts{$key}.' | '.$currhosts{$key};
+            }
+        }
+        foreach my $key (keys(%currhosts)) {
+            unless ($currhosts{$key} eq $prevhosts{$key}) {
+                $ipchange{$key} = $prevhosts{$key}.' | '.$currhosts{$key};
+            }
+        }
+    }
+    if (&Apache::lonnet::domain($defdom,'primary') eq $lonhost) {
+        if (keys(%ipchange)) {
+            if (open(my $fh,'>>',$perlvar{'lonDaemons'}.'/logs/hostip.log')) {
+               print $fh "********************\n".localtime(time).' Changes --'."\n".
+                         "| Hostname | Previous IP | New IP |\n".
+                         " --------------------------------- \n";
+               foreach my $hostname (sort(keys(%ipchange))) {
+                    print $fh "| $hostname | $ipchange{$hostname} |\n";
+                }
+                print $fh "\n*******************\n\n";
+                close($fh);
+            }
+            my $emailto = &Apache::loncommon::build_recipient_list(undef,
+                                   'hostipmail',$defdom);
+            if ($emailto) {
+                my $subject = "LON-CAPA Hostname to IP change ($perlvar{'lonHostID'})";
+                my $chgmail = "To: $emailto\n".
+                              "Subject: $subject\n".
+                              "Content-type: text/plain\; charset=UTF-8\n".
+                              "MIME-Version: 1.0\n\n".
+                              "Host/IP changes\n".
+                              " \n".
+                              "| Hostname | Previous IP | New IP |\n".
+                              " --------------------------------- \n";
+                foreach my $hostname (sort(keys(%ipchange))) {
+                    $chgmail .= "| $hostname | $ipchange{$hostname} |\n";
+                }
+                $chgmail .= "\n\n";
+                if (open(my $mailh, "|/usr/lib/sendmail -oi -t -odb")) {
+                    print $mailh $chgmail;
+                    close($mailh);
+                    print "Sending mail notification of hostname/IP changes.\n";
+                }
+            }
+        }
+    }
+    return;
+}
+
 sub clean_nosslverify {
     my ($fh) = @_;
-    my %unlinked; 
+    my %unlinked;
     if (-d "$perlvar{'lonSockDir'}/nosslverify") {
         if (opendir(my $dh,"$perlvar{'lonSockDir'}/nosslverify")) {
             while (my $fname=readdir($dh)) {
@@ -1123,7 +1278,7 @@ sub get_domain_config {
         unless ($protocol eq 'https') {
             $protocol = 'http';
         }
-        $url = $protocol.'://'.$hostname.'/cgi-bin/listdomconfig.pl';
+        $url = $protocol.'://'.$hostname.'/cgi-bin/listdomconfig.pl?primary='.$primlibserv.'&format=raw';
     }
     if ($isprimary) {
         my $lonusersdir = $perlvar{'lonUsersDir'};
@@ -1144,14 +1299,12 @@ sub get_domain_config {
             }
         }
     } else {
-        if (open(PIPE,"wget --no-check-certificate '$url?primary=$primlibserv&format=raw' |")) {
-            my $config = '';
-            while (<PIPE>) {
-                $config .= $_;
-            }
-            close(PIPE);
-            if ($config) {
-                my @pairs=split(/\&/,$config);
+        my $request=new HTTP::Request('GET',$url);
+        my $response=&LONCAPA::LWPReq::makerequest($primlibserv,$request,'',\%perlvar,5);
+        unless ($response->is_error()) {
+            my $content = $response->content;
+            if ($content) {
+                my @pairs=split(/\&/,$content);
                 foreach my $item (@pairs) {
                     my ($key,$value)=split(/=/,$item,2);
                     my $what = &LONCAPA::unescape($key);
@@ -1192,7 +1345,7 @@ sub write_hosttypes {
                 foreach my $lonid (sort(keys(%hostdom))) {
                     my $type = 'other';
                     if ($hostdom{$lonid} eq $dom) {
-                        $type = 'dom'; 
+                        $type = 'dom';
                     } elsif ($intdom{$lonid} eq $internetdom) {
                         $type = 'intdom';
                     }
@@ -1339,6 +1492,159 @@ sub read_serverhomeIDs {
     return %server;
 }
 
+sub check_bash_settings {
+    my $distro = &LONCAPA::distro();
+    my ($check_bracketed_paste,$bracketed_warning);
+    if ($distro  =~ /^debian(\d+)$/) {
+        if ($1 >= 12) {
+            $check_bracketed_paste = 1;
+        }
+    } elsif ($distro =~ /^ubuntu(\d+)$/) {
+        if ($1 >= 22) {
+            $check_bracketed_paste = 1;
+        }
+    } elsif ($distro =~ /^(?:redhat|oracle|alma|rocky|centos-stream)(\d+)$/) {
+        if ($1 >= 9) {
+            $check_bracketed_paste = 1;
+        }
+    } elsif ($distro =~ /^fedora(\d+)/) {
+        if ($1 >= 34) {
+            $check_bracketed_paste = 1;
+        }
+    }
+    if ($check_bracketed_paste) {
+        if (open(PIPE,"bind -V 2>&1 | grep enable-bracketed-paste |")) {
+            my $info = <PIPE>;
+            chomp($info);
+            my ($bracketed) = ($info =~ /^\Qenable-bracketed-paste\E\s+is\s+set\s+to\s+\W(on|off)\W$/);
+            close(PIPE);
+            if ($bracketed eq 'on') {
+                $bracketed_warning = 1;
+            }
+        } else {
+            print "Unable to check if bracketed paste is set to off for www user's shell\n"; 
+        }
+    }
+    return ($bracketed_warning,$check_bracketed_paste);
+}
+
+sub set_bracketed_paste_off {
+    my $bash_www_cnf = '/home/www/.inputrc';
+    my $result;
+    if (!-e $bash_www_cnf) {
+        system("touch $bash_www_cnf");
+        if (open(my $cfh,'>',$bash_www_cnf)) {
+            print $cfh <<'END';
+$if R
+    set enable-bracketed-paste off
+$endif
+
+$if maxima
+    set enable-bracketed-paste off
+$endif
+END
+            close($cfh);
+            $result = "Updated $bash_www_cnf so enable-bracketed-paste is off for R bash shell";
+        } else {
+            $result = "Could not open $bash_www_cnf to add 'set enable-bracketed-paste to off'";
+        }
+        my $wwwuid = getpwnam('www');
+        my $wwwgid = getgrnam('www');
+        if ($wwwuid!=$<) {
+            chown($wwwuid,$wwwgid,$bash_www_cnf);
+        }
+    } else {
+        my (%bracketed_paste_on,%bracketed_paste_off,@preserve,$condition);
+        $condition = '';
+        if (open(my $cfh,'<',$bash_www_cnf)) {
+            while (my $line=<$cfh>) {
+                chomp($line);
+                if ($line =~ /^\$if\s+(\w+)\s*$/) {
+                    if ($1 eq 'R') {
+                        $condition = 'r';
+                    } elsif ($1 eq 'maxima') {
+                        $condition = 'maxima';
+                    } else {
+                        $condition = 'other';
+                    }
+                } elsif ($line =~ /^\$endif\s*$/) {
+                    $condition = '';
+                }
+                if ($line =~ /^\s*set\s+enable\-bracketed\-paste\s+(off|on)\s*$/) {
+                    if ($1 eq 'off') {
+                        if ($condition ne '') {
+                            $bracketed_paste_off{$condition} = 1;
+                        } else {
+                            $bracketed_paste_off{all} = 1;
+                        }
+                        push(@preserve,$line);
+                    } else {
+                        if ($condition ne '') {
+                            $bracketed_paste_on{$condition} = 1;
+                            if (($condition eq 'r') || ($condition eq 'maxima')) {
+                                push(@preserve,'    set enable-bracketed-paste off');
+                            } else {
+                                push(@preserve,$line);
+                            }
+                        } else {
+                            $bracketed_paste_on{all} = 1;
+                            push(@preserve,$line);
+                        }
+                    }
+                } else {
+                    push(@preserve,$line);
+                }
+            }
+            close($cfh);
+        } else {
+            $result = "Could not open $bash_www_cnf to check if a value is included for 'enable-bracketed-paste'.";
+        }
+        if (($bracketed_paste_on{r} || $bracketed_paste_on{maxima}) ||
+            (!exists($bracketed_paste_off{r}) && !exists($bracketed_paste_on{r}) &&
+             !exists($bracketed_paste_off{maxima}) && !exists($bracketed_paste_on{maxima}))) {
+            if (open(my $cfh,'>',$bash_www_cnf)) {
+                if (@preserve) {
+                    foreach my $entry (@preserve) {
+                        print $cfh "$entry\n";
+                    }
+                    if (!exists($bracketed_paste_off{r}) && !exists($bracketed_paste_on{r})) {
+print $cfh <<'END';
+$if R
+    set enable-bracketed-paste off
+$endif
+END
+                    }
+                    if (!exists($bracketed_paste_off{r}) && !exists($bracketed_paste_on{r})) {
+print $cfh <<'END';
+$if maxima
+    set enable-bracketed-paste off
+$endif
+END
+                    }
+
+                } else {
+print $cfh <<'END';
+$if R
+    set enable-bracketed-paste off
+$endif
+
+$if maxima
+    set enable-bracketed-paste off
+$endif
+END
+                }
+                close($cfh);
+                $result = "Updated $bash_www_cnf";
+            } else {
+                $result = "Could not open $bash_www_cnf to add 'set enable-bracketed-paste to off'";
+            }
+        } else {
+            $result = "No action needed; $bash_www_cnf already includes 'set enable-bracketed-paste to off'";
+        }
+    }
+    return $result;
+}
+
 sub send_mail {
     my ($sysmail,$reportstatus) = @_;
     my $defdom = $perlvar{'lonDefDomain'};
@@ -1398,19 +1704,23 @@ Options:
 				do not send emails do not
                                 check if the daemons are running, do not
                                 generate lon-status
-                           
+   --justiptables          Only update the dynamic iptables rules for the
+                                lond port; do not send emails, do not
+                                check if the daemons are running, do not
+                                generate lon-status
 USAGE
 }
 
 # ================================================================ Main Program
 sub main () {
     my ($help,$justcheckdaemons,$noemail,$justcheckconnections,
-	$justreload);
+	$justreload,$justiptables);
     &GetOptions("help"                 => \$help,
 		"justcheckdaemons"     => \$justcheckdaemons,
 		"noemail"              => \$noemail,
 		"justcheckconnections" => \$justcheckconnections,
-		"justreload"           => \$justreload
+		"justreload"           => \$justreload,
+                "justiptables"         => \$justiptables
 		);
     if ($help) { &usage(); return; }
 # --------------------------------- Read loncapa_apache.conf and loncapa.conf
@@ -1425,9 +1735,10 @@ sub main () {
     if ('{[[[[lonHostID]]]]}' eq $perlvar{'lonHostID'}) {
 	print("Unconfigured machine.\n");
 	my $emailto=$perlvar{'lonSysEMail'};
-	my $hostname=`/bin/hostname`;
-	chop $hostname;
-	$hostname=~s/[^\w\.]//g; # make sure is safe to pass through shell
+	my $hostname = Sys::Hostname::FQDN::fqdn();
+	$hostname=~s/\.+/./g;
+	$hostname=~s/\-+/-/g;
+	$hostname=~s/[^\w\.-]//g; # make sure is safe to pass through shell
 	my $subj="LON: Unconfigured machine $hostname";
 	system("echo 'Unconfigured machine $hostname.' |".
                " mail -s '$subj' $emailto > /dev/null");
@@ -1438,7 +1749,7 @@ sub main () {
     my $wwwid=getpwnam('www');
     if ($wwwid!=$<) {
 	print("User ID mismatch. This program must be run as user 'www'.\n");
-	my $emailto="$perlvar{'lonAdmEMail'},$perlvar{'lonSysEMail'}";
+	my $emailto="$perlvar{'lonAdmEMail'} $perlvar{'lonSysEMail'}";
 	my $subj="LON: $perlvar{'lonHostID'} User ID mismatch";
 	system("echo 'User ID mismatch. loncron must be run as user www.' |".
                " mail -s '$subj' $emailto > /dev/null");
@@ -1460,11 +1771,13 @@ sub main () {
             }
         }
     }
-    &Apache::lonnet::load_hosts_tab(1,$nomemcache);
-    &Apache::lonnet::load_domain_tab(1,$nomemcache);
-    &Apache::lonnet::get_iphost(1,$nomemcache);
+    if (!$justiptables) {
+        &Apache::lonnet::load_hosts_tab(1,$nomemcache);
+        &Apache::lonnet::load_domain_tab(1,$nomemcache);
+        &Apache::lonnet::get_iphost(1,$nomemcache);
+    }
 
-# ----------------------------------------- Force firewall update for lond port  
+# ----------------------------------------- Force firewall update for lond port
 
     if ((!$justcheckdaemons) && (!$justreload)) {
         my $now = time;
@@ -1479,7 +1792,7 @@ sub main () {
             if (&LONCAPA::try_to_lock('/tmp/lock_lciptables')) {
                 my $execpath = $perlvar{'lonDaemons'}.'/lciptables';
                 system("$execpath $tmpfile");
-                unlink('/tmp/lock_lciptables');  # Remove the lock file. 
+                unlink('/tmp/lock_lciptables');  # Remove the lock file.
             }
             unlink($tmpfile);
         }
@@ -1491,9 +1804,9 @@ sub main () {
     $warnings=0;
     $notices=0;
 
-	
+
     my $fh;
-    if (!$justcheckdaemons && !$justcheckconnections && !$justreload) {
+    if (!$justcheckdaemons && !$justcheckconnections && !$justreload && !$justiptables) {
 	$fh=&start_logging();
 
 	&log_machine_info($fh);
@@ -1501,11 +1814,12 @@ sub main () {
 	&clean_lonIDs($fh);
         &clean_balanceIDs($fh);
         &clean_webDAV_sessionIDs($fh);
+        &clean_ltiIDs($fh);
 	&check_httpd_logs($fh);
 	&rotate_lonnet_logs($fh);
 	&rotate_other_logs($fh);
     }
-    if (!$justcheckconnections && !$justreload) {
+    if (!$justcheckconnections && !$justreload && !$justiptables) {
 	&checkon_daemon($fh,'lonmemcached',40000);
 	&checkon_daemon($fh,'lonsql',200000);
 	if ( &checkon_daemon($fh,'lond',40000,'USR1') eq 'running') {
@@ -1526,7 +1840,33 @@ sub main () {
     if ($justcheckconnections) {
 	&test_connections($fh);
     }
-    if (!$justcheckdaemons && !$justcheckconnections && !$justreload) {
+    if (!$justcheckdaemons && !$justcheckconnections && !$justreload && !$justiptables) {
+        my ($bracketed_warning,$check_bracketed_paste) = &check_bash_settings();
+        if ($check_bracketed_paste) {
+           &log($fh,'<hr /><a name="bashconf" /><h2>bash readline config</h2><h3>Bracketed Paste</h3>'.
+                '<p>Distros using bash readline library 8.1 or later need bracketed paste disabled for the R bash shell for the www user so R commands sent to lonr daemon will be processed.</p>');
+           my $bash_www_cnf = '/home/www/.inputrc';
+           my $non_empty_conffile;
+           unless ($bracketed_warning) {
+               if (-e $bash_www_cnf) {
+                   my $filesize = (stat($bash_www_cnf))[7];
+                   if ($filesize > 0) {
+                       $non_empty_conffile = 1;
+                   }
+               }
+           }
+           if (($bracketed_warning) || ($non_empty_conffile)) {
+               my $bash_update = &set_bracketed_paste_off();
+               if ($bash_update) {
+                   &log($fh,'<p>'.$bash_update.'</p>'."\n");
+               }
+           } else {
+               &log($fh,'<p>No action needed; /home/www/.inputrc already set.</p>'."\n");    
+           }
+        } else {
+            &log($fh,'<hr /><a name="bashconf" /><h2>bash readline config</h2><h3>Bracketed Paste</h3>'.
+                     '<p>No action needed for distros using pre-8.1 bash readline library</p>'."\n");
+        }
         my $domconf = &get_domain_config();
         my ($threshold,$sysmail,$reportstatus,$weightsref,$exclusionsref) =
             &get_permcount_settings($domconf);
@@ -1534,6 +1874,7 @@ sub main () {
         &write_loncaparevs();
         &write_serverhomeIDs();
 	&write_checksums();
+        &write_hostips();
         my %sslrem = &clean_nosslverify($fh);
         my %conchgs = &write_connection_config();
         my %hosttypechgs = &write_hosttypes();