Ensure letsencrypt certs are used where appropriate

src/freedombone-utils-web

     if [[ $ONION_ONLY == 'no' ]]; then
         if [ -d /etc/prosody ]; then
             if [ -f /etc/mumble-server.ini ]; then
-                if [ ! -f /etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.pem ]; then
+                if [ ! -f /etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/fullchain.pem ]; then
                     if ! grep -q "mumble.pem" /etc/mumble-server.ini; then
                         sed -i 's|sslCert=.*|sslCert=/var/lib/mumble-server/mumble.pem|g' /etc/mumble-server.ini
                         sed -i 's|sslKey=.*|sslKey=/var/lib/mumble-server/mumble.key|g' /etc/mumble-server.ini
                         systemctl restart mumble
                     fi
                 else
-                    if ! grep -q "${DEFAULT_DOMAIN_NAME}.pem" /etc/mumble-server.ini; then
+                    if ! grep -q "${DEFAULT_DOMAIN_NAME}/fullchain.pem" /etc/mumble-server.ini; then
                         usermod -a -G ssl-cert mumble-server
-                        sed -i "s|sslCert=.*|sslCert=/etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.pem|g" /etc/mumble-server.ini
-                        sed -i "s|sslKey=.*|sslKey=/etc/ssl/private/${DEFAULT_DOMAIN_NAME}.key|g" /etc/mumble-server.ini
+                        sed -i "s|sslCert=.*|sslCert=/etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/fullchain.pem|g" /etc/mumble-server.ini
+                        sed -i "s|sslKey=.*|sslKey=/etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/privkey.pem|g" /etc/mumble-server.ini
                         systemctl restart mumble
                     fi
                 fi
             fi
             cp /etc/ssl/private/xmpp* /etc/prosody/certs
             cp /etc/ssl/certs/xmpp* /etc/prosody/certs
-            if [ /etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.pem ]; then
+            if [ -f /etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/fullchain.pem ]; then
                 usermod -a -G ssl-cert prosody
                 if grep -q "/etc/prosody/certs/xmpp.key" /etc/prosody/conf.avail/xmpp.cfg.lua; then
-                    sed -i "s|/etc/prosody/certs/xmpp.key|/etc/ssl/private/${DEFAULT_DOMAIN_NAME}.key|g" /etc/prosody/conf.avail/xmpp.cfg.lua
+                    sed -i "s|/etc/prosody/certs/xmpp.key|/etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/privkey.pem|g" /etc/prosody/conf.avail/xmpp.cfg.lua
                 fi
                 if grep -q "/etc/prosody/certs/xmpp.crt" /etc/prosody/conf.avail/xmpp.cfg.lua; then
-                    sed -i "s|/etc/prosody/certs/xmpp.crt|/etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.pem|g" /etc/prosody/conf.avail/xmpp.cfg.lua
+                    sed -i "s|/etc/prosody/certs/xmpp.crt|/etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/fullchain.pem|g" /etc/prosody/conf.avail/xmpp.cfg.lua
                 fi
 
                 if grep -q "/etc/prosody/certs/xmpp.key" /etc/prosody/prosody.cfg.lua; then
-                    sed -i "s|/etc/prosody/certs/xmpp.key|/etc/ssl/private/${DEFAULT_DOMAIN_NAME}.key|g" /etc/prosody/prosody.cfg.lua
+                    sed -i "s|/etc/prosody/certs/xmpp.key|/etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/privkey.pem|g" /etc/prosody/prosody.cfg.lua
                 fi
                 if grep -q "/etc/prosody/certs/xmpp.crt" /etc/prosody/prosody.cfg.lua; then
-                    sed -i "s|/etc/prosody/certs/xmpp.crt|/etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.pem|g" /etc/prosody/prosody.cfg.lua
+                    sed -i "s|/etc/prosody/certs/xmpp.crt|/etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/fullchain.pem|g" /etc/prosody/prosody.cfg.lua
                 fi
             fi
 
             if grep -q "/etc/prosody/certs/${DEFAULT_DOMAIN_NAME}.key" /etc/prosody/conf.avail/xmpp.cfg.lua; then
-                sed -i "s|/etc/prosody/certs/${DEFAULT_DOMAIN_NAME}.key|/etc/ssl/private/${DEFAULT_DOMAIN_NAME}.key|g" /etc/prosody/conf.avail/xmpp.cfg.lua
+                sed -i "s|/etc/prosody/certs/${DEFAULT_DOMAIN_NAME}.key|/etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/privkey.pem|g" /etc/prosody/conf.avail/xmpp.cfg.lua
             fi
 
             if grep -q "/etc/prosody/certs/${DEFAULT_DOMAIN_NAME}.pem" /etc/prosody/conf.avail/xmpp.cfg.lua; then
-                sed -i "s|/etc/prosody/certs/${DEFAULT_DOMAIN_NAME}.pem|/etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.pem|g" /etc/prosody/conf.avail/xmpp.cfg.lua
+                sed -i "s|/etc/prosody/certs/${DEFAULT_DOMAIN_NAME}.pem|/etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/fullchain.pem|g" /etc/prosody/conf.avail/xmpp.cfg.lua
             fi
 
             if grep -q "/etc/prosody/certs/${DEFAULT_DOMAIN_NAME}.key" /etc/prosody/prosody.cfg.lua; then
-                sed -i "s|/etc/prosody/certs/${DEFAULT_DOMAIN_NAME}.key|/etc/ssl/private/${DEFAULT_DOMAIN_NAME}.key|g" /etc/prosody/prosody.cfg.lua
+                sed -i "s|/etc/prosody/certs/${DEFAULT_DOMAIN_NAME}.key|/etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/privkey.pem|g" /etc/prosody/prosody.cfg.lua
             fi
 
             if grep -q "/etc/prosody/certs/${DEFAULT_DOMAIN_NAME}.pem" /etc/prosody/prosody.cfg.lua; then
-                sed -i "s|/etc/prosody/certs/${DEFAULT_DOMAIN_NAME}.pem|/etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.pem|g" /etc/prosody/prosody.cfg.lua
+                sed -i "s|/etc/prosody/certs/${DEFAULT_DOMAIN_NAME}.pem|/etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/fullchain.pem|g" /etc/prosody/prosody.cfg.lua
             fi
 
             chown -R prosody:default /etc/prosody
 
         if [ -d /home/znc/.znc ]; then
             echo $'znc found'
-            if [[ "$(cert_exists ${DEFAULT_DOMAIN_NAME} pem)" == "1" ]]; then
+            if [ -f /etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/fullchain.pem ]; then
                 pkill znc
                 cat /etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.pem /etc/ssl/private/${DEFAULT_DOMAIN_NAME}.key > /home/znc/.znc/znc.pem
                 chown znc:znc /home/znc/.znc/znc.pem
                 chmod 700 /home/znc/.znc/znc.pem
 
-                sed -i "s|CertFile =.*|CertFile = /etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.pem" /etc/ngircd/ngircd.conf
+                sed -i "s|CertFile =.*|CertFile = /etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/fullchain.pem" /etc/ngircd/ngircd.conf
                 sed -i "s|DHFile =.*|DHFile = /etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.dhparam" /etc/ngircd/ngircd.conf
-                sed -i "s|KeyFile =.*|KeyFile = /etc/ssl/private/${DEFAULT_DOMAIN_NAME}.key" /etc/ngircd/ngircd.conf
+                sed -i "s|KeyFile =.*|KeyFile = /etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/privkey.pem" /etc/ngircd/ngircd.conf
                 echo $'irc certificates updated'
 
                 systemctl restart ngircd
         if [ ${#DEFAULT_DOMAIN_NAME} -gt 0 ]; then
             if [ -f /etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.pem ]; then
                 if [ -d /etc/dovecot ]; then
-                    if ! grep -q "ssl_cert = </etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.pem" /etc/dovecot/conf.d/10-ssl.conf; then
-                        sed -i "s|#ssl_cert =.*|ssl_cert = </etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.pem|g" /etc/dovecot/conf.d/10-ssl.conf
-                        sed -i "s|ssl_cert =.*|ssl_cert = </etc/ssl/certs/${DEFAULT_DOMAIN_NAME}.pem|g" /etc/dovecot/conf.d/10-ssl.conf
+                    if ! grep -q "ssl_cert = </etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/fullchain.pem" /etc/dovecot/conf.d/10-ssl.conf; then
+                        sed -i "s|#ssl_cert =.*|ssl_cert = </etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/fullchain.pem|g" /etc/dovecot/conf.d/10-ssl.conf
+                        sed -i "s|ssl_cert =.*|ssl_cert = </etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/fullchain.pem|g" /etc/dovecot/conf.d/10-ssl.conf
                         systemctl restart dovecot
                     fi
                 fi
 
                 if [ -d /etc/exim4 ]; then
+                    # Unfortunately there doesn't appear to be any other way than copying certs here
                     cp /etc/letsencrypt/live/${DEFAULT_DOMAIN_NAME}/{fullchain,privkey}.pem /etc/exim4/
                     chown root:Debian-exim /etc/exim4/*.pem
                     chmod 640 /etc/exim4/*.pem