Fixed issue when used permissions option and contains "." char, will changes the config, so it not works

src/main/java/com/gamingmesh/jobs/config/ConfigManager.java

@@ -79,7 +79,9 @@ public class ConfigManager {
 	    "and job2 gives 5 income and experience for killing a player. When the user kills a player",
 	    "they will get 15 income and job1 will gain 10 experience and job2 will gain 5 experience."));
 
-	cfg.set("Jobs", cfg.getC().get("Jobs"));
+	if (!cfg.contains("Jobs")) {
+	    cfg.set("Jobs", cfg.getC().get("Jobs"));
+	}
 
 	String pt = "Jobs.exampleJob";
 	cfg.addComment(pt, "Must be one word",
@@ -822,12 +824,12 @@ public class ConfigManager {
 	    if (permissionsSection != null) {
 		for (String permissionKey : permissionsSection.getKeys(false)) {
 		    ConfigurationSection permissionSection = permissionsSection.getConfigurationSection(permissionKey);
-
-		    String node = permissionKey.toLowerCase();
 		    if (permissionSection == null) {
 			Jobs.getPluginLogger().warning("Job " + jobKey + " has an invalid permission key " + permissionKey + "!");
 			continue;
 		    }
+
+		    String node = permissionKey.toLowerCase().replace('_', '.');
 		    boolean value = permissionSection.getBoolean("value", true);
 		    int levelRequirement = permissionSection.getInt("level", 0);
 		    jobPermissions.add(new JobPermission(node, value, levelRequirement));

src/main/java/com/gamingmesh/jobs/listeners/JobsListener.java

@@ -548,15 +548,13 @@ public class JobsListener implements Listener {
 	if (JPlayer == null)
 	    return;
 
-	List<JobProgression> prog = JPlayer.getJobProgression();
-
-	String name = null;
-	List<String> lore = new ArrayList<>();
-
 	Map<Enchantment, Integer> enchants = new HashMap<>(iih.getEnchantments());
 	if (enchants.isEmpty())
 	    return;
 
+	String name = null;
+	List<String> lore = new ArrayList<>();
+
 	if (iih.hasItemMeta()) {
 	    ItemMeta meta = iih.getItemMeta();
 	    if (meta.hasDisplayName())
@@ -566,6 +564,7 @@ public class JobsListener implements Listener {
 	}
 
 	String meinOk = null;
+	List<JobProgression> prog = JPlayer.getJobProgression();
 
 	mein: for (JobProgression one : prog) {
 	    for (Entry<String, JobLimitedItems> oneItem : one.getJob().getLimitedItems().entrySet()) {

src/main/resources/jobConfig.yml

@@ -481,12 +481,14 @@ Jobs:
     # permissions granted for joining class
     permissions:
       # example node
-      aaaaaatest.node:
+      # NOTE: You should use "_" instead of "." dot, because the file will be saved on
+      # plugin load, so it will changes the configuration.
+      aaaaaatest_node:
         # true to give, false to revoke
         value: true
         # minimum level needed to grant permission. Use 0 for all levels
         level: 0
-      aaaaaatest.node2:
+      aaaaaatest_node2:
         value: true
         # Permission granted when reaching level 10
         level: 10