From 390e6272ecdcb419e69aa33b9cb5118df6b5dd17 Mon Sep 17 00:00:00 2001
From: roger109z <roger@DESKTOP-5SIK452.localdomain>
Date: Wed, 16 Oct 2019 00:00:20 -0700
Subject: [PATCH 01/32] Slimmed down startup.lua

---
 startup.lua | 77 +++++++++++++----------------------------------------
 1 file changed, 19 insertions(+), 58 deletions(-)

diff --git a/startup.lua b/startup.lua
index a5c371c..c796983 100644
--- a/startup.lua
+++ b/startup.lua
@@ -8,66 +8,27 @@ if not commands then -- Attempt to prevent user from running this on non-command
 	return
 end
 
-local config = {}
-
-do -- Configuration parsing
-	local file, default = fs.open("cfg/allium.lson", "r"), {updates = {deps = true, allium = true}}
-	local function verify_cfg(input, default, index)
-		for f_k, f_v in pairs(input) do -- input key, value
-			for t_k, t_v in pairs(default) do -- standard key, value
-				if type(f_v) == "table" and type(t_v) == "table" then
-					if not verify_cfg(f_v, t_v, f_k..".") then
-						return false
-					end
-				elseif f_k == t_k and type(f_v) ~= type(t_v) then
-					printError("Invalid config option "..(index or "")..f_k.." (expected "..type(t_v)..", got "..type(f_v)..")")
-					return false
-				end
-			end
-		end
-		return true
-	end
-	local function fill_missing(file, default)
-        local out = {}
-        if not file then file = {} end
-        for k, v in pairs(default) do
-            if type(v) == "table" then
-                out[k] = fill_missing(file[k], v)
-            else
-                if type(file[k]) == "nil" then
-                    out[k] = v
-                else
-                    out[k] = file[k]
-                end
-            end
-        end
-        for k, v in pairs(file) do
-            if out[k] == nil then
-                out[k] = v
-            end
-        end
-        return out
+--load settings from file
+local loadSettings = function(file, default)
+    assert(type(file) == "string", "file must be a string")  
+    if not fs.exists(file) then
+        local setting = fs.open(file,"w")
+        setting.write(textutils.serialise(default))
+        setting.close()
+        return default
     end
-    local output = {}
-	if file then -- Could not read file
-        output = textutils.unserialise(file.readAll()) or {}
-        file.close()
-	end
-	if verify_cfg(output, default) then -- Make sure none of the config opts are invalid (skips missing ones)
-        config = fill_missing(output, default) -- Fill in the remaining options that are missing
-        if config.version ~= allium_version then
-            config.version = allium_version
-            file = fs.open("cfg/allium.lson", "w")
-            if file then
-                file.write(textutils.serialise(config))
-                file.close()
-            end
-        end
-	else
-		return
-	end
+    local setting = fs.open(file, "r")
+    local config = setting.readAll()
+    setting.close()
+    config = textutils.unserialise(config)
+    if type(config) ~= "table" then
+        return default
+    end
+    return config
 end
 
+config = loadSettings("cfg/allium.lson", {updates = {dependencies = true, allium = true}})
+
 -- Checking Allium/Plugin updates
 if config.updates.allium then
     if fs.exists("cfg/repolist.csh") then -- Checking for a repolist shell executable
@@ -79,7 +40,7 @@ if config.updates.allium then
 end
 
 -- Filling Dependencies
-if config.updates.deps then
+if config.updates.dependencies then
     -- Allium DepMan Instance: https://pastebin.com/nRgBd3b6
     print("Updating Dependencies...")
     local didrun = false

From 4e8f6be4674b9128d3d7d79990dd0e7efa55346f Mon Sep 17 00:00:00 2001
From: roger109z <roger_109g@yahoo.com>
Date: Wed, 16 Oct 2019 00:59:56 -0700
Subject: [PATCH 02/32] Added checks to ensure that keys are not missing from
 configs

---
 startup.lua | 11 +++++++++++
 1 file changed, 11 insertions(+)

diff --git a/startup.lua b/startup.lua
index c796983..79c822d 100644
--- a/startup.lua
+++ b/startup.lua
@@ -24,6 +24,17 @@ local loadSettings = function(file, default)
     if type(config) ~= "table" then
         return default
     end
+    local checkForKeys
+    checkForKeys = function(default, test)
+        for key, value in pairs(default) do
+            if not test[key] then
+                test[key] = value
+            elseif type(test[key]) == "table" then
+                checkForKeys(value, test[key])
+            end
+        end
+    end
+    checkForKeys(default, config)
     return config
 end
 

From d99c2b463969687a460bcaa43f712a94611fa925 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Sat, 19 Oct 2019 01:22:09 -0700
Subject: [PATCH 03/32] General code cleanup

- Removed duplicate config checking code in both the startup and main program
- Added type checking where it was needed
- Updated minor text bleed in allium stem
---
 .gitignore              |  3 +-
 allium.lua              | 70 ++++++++++++-----------------------------
 plugins/allium-stem.lua |  4 +--
 startup.lua             | 38 +++++++++++++++-------
 4 files changed, 50 insertions(+), 65 deletions(-)

diff --git a/.gitignore b/.gitignore
index 7b8cb54..8195780 100644
--- a/.gitignore
+++ b/.gitignore
@@ -1,2 +1,3 @@
 lib/*
-cfg/*
\ No newline at end of file
+cfg/*
+.DS_Store
diff --git a/allium.lua b/allium.lua
index 22711ad..7bb1448 100644
--- a/allium.lua
+++ b/allium.lua
@@ -28,6 +28,15 @@ local function print(noline, ...) -- Magical function that takes in a table and
 	term.setTextColor(text_color)
 end
 
+local function getData(name) -- Extract data on user from data command
+	local suc, data = commands.exec("data get entity "..name)
+	if not suc then return suc, data end
+	data = data[1]:sub(data[1]:find("{"), -1)
+	local data = mojson.parseList(data)
+	if not data then return false end
+	return data
+end
+
 local function deep_copy(table) -- Recursively copy a module
 	out = {}
 	for name, func in pairs(table) do
@@ -50,59 +59,18 @@ local cli = {
 	error = {true, "[", colors.red, "E", colors.white, "] "}
 }
 
-local config
+
+local config = ...
 do -- Configuration parsing
-	local file, default, rule = fs.open("cfg/allium.lson", "r"), {import_timeout = 5, label = "<&r&dAll&5&h[[Hugeblank was here. Hi.]]&i[[https://www.youtube.com/watch?v=hjGZLnja1o8]]i&r&dum&r> "}
-	local function verify_cfg(input, default, index)
-		for f_k, f_v in pairs(input) do -- input key, value
-			for t_k, t_v in pairs(default) do -- standard key, value
-				if type(f_v) == "table" and type(t_v) == "table" then
-					if not verify_cfg(f_v, t_v, f_k..".") then
-						return false
-					end
-				elseif f_k == t_k and type(f_v) ~= type(t_v) then
-					printError("Invalid config option "..(index or "")..f_k.." (expected "..type(t_v)..", got "..type(f_v)..")")
-					return false
-				end
-			end
-		end
-		return true
-	end
-	local function fill_missing(file, default)
-		local out = {}
-		for k, v in pairs(default) do
-			if type(v) == "table" then
-				out[k] = fill_missing(file[k], v)
-			else
-				if file[k] == nil then
-					out[k] = v
-				else
-					out[k] = file[k]
-				end
-			end
-		end
-		return out
-	end
-	if not file then -- Could not read file
-		printError("Could not read config")
-		return
-	end
-	local output = textutils.unserialise(file.readAll())
-	if not output then -- Config file in invalid format
-		printError("Could not parse config")
+	if type(config) ~= "table" then
+		printError("Invalid input configuration, make sure you're using the provided init file.")
 		return
 	end
-	allium.version, rule = semver.parse(output.version)
+	allium.version, rule = semver.parse(config.version)
 	if not allium.version then -- Invalid Allium version
 		printError("Could not parse Allium's version (breaks SemVer rule #"..rule..")")
 		return
 	end
-	output.version = nil
-	if verify_cfg(output, default) then -- Invalid configuration option (skips missing ones)
-		config = fill_missing(output, default)
-	else
-		return
-	end
 end
 
 do -- Allium image setup <3
@@ -160,6 +128,8 @@ allium.tell = function(name, message, alt_name)
 end
 
 allium.execute = function(name, command)
+	assert(type(name) == "string", "Invalid argument #1 (string expected, got "..type(name)..")")
+	assert(type(command) == "string", "Invalid argument #2 (string expected, got "..type(command)..")")
 	os.queueEvent("chat_capture", command, "execute", name)
 end
 
@@ -180,10 +150,9 @@ allium.getPlayers = function()
 end
 
 allium.getPosition = function(name)
-	local suc, data = commands.exec("data get entity "..name)
-	if not suc then return false, data end
-	data = data[1]:sub(data[1]:find("{"), -1)
-	local data = mojson.parseList(data)
+	assert(type(name) == "string", "Invalid argument #1 (string expected, got "..type(name)..")")
+	local data = allium.getData(name)
+	assert(data, "Failed to get data on user ".. name)
 	return {
 		position = data.Pos,
 		rotation = data.Rotation,
@@ -343,6 +312,7 @@ allium.register = function(p_name, version, fullname)
 end
 
 allium.verify = function(param) -- Verification code ripped from DepMan instance
+	assert(type(param) == "string", "Invalid argument #1 (string expected, got "..type(param)..")")
 	local function convert(str) -- Use the semver API to convert. Provide a detailed error if conversion fails
 		if type(str) ~= "string" then
 			error("Could not convert "..tostring(str))
diff --git a/plugins/allium-stem.lua b/plugins/allium-stem.lua
index ad5b8e9..9c48a59 100644
--- a/plugins/allium-stem.lua
+++ b/plugins/allium-stem.lua
@@ -1,5 +1,5 @@
 local allium = require("allium")
-local stem = allium.register("allium", "0.4.1", "Allium Stem")
+local stem = allium.register("allium", "0.4.2", "Allium Stem")
 local addDetails
 do -- Just a block for organization of command parsing stuffs
 	local function infill(variant, execute)
@@ -169,7 +169,7 @@ local help = function(name, args, data)
 						data.error(cmd..": "..infill_info)
 						return
 					end
-					info[#info+1] = "&c&s[["..infill_text.."]]&h[[Click to add to chat input]]"..infill_text
+					info[#info+1] = "&c&s[["..infill_text.."]]&h[[Click to add to chat input]]"..infill_text.."&r"
 					for i = 1, #infill_info do
 						info[#info+1] = infill_info[i]
 					end
diff --git a/startup.lua b/startup.lua
index a5c371c..bf5932a 100644
--- a/startup.lua
+++ b/startup.lua
@@ -1,26 +1,39 @@
 shell.openTab("shell")
 
 -- Allium version
-local allium_version = "0.8.1"
+local allium_version = "0.9.0-pr1"
 
 if not commands then -- Attempt to prevent user from running this on non-command comps
 	printError("Allium must be run on a command computer")
 	return
 end
 
-local config = {}
+--[[
+    DEFAULT ALLIUM CONFIGS ### DO NOT CHANGE THESE ###
+    Configurations can be changed in /cfg/allium.lson
+]]
+local default = {
+    version = allium_version, -- Allium's version
+    import_timeout = 5, -- The maximum amount of time it takes to wait for a plugin dependency to provide its module.
+    label = "<&r&dAll&5&h[[Hugeblank was here. Hi.]]&i[[https://www.youtube.com/watch?v=hjGZLnja1o8]]i&r&dum&r> ", -- The label the loader uses
+    updates = { -- Various auto-update configurations. Server operators may want to change this from the default
+        deps = true, -- Automatically update dependencies
+        allium = true -- Automatically update allium
+    }
+}
 
+local config = {}
 do -- Configuration parsing
-	local file, default = fs.open("cfg/allium.lson", "r"), {updates = {deps = true, allium = true}}
+	local file = fs.open("cfg/allium.lson", "r")
 	local function verify_cfg(input, default, index)
-		for f_k, f_v in pairs(input) do -- input key, value
-			for t_k, t_v in pairs(default) do -- standard key, value
-				if type(f_v) == "table" and type(t_v) == "table" then
-					if not verify_cfg(f_v, t_v, f_k..".") then
+		for givenField, givenValue in pairs(input) do -- input key, value
+			for expectedField, expectedValue in pairs(default) do -- standard key, value
+				if type(givenValue) == "table" and type(expectedValue) == "table" then
+					if not verify_cfg(givenValue, expectedValue, givenField..".") then
 						return false
 					end
-				elseif f_k == t_k and type(f_v) ~= type(t_v) then
-					printError("Invalid config option "..(index or "")..f_k.." (expected "..type(t_v)..", got "..type(f_v)..")")
+				elseif givenField == expectedField and type(givenValue) ~= type(expectedValue) then
+					printError("Invalid config option "..(index or "")..givenField.." (expected "..type(expectedValue)..", got "..type(givenValue)..")")
 					return false
 				end
 			end
@@ -81,7 +94,7 @@ end
 -- Filling Dependencies
 if config.updates.deps then
     -- Allium DepMan Instance: https://pastebin.com/nRgBd3b6
-    print("Updating Dependencies...")
+    print("Checking for dependency updates...")
     local didrun = false
     parallel.waitForAll(function()
         didrun = shell.run("pastebin run nRgBd3b6 upgrade https://pastebin.com/raw/fisfxn76 /cfg/deps.lson /lib "..allium_version)
@@ -102,14 +115,15 @@ term.clear()
 term.setCursorPos(1, 1)
 
 -- Running Allium
-shell.run("allium.lua")
+multishell.setTitle(multishell.getCurrent(), "Allium")
+os.run(_ENV, "allium.lua", config)
 
 -- Removing all captures
 for _, side in pairs(peripheral.getNames()) do -- Finding the chat module
 	if peripheral.getMethods(side) then
 		for _, method in pairs(peripheral.getMethods(side)) do
 			if method == "uncapture" then
-                peripheral.call(side, "uncapture", ".")
+                peripheral.call(side, "uncapture")
 				break
 			end
 		end

From 3d2ce8a7c5e2b9e29f612a1de1db8f5658acae7d Mon Sep 17 00:00:00 2001
From: roger109z <roger_109g@yahoo.com>
Date: Tue, 22 Oct 2019 14:22:13 -0700
Subject: [PATCH 04/32] Added allium.register.loadConfig

---
 allium.lua  | 102 +++++++++++++++++++++++++++++++++++++++++-----------
 startup.lua |   4 +--
 2 files changed, 83 insertions(+), 23 deletions(-)

diff --git a/allium.lua b/allium.lua
index 7bb1448..62b1160 100644
--- a/allium.lua
+++ b/allium.lua
@@ -28,15 +28,6 @@ local function print(noline, ...) -- Magical function that takes in a table and
 	term.setTextColor(text_color)
 end
 
-local function getData(name) -- Extract data on user from data command
-	local suc, data = commands.exec("data get entity "..name)
-	if not suc then return suc, data end
-	data = data[1]:sub(data[1]:find("{"), -1)
-	local data = mojson.parseList(data)
-	if not data then return false end
-	return data
-end
-
 local function deep_copy(table) -- Recursively copy a module
 	out = {}
 	for name, func in pairs(table) do
@@ -59,18 +50,59 @@ local cli = {
 	error = {true, "[", colors.red, "E", colors.white, "] "}
 }
 
-
-local config = ...
+local config
 do -- Configuration parsing
-	if type(config) ~= "table" then
-		printError("Invalid input configuration, make sure you're using the provided init file.")
+	local file, default, rule = fs.open("cfg/allium.lson", "r"), {import_timeout = 5, label = "<&r&dAll&5&h[[Hugeblank was here. Hi.]]&i[[https://www.youtube.com/watch?v=hjGZLnja1o8]]i&r&dum&r> "}
+	local function verify_cfg(input, default, index)
+		for f_k, f_v in pairs(input) do -- input key, value
+			for t_k, t_v in pairs(default) do -- standard key, value
+				if type(f_v) == "table" and type(t_v) == "table" then
+					if not verify_cfg(f_v, t_v, f_k..".") then
+						return false
+					end
+				elseif f_k == t_k and type(f_v) ~= type(t_v) then
+					printError("Invalid config option "..(index or "")..f_k.." (expected "..type(t_v)..", got "..type(f_v)..")")
+					return false
+				end
+			end
+		end
+		return true
+	end
+	local function fill_missing(file, default)
+		local out = {}
+		for k, v in pairs(default) do
+			if type(v) == "table" then
+				out[k] = fill_missing(file[k], v)
+			else
+				if file[k] == nil then
+					out[k] = v
+				else
+					out[k] = file[k]
+				end
+			end
+		end
+		return out
+	end
+	if not file then -- Could not read file
+		printError("Could not read config")
+		return
+	end
+	local output = textutils.unserialise(file.readAll())
+	if not output then -- Config file in invalid format
+		printError("Could not parse config")
 		return
 	end
-	allium.version, rule = semver.parse(config.version)
+	allium.version, rule = semver.parse(output.version)
 	if not allium.version then -- Invalid Allium version
 		printError("Could not parse Allium's version (breaks SemVer rule #"..rule..")")
 		return
 	end
+	output.version = nil
+	if verify_cfg(output, default) then -- Invalid configuration option (skips missing ones)
+		config = fill_missing(output, default)
+	else
+		return
+	end
 end
 
 do -- Allium image setup <3
@@ -128,8 +160,6 @@ allium.tell = function(name, message, alt_name)
 end
 
 allium.execute = function(name, command)
-	assert(type(name) == "string", "Invalid argument #1 (string expected, got "..type(name)..")")
-	assert(type(command) == "string", "Invalid argument #2 (string expected, got "..type(command)..")")
 	os.queueEvent("chat_capture", command, "execute", name)
 end
 
@@ -150,9 +180,10 @@ allium.getPlayers = function()
 end
 
 allium.getPosition = function(name)
-	assert(type(name) == "string", "Invalid argument #1 (string expected, got "..type(name)..")")
-	local data = allium.getData(name)
-	assert(data, "Failed to get data on user ".. name)
+	local suc, data = commands.exec("data get entity "..name)
+	if not suc then return false, data end
+	data = data[1]:sub(data[1]:find("{"), -1)
+	local data = mojson.parseList(data)
 	return {
 		position = data.Pos,
 		rotation = data.Rotation,
@@ -238,6 +269,38 @@ allium.register = function(p_name, version, fullname)
 		return raisin.thread(thread, 0, group.thread)
 	end
 
+	funcs.loadConfig = function(name, default)
+		assert(type(name) == "string", "Invalid argument #1 (string expected, got "..type(name)..")") 
+		assert(type(default) == "table", "Invalid argument #2 (table expected, got "..type(default)..")") 
+		local file = shell.path().."/cfg/"..name
+		if not fs.exists(file) then
+			local setting = fs.open(file,"w")
+			setting.write(textutils.serialise(default))
+			setting.close()
+			return default
+		end
+		local setting = fs.open(file, "r")
+		local config = setting.readAll()
+		setting.close()
+		config = textutils.unserialise(config)
+		if type(config) ~= "table" then
+			return default
+		end
+		local checkForKeys
+		checkForKeys = function(default, test)
+			for key, value in pairs(default) do
+				if not test[key] then
+					test[key] = value
+				elseif type(test[key]) == "table" then
+					checkForKeys(value, test[key])
+				end
+			end
+		end
+		checkForKeys(default, config)
+		return config
+	end
+
+
 	funcs.getPersistence = function(name)
 		assert(type(name) ~= "nil", "Invalid argument #1 (expected anything but nil, got "..type(name)..")")
 		if fs.exists("cfg/persistence.lson") then
@@ -312,7 +375,6 @@ allium.register = function(p_name, version, fullname)
 end
 
 allium.verify = function(param) -- Verification code ripped from DepMan instance
-	assert(type(param) == "string", "Invalid argument #1 (string expected, got "..type(param)..")")
 	local function convert(str) -- Use the semver API to convert. Provide a detailed error if conversion fails
 		if type(str) ~= "string" then
 			error("Could not convert "..tostring(str))
diff --git a/startup.lua b/startup.lua
index 0b89d2b..973525e 100644
--- a/startup.lua
+++ b/startup.lua
@@ -1,5 +1,3 @@
-shell.openTab("shell")
-
 -- Allium version
 local allium_version = "0.9.0-pr1"
 
@@ -37,7 +35,7 @@ local loadSettings = function(file, default)
     local checkForKeys
     checkForKeys = function(default, test)
         for key, value in pairs(default) do
-            if not test[key] then
+            if type(test[key]) ~= type(value) then
                 test[key] = value
             elseif type(test[key]) == "table" then
                 checkForKeys(value, test[key])

From 43b2e5dfe84582461abfc6478416812ca4e15d9f Mon Sep 17 00:00:00 2001
From: roger109z <roger_109g@yahoo.com>
Date: Tue, 22 Oct 2019 14:40:29 -0700
Subject: [PATCH 05/32] Fixed previous commit

---
 allium.lua | 70 ++++++++++++++++--------------------------------------
 1 file changed, 20 insertions(+), 50 deletions(-)

diff --git a/allium.lua b/allium.lua
index 62b1160..ec1c2c0 100644
--- a/allium.lua
+++ b/allium.lua
@@ -28,6 +28,15 @@ local function print(noline, ...) -- Magical function that takes in a table and
 	term.setTextColor(text_color)
 end
 
+local function getData(name) -- Extract data on user from data command
+	local suc, data = commands.exec("data get entity "..name)
+	if not suc then return suc, data end
+	data = data[1]:sub(data[1]:find("{"), -1)
+	local data = mojson.parseList(data)
+	if not data then return false end
+	return data
+end
+
 local function deep_copy(table) -- Recursively copy a module
 	out = {}
 	for name, func in pairs(table) do
@@ -50,59 +59,18 @@ local cli = {
 	error = {true, "[", colors.red, "E", colors.white, "] "}
 }
 
-local config
+
+local config = ...
 do -- Configuration parsing
-	local file, default, rule = fs.open("cfg/allium.lson", "r"), {import_timeout = 5, label = "<&r&dAll&5&h[[Hugeblank was here. Hi.]]&i[[https://www.youtube.com/watch?v=hjGZLnja1o8]]i&r&dum&r> "}
-	local function verify_cfg(input, default, index)
-		for f_k, f_v in pairs(input) do -- input key, value
-			for t_k, t_v in pairs(default) do -- standard key, value
-				if type(f_v) == "table" and type(t_v) == "table" then
-					if not verify_cfg(f_v, t_v, f_k..".") then
-						return false
-					end
-				elseif f_k == t_k and type(f_v) ~= type(t_v) then
-					printError("Invalid config option "..(index or "")..f_k.." (expected "..type(t_v)..", got "..type(f_v)..")")
-					return false
-				end
-			end
-		end
-		return true
-	end
-	local function fill_missing(file, default)
-		local out = {}
-		for k, v in pairs(default) do
-			if type(v) == "table" then
-				out[k] = fill_missing(file[k], v)
-			else
-				if file[k] == nil then
-					out[k] = v
-				else
-					out[k] = file[k]
-				end
-			end
-		end
-		return out
-	end
-	if not file then -- Could not read file
-		printError("Could not read config")
-		return
-	end
-	local output = textutils.unserialise(file.readAll())
-	if not output then -- Config file in invalid format
-		printError("Could not parse config")
+	if type(config) ~= "table" then
+		printError("Invalid input configuration, make sure you're using the provided init file.")
 		return
 	end
-	allium.version, rule = semver.parse(output.version)
+	allium.version, rule = semver.parse(config.version)
 	if not allium.version then -- Invalid Allium version
 		printError("Could not parse Allium's version (breaks SemVer rule #"..rule..")")
 		return
 	end
-	output.version = nil
-	if verify_cfg(output, default) then -- Invalid configuration option (skips missing ones)
-		config = fill_missing(output, default)
-	else
-		return
-	end
 end
 
 do -- Allium image setup <3
@@ -160,6 +128,8 @@ allium.tell = function(name, message, alt_name)
 end
 
 allium.execute = function(name, command)
+	assert(type(name) == "string", "Invalid argument #1 (string expected, got "..type(name)..")")
+	assert(type(command) == "string", "Invalid argument #2 (string expected, got "..type(command)..")")
 	os.queueEvent("chat_capture", command, "execute", name)
 end
 
@@ -180,10 +150,9 @@ allium.getPlayers = function()
 end
 
 allium.getPosition = function(name)
-	local suc, data = commands.exec("data get entity "..name)
-	if not suc then return false, data end
-	data = data[1]:sub(data[1]:find("{"), -1)
-	local data = mojson.parseList(data)
+	assert(type(name) == "string", "Invalid argument #1 (string expected, got "..type(name)..")")
+	local data = allium.getData(name)
+	assert(data, "Failed to get data on user ".. name)
 	return {
 		position = data.Pos,
 		rotation = data.Rotation,
@@ -375,6 +344,7 @@ allium.register = function(p_name, version, fullname)
 end
 
 allium.verify = function(param) -- Verification code ripped from DepMan instance
+	assert(type(param) == "string", "Invalid argument #1 (string expected, got "..type(param)..")")
 	local function convert(str) -- Use the semver API to convert. Provide a detailed error if conversion fails
 		if type(str) ~= "string" then
 			error("Could not convert "..tostring(str))

From e8d393d4a9bac75ab145e7b674454a2bc994ecd8 Mon Sep 17 00:00:00 2001
From: roger109z <roger_109g@yahoo.com>
Date: Tue, 22 Oct 2019 14:50:37 -0700
Subject: [PATCH 06/32] Fixed previous commit

---
 allium.lua | 7 +++----
 1 file changed, 3 insertions(+), 4 deletions(-)

diff --git a/allium.lua b/allium.lua
index ec1c2c0..0b8af42 100644
--- a/allium.lua
+++ b/allium.lua
@@ -238,10 +238,9 @@ allium.register = function(p_name, version, fullname)
 		return raisin.thread(thread, 0, group.thread)
 	end
 
-	funcs.loadConfig = function(name, default)
-		assert(type(name) == "string", "Invalid argument #1 (string expected, got "..type(name)..")") 
-		assert(type(default) == "table", "Invalid argument #2 (table expected, got "..type(default)..")") 
-		local file = shell.path().."/cfg/"..name
+	funcs.loadConfig = function(default)
+		assert(type(default) == "table", "Invalid argument #1 (table expected, got "..type(default)..")") 
+		local file = shell.path().."/cfg/"..real_name
 		if not fs.exists(file) then
 			local setting = fs.open(file,"w")
 			setting.write(textutils.serialise(default))

From 61d07cf1a1ee7e6f5fb35f619db1b643bbfd9e08 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Tue, 22 Oct 2019 15:22:05 -0700
Subject: [PATCH 07/32] Undo startup modifications

---
 startup.lua | 89 ++++++++++++++++++++++++++++++++++++-----------------
 1 file changed, 61 insertions(+), 28 deletions(-)

diff --git a/startup.lua b/startup.lua
index 973525e..bf5932a 100644
--- a/startup.lua
+++ b/startup.lua
@@ -1,3 +1,5 @@
+shell.openTab("shell")
+
 -- Allium version
 local allium_version = "0.9.0-pr1"
 
@@ -6,6 +8,10 @@ if not commands then -- Attempt to prevent user from running this on non-command
 	return
 end
 
+--[[
+    DEFAULT ALLIUM CONFIGS ### DO NOT CHANGE THESE ###
+    Configurations can be changed in /cfg/allium.lson
+]]
 local default = {
     version = allium_version, -- Allium's version
     import_timeout = 5, -- The maximum amount of time it takes to wait for a plugin dependency to provide its module.
@@ -16,38 +22,65 @@ local default = {
     }
 }
 
---load settings from file
-local loadSettings = function(file, default)
-    assert(type(file) == "string", "file must be a string")  
-    if not fs.exists(file) then
-        local setting = fs.open(file,"w")
-        setting.write(textutils.serialise(default))
-        setting.close()
-        return default
-    end
-    local setting = fs.open(file, "r")
-    local config = setting.readAll()
-    setting.close()
-    config = textutils.unserialise(config)
-    if type(config) ~= "table" then
-        return default
-    end
-    local checkForKeys
-    checkForKeys = function(default, test)
-        for key, value in pairs(default) do
-            if type(test[key]) ~= type(value) then
-                test[key] = value
-            elseif type(test[key]) == "table" then
-                checkForKeys(value, test[key])
+local config = {}
+do -- Configuration parsing
+	local file = fs.open("cfg/allium.lson", "r")
+	local function verify_cfg(input, default, index)
+		for givenField, givenValue in pairs(input) do -- input key, value
+			for expectedField, expectedValue in pairs(default) do -- standard key, value
+				if type(givenValue) == "table" and type(expectedValue) == "table" then
+					if not verify_cfg(givenValue, expectedValue, givenField..".") then
+						return false
+					end
+				elseif givenField == expectedField and type(givenValue) ~= type(expectedValue) then
+					printError("Invalid config option "..(index or "")..givenField.." (expected "..type(expectedValue)..", got "..type(givenValue)..")")
+					return false
+				end
+			end
+		end
+		return true
+	end
+	local function fill_missing(file, default)
+        local out = {}
+        if not file then file = {} end
+        for k, v in pairs(default) do
+            if type(v) == "table" then
+                out[k] = fill_missing(file[k], v)
+            else
+                if type(file[k]) == "nil" then
+                    out[k] = v
+                else
+                    out[k] = file[k]
+                end
             end
         end
+        for k, v in pairs(file) do
+            if out[k] == nil then
+                out[k] = v
+            end
+        end
+        return out
     end
-    checkForKeys(default, config)
-    return config
+    local output = {}
+	if file then -- Could not read file
+        output = textutils.unserialise(file.readAll()) or {}
+        file.close()
+	end
+	if verify_cfg(output, default) then -- Make sure none of the config opts are invalid (skips missing ones)
+        config = fill_missing(output, default) -- Fill in the remaining options that are missing
+        if config.version ~= allium_version then
+            config.version = allium_version
+            file = fs.open("cfg/allium.lson", "w")
+            if file then
+                file.write(textutils.serialise(config))
+                file.close()
+            end
+        end
+	else
+		return
+	end
 end
 
-config = loadSettings("cfg/allium.lson", default)
-
 -- Checking Allium/Plugin updates
 if config.updates.allium then
     if fs.exists("cfg/repolist.csh") then -- Checking for a repolist shell executable
@@ -59,7 +92,7 @@ if config.updates.allium then
 end
 
 -- Filling Dependencies
-if config.updates.dependencies then
+if config.updates.deps then
     -- Allium DepMan Instance: https://pastebin.com/nRgBd3b6
     print("Checking for dependency updates...")
     local didrun = false

From 5aa3f17e3e6394808a9c8af908e1cac3c44ef581 Mon Sep 17 00:00:00 2001
From: roger109z <roger_109g@yahoo.com>
Date: Tue, 22 Oct 2019 15:38:41 -0700
Subject: [PATCH 08/32] Didn't do anything here don't worry about it

---
 startup.lua | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/startup.lua b/startup.lua
index 973525e..4a229e4 100644
--- a/startup.lua
+++ b/startup.lua
@@ -9,7 +9,7 @@ end
 local default = {
     version = allium_version, -- Allium's version
     import_timeout = 5, -- The maximum amount of time it takes to wait for a plugin dependency to provide its module.
-    label = "<&r&dAll&5&h[[Hugeblank was here. Hi.]]&i[[https://www.youtube.com/watch?v=hjGZLnja1o8]]i&r&dum&r> ", -- The label the loader uses
+    label = "<&r&dAll&5&h[[Killroy wuz here.]]&i[[https://www.youtube.com/watch?v=XqZsoesa55w&t=15s]]i&r&dum&r> ", -- The label the loader uses
     updates = { -- Various auto-update configurations. Server operators may want to change this from the default
         deps = true, -- Automatically update dependencies
         allium = true -- Automatically update allium

From ba46eb378919ba3edc40773c46ef3ea0c46bacc3 Mon Sep 17 00:00:00 2001
From: roger109z <roger_109g@yahoo.com>
Date: Tue, 22 Oct 2019 15:42:36 -0700
Subject: [PATCH 09/32] fixed huges screw-up

---
 startup.lua | 89 +++++++++++++++++------------------------------------
 1 file changed, 28 insertions(+), 61 deletions(-)

diff --git a/startup.lua b/startup.lua
index 643cb2a..4a229e4 100644
--- a/startup.lua
+++ b/startup.lua
@@ -1,5 +1,3 @@
-shell.openTab("shell")
-
 -- Allium version
 local allium_version = "0.9.0-pr1"
 
@@ -8,10 +6,6 @@ if not commands then -- Attempt to prevent user from running this on non-command
 	return
 end
 
---[[
-    DEFAULT ALLIUM CONFIGS ### DO NOT CHANGE THESE ###
-    Configurations can be changed in /cfg/allium.lson
-]]
 local default = {
     version = allium_version, -- Allium's version
     import_timeout = 5, -- The maximum amount of time it takes to wait for a plugin dependency to provide its module.
@@ -22,65 +16,38 @@ local default = {
     }
 }
 
-local config = {}
-do -- Configuration parsing
-	local file = fs.open("cfg/allium.lson", "r")
-	local function verify_cfg(input, default, index)
-		for givenField, givenValue in pairs(input) do -- input key, value
-			for expectedField, expectedValue in pairs(default) do -- standard key, value
-				if type(givenValue) == "table" and type(expectedValue) == "table" then
-					if not verify_cfg(givenValue, expectedValue, givenField..".") then
-						return false
-					end
-				elseif givenField == expectedField and type(givenValue) ~= type(expectedValue) then
-					printError("Invalid config option "..(index or "")..givenField.." (expected "..type(expectedValue)..", got "..type(givenValue)..")")
-					return false
-				end
-			end
-		end
-		return true
-	end
-	local function fill_missing(file, default)
-        local out = {}
-        if not file then file = {} end
-        for k, v in pairs(default) do
-            if type(v) == "table" then
-                out[k] = fill_missing(file[k], v)
-            else
-                if type(file[k]) == "nil" then
-                    out[k] = v
-                else
-                    out[k] = file[k]
-                end
-            end
-        end
-        for k, v in pairs(file) do
-            if out[k] == nil then
-                out[k] = v
-            end
-        end
-        return out
+--load settings from file
+local loadSettings = function(file, default)
+    assert(type(file) == "string", "file must be a string")  
+    if not fs.exists(file) then
+        local setting = fs.open(file,"w")
+        setting.write(textutils.serialise(default))
+        setting.close()
+        return default
+    end
+    local setting = fs.open(file, "r")
+    local config = setting.readAll()
+    setting.close()
+    config = textutils.unserialise(config)
+    if type(config) ~= "table" then
+        return default
     end
-    local output = {}
-	if file then -- Could not read file
-        output = textutils.unserialise(file.readAll()) or {}
-        file.close()
-	end
-	if verify_cfg(output, default) then -- Make sure none of the config opts are invalid (skips missing ones)
-        config = fill_missing(output, default) -- Fill in the remaining options that are missing
-        if config.version ~= allium_version then
-            config.version = allium_version
-            file = fs.open("cfg/allium.lson", "w")
-            if file then
-                file.write(textutils.serialise(config))
-                file.close()
+    local checkForKeys
+    checkForKeys = function(default, test)
+        for key, value in pairs(default) do
+            if type(test[key]) ~= type(value) then
+                test[key] = value
+            elseif type(test[key]) == "table" then
+                checkForKeys(value, test[key])
             end
         end
-	else
-		return
-	end
+    end
+    checkForKeys(default, config)
+    return config
 end
 
+config = loadSettings("cfg/allium.lson", default)
+
 -- Checking Allium/Plugin updates
 if config.updates.allium then
     if fs.exists("cfg/repolist.csh") then -- Checking for a repolist shell executable
@@ -92,7 +59,7 @@ if config.updates.allium then
 end
 
 -- Filling Dependencies
-if config.updates.deps then
+if config.updates.dependencies then
     -- Allium DepMan Instance: https://pastebin.com/nRgBd3b6
     print("Checking for dependency updates...")
     local didrun = false

From 1466cbb9763112fd26cfb96e1343a29087f6b6e3 Mon Sep 17 00:00:00 2001
From: roger109z <roger_109g@yahoo.com>
Date: Tue, 22 Oct 2019 15:44:18 -0700
Subject: [PATCH 10/32] added a comment back

---
 startup.lua | 5 +++++
 1 file changed, 5 insertions(+)

diff --git a/startup.lua b/startup.lua
index 4a229e4..a3bfff0 100644
--- a/startup.lua
+++ b/startup.lua
@@ -6,6 +6,11 @@ if not commands then -- Attempt to prevent user from running this on non-command
 	return
 end
 
+
+--[[
+    DEFAULT ALLIUM CONFIGS ### DO NOT CHANGE THESE ###
+    Configurations can be changed in /cfg/allium.lson
+]]
 local default = {
     version = allium_version, -- Allium's version
     import_timeout = 5, -- The maximum amount of time it takes to wait for a plugin dependency to provide its module.

From d4df18424f8657d606e60d50e2947f25b4a3848c Mon Sep 17 00:00:00 2001
From: roger109z <roger_109g@yahoo.com>
Date: Wed, 23 Oct 2019 10:46:39 -0700
Subject: [PATCH 11/32] added .lson extension to config files

---
 allium.lua | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/allium.lua b/allium.lua
index 0b8af42..cbf0ed3 100644
--- a/allium.lua
+++ b/allium.lua
@@ -240,7 +240,7 @@ allium.register = function(p_name, version, fullname)
 
 	funcs.loadConfig = function(default)
 		assert(type(default) == "table", "Invalid argument #1 (table expected, got "..type(default)..")") 
-		local file = shell.path().."/cfg/"..real_name
+		local file = shell.path().."/cfg/"..real_name..".lson"
 		if not fs.exists(file) then
 			local setting = fs.open(file,"w")
 			setting.write(textutils.serialise(default))

From 8550b3c2c9a8de2e98cb5f35d29fc0d071d5b7d4 Mon Sep 17 00:00:00 2001
From: roger109z <roger_109g@yahoo.com>
Date: Wed, 23 Oct 2019 12:02:48 -0700
Subject: [PATCH 12/32] fixed improper path in loadConfig

---
 allium.lua | 7 +++++--
 1 file changed, 5 insertions(+), 2 deletions(-)

diff --git a/allium.lua b/allium.lua
index cbf0ed3..57648dc 100644
--- a/allium.lua
+++ b/allium.lua
@@ -5,7 +5,10 @@ local raisin, color, semver, mojson = require("lib.raisin"), require("lib.color"
 
 -- Internal definitions
 local allium, plugins, group = {}, {}, {thread = raisin.group(1) , command = raisin.group(2)} 
-
+local path = ""
+for str in string.gmatch(shell.getRunningProgram(), ".+[/]") do
+	path = path..str
+end
 local function print(noline, ...) -- Magical function that takes in a table and changes the text color/writes at the same time
 	local words = {...}
 	if type(noline) ~= "boolean" then
@@ -240,7 +243,7 @@ allium.register = function(p_name, version, fullname)
 
 	funcs.loadConfig = function(default)
 		assert(type(default) == "table", "Invalid argument #1 (table expected, got "..type(default)..")") 
-		local file = shell.path().."/cfg/"..real_name..".lson"
+		local file = path.."/cfg/"..real_name..".lson"
 		if not fs.exists(file) then
 			local setting = fs.open(file,"w")
 			setting.write(textutils.serialise(default))

From 1987a77f0729be9ff39207adbf0972990627f897 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Wed, 23 Oct 2019 15:17:35 -0700
Subject: [PATCH 13/32] Minor code cleanup

---
 .gitignore  | 1 +
 allium.lua  | 9 +++++----
 startup.lua | 9 +++++----
 3 files changed, 11 insertions(+), 8 deletions(-)

diff --git a/.gitignore b/.gitignore
index 8195780..45803c7 100644
--- a/.gitignore
+++ b/.gitignore
@@ -1,3 +1,4 @@
 lib/*
 cfg/*
 .DS_Store
+.vscode
\ No newline at end of file
diff --git a/allium.lua b/allium.lua
index 0b8af42..485c77f 100644
--- a/allium.lua
+++ b/allium.lua
@@ -38,7 +38,7 @@ local function getData(name) -- Extract data on user from data command
 end
 
 local function deep_copy(table) -- Recursively copy a module
-	out = {}
+	local out = {}
 	for name, func in pairs(table) do
 		if type(func) == "table" then
 			out[name] = deep_copy(func)
@@ -66,7 +66,8 @@ do -- Configuration parsing
 		printError("Invalid input configuration, make sure you're using the provided init file.")
 		return
 	end
-	allium.version, rule = semver.parse(config.version)
+	local ver, rule = semver.parse(config.version)
+	allium.version = ver
 	if not allium.version then -- Invalid Allium version
 		printError("Could not parse Allium's version (breaks SemVer rule #"..rule..")")
 		return
@@ -151,7 +152,7 @@ end
 
 allium.getPosition = function(name)
 	assert(type(name) == "string", "Invalid argument #1 (string expected, got "..type(name)..")")
-	local data = allium.getData(name)
+	local data = getData(name)
 	assert(data, "Failed to get data on user ".. name)
 	return {
 		position = data.Pos,
@@ -471,7 +472,7 @@ local interpreter = function() -- Main command interpretation thread
 	while true do
 		local _, message, _, name, uuid = os.pullEvent("chat_capture") -- Pull chat messages
 		if message:find("!") == 1 then -- Are they for allium?
-			args = {}
+			local args = {}
 			for k in message:gmatch("%S+") do -- Put all arguments spaced out into a table
 				args[#args+1] = k
 			end
diff --git a/startup.lua b/startup.lua
index a3bfff0..544d99b 100644
--- a/startup.lua
+++ b/startup.lua
@@ -1,5 +1,6 @@
 -- Allium version
-local allium_version = "0.9.0-pr1"
+-- x.x.x-pr = unstable, potential breaking changes
+local allium_version = "0.9.0-pr"
 
 if not commands then -- Attempt to prevent user from running this on non-command comps
 	printError("Allium must be run on a command computer")
@@ -23,7 +24,7 @@ local default = {
 
 --load settings from file
 local loadSettings = function(file, default)
-    assert(type(file) == "string", "file must be a string")  
+    assert(type(file) == "string", "file must be a string")
     if not fs.exists(file) then
         local setting = fs.open(file,"w")
         setting.write(textutils.serialise(default))
@@ -51,7 +52,7 @@ local loadSettings = function(file, default)
     return config
 end
 
-config = loadSettings("cfg/allium.lson", default)
+local config = loadSettings("cfg/allium.lson", default)
 
 -- Checking Allium/Plugin updates
 if config.updates.allium then
@@ -70,7 +71,7 @@ if config.updates.dependencies then
     local didrun = false
     parallel.waitForAll(function()
         didrun = shell.run("pastebin run nRgBd3b6 upgrade https://pastebin.com/raw/fisfxn76 /cfg/deps.lson /lib "..allium_version)
-    end, 
+    end,
     function()
         multishell.setTitle(multishell.getCurrent(), "depman")
     end)

From c1e69535fbbfb92046e107e4dfe9ea2daafd412e Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Wed, 23 Oct 2019 15:18:42 -0700
Subject: [PATCH 14/32] Fix plugin import issues

The entire system was just incomplete. I don't know how I missed it for so long.
---
 allium.lua | 35 +++++++++++++++++------------------
 1 file changed, 17 insertions(+), 18 deletions(-)

diff --git a/allium.lua b/allium.lua
index 485c77f..5eff4a3 100644
--- a/allium.lua
+++ b/allium.lua
@@ -218,7 +218,8 @@ allium.register = function(p_name, version, fullname)
 	assert(plugins[real_name] == nil, "Invalid argument #1 (plugin exists under name "..real_name..")")
 	local version, rule = semver.parse(version)
 	assert(type(version) == "table", "Invalid argument #2 (malformed SemVer, breaks rule "..(rule or "")..")")
-	plugins[real_name] = {commands = {}, name = fullname or p_name, version = version}
+	local loaded = {}
+	plugins[real_name] = {commands = {}, loaded = loaded, name = fullname or p_name, version = version}
 	local funcs, this = {}, plugins[real_name]
 	
 	funcs.command = function(c_name, command, info) -- name: name | command: executing function | info: help information
@@ -315,28 +316,26 @@ allium.register = function(p_name, version, fullname)
 	funcs.import = function(p_name) -- request the API from a specific plugin
 		assert(type(p_name) == "string", "Invalid argument #1 (string expected, got "..type(p_name)..")")
 		p_name = allium.sanitize(p_name)
+		assert(p_name == real_name, real_name.." attempted to load self. What made you think you could do this?")
 		local timer = os.startTimer(config.import_timeout or 5)
-		repeat
-			local e = {os.pullEvent()}
-		until (e[1] == "timer" and e[2] == timer) or (plugins[p_name] and plugins[p_name].module)
-		if not plugins[p_name] and plugins[p_name].module then
+		parallel.waitForAny(function()
+			repeat
+				local e = {os.pullEvent()}
+			until (e[1] == "timer" and e[2] == timer) or (plugins[p_name] and plugins[p_name].module)
+		end, function()
+			repeat
+				sleep()
+			until plugins[p_name].module
+		end)
+		if not plugins[p_name].module then
 			return false
 		end
-		for being_loaded, loaded_plugins in pairs(loaded) do -- Plugin being loaded, plugins that the plugin being loaded has loaded
-			if being_loaded == p_name then
-				for i = 1, #loaded_plugins do
-					if loaded_plugins[i] == real_name then
-						return false
-					end
-				end
-				break
+		for i = 1, #plugins[p_name].loaded do
+			if plugins[p_name].loaded[i] == real_name then
+				error("Cannot import "..p_name.."Circular dependencies with "..real_name.." and "..plugins[p_name].loaded[i])
 			end
 		end
-		if loaded[real_name] then
-			loaded[real_name][#loaded[real_name]+1] = p_name
-		else
-			loaded[real_name] = {p_name}
-		end
+		loaded[#loaded+1] = p_name
 		return deep_copy(plugins[p_name].module)
 	end
 

From 63509416aad99f276c5001da1b8830d2760b9ad8 Mon Sep 17 00:00:00 2001
From: roger109z <roger_109g@yahoo.com>
Date: Wed, 23 Oct 2019 15:20:58 -0700
Subject: [PATCH 15/32] unabsoluted paths

---
 allium.lua  | 17 ++++++++---------
 startup.lua | 17 +++++++++++------
 2 files changed, 19 insertions(+), 15 deletions(-)

diff --git a/allium.lua b/allium.lua
index 57648dc..1a72c1e 100644
--- a/allium.lua
+++ b/allium.lua
@@ -5,7 +5,7 @@ local raisin, color, semver, mojson = require("lib.raisin"), require("lib.color"
 
 -- Internal definitions
 local allium, plugins, group = {}, {}, {thread = raisin.group(1) , command = raisin.group(2)} 
-local path = ""
+local path = "/"
 for str in string.gmatch(shell.getRunningProgram(), ".+[/]") do
 	path = path..str
 end
@@ -274,8 +274,8 @@ allium.register = function(p_name, version, fullname)
 
 	funcs.getPersistence = function(name)
 		assert(type(name) ~= "nil", "Invalid argument #1 (expected anything but nil, got "..type(name)..")")
-		if fs.exists("cfg/persistence.lson") then
-			local fper = fs.open("cfg/persistence.lson", "r")
+		if fs.exists(path.."cfg/persistence.lson") then
+			local fper = fs.open(path.."cfg/persistence.lson", "r")
 			local tpersist = textutils.unserialize(fper.readAll())
 			fper.close()
 			if not tpersist[real_name] then
@@ -296,7 +296,7 @@ allium.register = function(p_name, version, fullname)
 		end
 		if type(name) == "string" then
 			tpersist[real_name][name] = data
-			local fpers = fs.open("cfg/persistence.lson", "w")
+			local fpers = fs.open(path.."cfg/persistence.lson", "w")
 			if not fpers then 
 				return false 
 			end
@@ -444,9 +444,8 @@ do -- Plugin loading process
 			end
 		end
 	end
-	local dir = shell.dir()
-	if fs.exists(dir.."/plugins") then
-		scopeDown(dir.."/plugins")
+	if fs.exists(path.."/plugins") then
+		scopeDown(path.."/plugins")
 	end
 	raisin.manager.runGroup(loader_group)
 end
@@ -596,8 +595,8 @@ end
 raisin.thread(interpreter, 0)
 raisin.thread(scanner, 1)
 
-if not fs.exists("cfg/persistence.lson") then --In the situation that this is a first installation, let's do some setup
-	local fpers = fs.open("cfg/persistence.lson", "w")
+if not fs.exists(path.."cfg/persistence.lson") then --In the situation that this is a first installation, let's do some setup
+	local fpers = fs.open(path.."cfg/persistence.lson", "w")
 	fpers.write("{}")
 	fpers.close()
 end
diff --git a/startup.lua b/startup.lua
index a3bfff0..fa48af3 100644
--- a/startup.lua
+++ b/startup.lua
@@ -1,6 +1,11 @@
 -- Allium version
 local allium_version = "0.9.0-pr1"
 
+local path = "/"
+for str in string.gmatch(shell.getRunningProgram(), ".+[/]") do
+	path = path..str
+end
+
 if not commands then -- Attempt to prevent user from running this on non-command comps
 	printError("Allium must be run on a command computer")
 	return
@@ -51,14 +56,14 @@ local loadSettings = function(file, default)
     return config
 end
 
-config = loadSettings("cfg/allium.lson", default)
+config = loadSettings(path.."cfg/allium.lson", default)
 
 -- Checking Allium/Plugin updates
 if config.updates.allium then
-    if fs.exists("cfg/repolist.csh") then -- Checking for a repolist shell executable
+    if fs.exists(path.."cfg/repolist.csh") then -- Checking for a repolist shell executable
         -- Update all plugins and programs on the repolist
-        for line in io.lines("cfg/repolist.csh") do
-            shell.run(line)
+        for line in io.lines(path.."cfg/repolist.csh") do
+            shell.run(path..line)
         end
     end
 end
@@ -69,7 +74,7 @@ if config.updates.dependencies then
     print("Checking for dependency updates...")
     local didrun = false
     parallel.waitForAll(function()
-        didrun = shell.run("pastebin run nRgBd3b6 upgrade https://pastebin.com/raw/fisfxn76 /cfg/deps.lson /lib "..allium_version)
+        didrun = shell.run("pastebin run nRgBd3b6 upgrade "..path.." https://pastebin.com/raw/fisfxn76 "..path.."/cfg/deps.lson "..path.."/lib "..allium_version)
     end, 
     function()
         multishell.setTitle(multishell.getCurrent(), "depman")
@@ -88,7 +93,7 @@ term.setCursorPos(1, 1)
 
 -- Running Allium
 multishell.setTitle(multishell.getCurrent(), "Allium")
-os.run(_ENV, "allium.lua", config)
+os.run(_ENV, path.."allium.lua", config)
 
 -- Removing all captures
 for _, side in pairs(peripheral.getNames()) do -- Finding the chat module

From daac8d69784087f326b75d22798bd7c3f878e854 Mon Sep 17 00:00:00 2001
From: roger109z <roger_109g@yahoo.com>
Date: Wed, 23 Oct 2019 16:18:32 -0700
Subject: [PATCH 16/32] Fixed label

---
 startup.lua | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/startup.lua b/startup.lua
index fa48af3..0891683 100644
--- a/startup.lua
+++ b/startup.lua
@@ -19,7 +19,7 @@ end
 local default = {
     version = allium_version, -- Allium's version
     import_timeout = 5, -- The maximum amount of time it takes to wait for a plugin dependency to provide its module.
-    label = "<&r&dAll&5&h[[Killroy wuz here.]]&i[[https://www.youtube.com/watch?v=XqZsoesa55w&t=15s]]i&r&dum&r> ", -- The label the loader uses
+    label = "<&r&dAll&5&h[[Killroy wuz here.]]&i[[https://www.youtube.com/watch?v=XqZsoesa55w\\&t=15s]]i&r&dum&r> ", -- The label the loader uses
     updates = { -- Various auto-update configurations. Server operators may want to change this from the default
         deps = true, -- Automatically update dependencies
         allium = true -- Automatically update allium

From 282c1eee5752beb47364246b4a5dc456efe8c832 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Wed, 23 Oct 2019 16:46:30 -0700
Subject: [PATCH 17/32] Redirect depman

Untested and probably will fail
---
 startup.lua | 15 +++++++++------
 1 file changed, 9 insertions(+), 6 deletions(-)

diff --git a/startup.lua b/startup.lua
index f22aa1d..d77ceee 100644
--- a/startup.lua
+++ b/startup.lua
@@ -12,7 +12,6 @@ if not commands then -- Attempt to prevent user from running this on non-command
 	return
 end
 
-
 --[[
     DEFAULT ALLIUM CONFIGS ### DO NOT CHANGE THESE ###
     Configurations can be changed in /cfg/allium.lson
@@ -71,14 +70,18 @@ end
 
 -- Filling Dependencies
 if config.updates.dependencies then
-    -- Allium DepMan Instance: https://pastebin.com/nRgBd3b6
+    -- Allium DepMan Instance & Listing: https://github.com/hugeblank/allium-depman/
     print("Checking for dependency updates...")
     local didrun = false
     parallel.waitForAll(function()
-        didrun = shell.run("pastebin run nRgBd3b6 upgrade "..path.." https://pastebin.com/raw/fisfxn76 "..path.."/cfg/deps.lson "..path.."/lib "..allium_version)
-    end, 
-
-    function()
+        local ipath = path.."instance.lua"
+        if fs.exists(ipath) then
+            fs.delete(ipath)
+        end
+        didrun = shell.run("wget https://raw.githubusercontent.com/hugeblank/allium-depman/master/instance.lua "..ipath)
+        if not didrun then return end
+        didrun = shell.run(ipath.." upgrade "..path.." https://raw.githubusercontent.com/hugeblank/allium-depman/master/listing.lson "..path.."/cfg/deps.lson "..path.."/lib "..allium_version)
+    end, function()
         multishell.setTitle(multishell.getCurrent(), "depman")
     end)
     if not didrun then

From c7a87f1db2fe4c53ac00ff2a5713e6ea1ca746b9 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Wed, 23 Oct 2019 16:58:51 -0700
Subject: [PATCH 18/32] Fix version getting overwritten in config

---
 startup.lua | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

diff --git a/startup.lua b/startup.lua
index d77ceee..d0bf661 100644
--- a/startup.lua
+++ b/startup.lua
@@ -30,9 +30,11 @@ local default = {
 local loadSettings = function(file, default)
     assert(type(file) == "string", "file must be a string")
     if not fs.exists(file) then
-        local setting = fs.open(file,"w")
+        local setting, v = fs.open(file,"w"), default.version
+        default.version = nil
         setting.write(textutils.serialise(default))
         setting.close()
+        default.version = v
         return default
     end
     local setting = fs.open(file, "r")

From 593fde3dbc0bffe495b3f789455eda9c7b2bd9d8 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Thu, 24 Oct 2019 00:30:35 -0700
Subject: [PATCH 19/32] deps ~= dependencies

duh
---
 startup.lua | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/startup.lua b/startup.lua
index d0bf661..f439156 100644
--- a/startup.lua
+++ b/startup.lua
@@ -18,10 +18,10 @@ end
 ]]
 local default = {
     version = allium_version, -- Allium's version
-    import_timeout = 5, -- The maximum amount of time it takes to wait for a plugin dependency to provide its module.
     label = "<&r&dAll&5&h[[Killroy wuz here.]]&i[[https://www.youtube.com/watch?v=XqZsoesa55w\\&t=15s]]i&r&dum&r> ", -- The label the loader uses
+    import_timeout = 5, -- The maximum amount of time it takes to wait for a plugin dependency to provide its module.
     updates = { -- Various auto-update configurations. Server operators may want to change this from the default
-        deps = true, -- Automatically update dependencies
+        dependencies = true, -- Automatically update dependencies
         allium = true -- Automatically update allium
     }
 }

From 7c73b3a9b49dcec24dbbf4487686c552145e7195 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Thu, 24 Oct 2019 02:15:16 -0700
Subject: [PATCH 20/32] Logging methods

- added allium.log/warn so that you can warn using the fancy system. You're welcome.
- Reworked print function because it had to be done
---
 allium.lua | 74 +++++++++++++++++++++++++++++++-----------------------
 1 file changed, 43 insertions(+), 31 deletions(-)

diff --git a/allium.lua b/allium.lua
index f13fe52..0b8df9c 100644
--- a/allium.lua
+++ b/allium.lua
@@ -4,31 +4,35 @@
 local raisin, color, semver, mojson = require("lib.raisin"), require("lib.color"), require("lib.semver"), require("lib.mojson")
 
 -- Internal definitions
-local allium, plugins, group = {}, {}, {thread = raisin.group(1) , command = raisin.group(2)} 
+local allium, plugins, group = {}, {}, {thread = raisin.group(1) , command = raisin.group(2)}
+
+-- Executing path
 local path = "/"
 for str in string.gmatch(shell.getRunningProgram(), ".+[/]") do
 	path = path..str
 end
-local function print(noline, ...) -- Magical function that takes in a table and changes the text color/writes at the same time
-	local words = {...}
-	if type(noline) ~= "boolean" then
-		table.insert(words, 1, noline)
-		noline = false
-	end
-	local text_color = term.getTextColor()
-	for i = 1, #words do
-		if type(words[i]) == "number" then
-			term.setTextColor(words[i])
-		elseif type(words[i]) == "table" then
-			print(unpack(words[i]))
-		else
-			write(tostring(words[i]))
+
+-- Defining custom print
+local nprint = _G.print
+local function print(prefix, wcText, ...) -- Magical function that takes in a table and changes the text color/writes at the same time
+	local color = term.getTextColor()
+	local function writeColor(cdata)
+		for i = 1, #cdata do
+			if type(cdata[i]) == "string" then
+				write(cdata[i])
+			else
+				term.setTextColor(cdata[i])
+			end
 		end
+		term.setTextColor(color)
 	end
-	if not noline then
-		write("\n")
+	writeColor(prefix)
+	if wcText then
+		writeColor({...})
+		nprint()
+	else
+		nprint(...)
 	end
-	term.setTextColor(text_color)
 end
 
 local function getData(name) -- Extract data on user from data command
@@ -57,9 +61,9 @@ local function assert(condition, message, level)
 end
 
 local cli = {
-	info = {true, "[", colors.lime, "I", colors.white, "] "}, 
-	warn = {true, "[", colors.yellow, "W", colors.white, "] "},
-	error = {true, "[", colors.red, "E", colors.white, "] "}
+	info = {"[", colors.lime, "I", colors.white, "] "}, 
+	warn = {"[", colors.yellow, "W", colors.white, "] "},
+	error = {"[", colors.red, "E", colors.white, "] "}
 }
 
 
@@ -107,8 +111,8 @@ do -- Allium image setup <3
 	term.setCursorPos(1, 1)
 	term.setBackgroundColor(colors.black) -- Reset terminal and cursor
 	term.setTextColor(colors.white)
-	print(cli.info, "Loading ", colors.magenta, "All", colors.purple, "i", colors.magenta, "um")
-	print(cli.info, "Initializing API")
+	print(cli.info, true, "Loading ", colors.magenta, "All", colors.purple, "i", colors.magenta, "um")
+	print(cli.info, false, "Initializing API")
 end
 
 allium.assert = assert
@@ -118,6 +122,14 @@ allium.sanitize = function(name)
 	return name:lower():gsub(" ", "_"):gsub("[^a-z0-9_]", "")
 end
 
+allium.log = function(...)
+	print(cli.info, false, ...)
+end
+
+allium.warn = function(...)
+	print(cli.warn, false, ...)
+end
+
 allium.tell = function(name, message, alt_name)
 	assert(type(name) == "string", "Invalid argument #1 (expected string, got "..type(name)..")")
     assert(type(message) == "string" or type(message) == "table", "Invalid argument #2 (expected string or table, got "..type(message)..")")
@@ -408,7 +420,7 @@ for _, side in pairs(peripheral.getNames()) do -- Finding the chat module
 	if allium.side then break end
 end
 if not allium.side then
-	print(cli.warn, "Allium could not find chat module")
+	print(cli.warn, false, "Allium could not find chat module")
 end
 
 -- Packaging the Allium API
@@ -417,24 +429,24 @@ if not package.preload["allium"] then
 		return allium 
 	end
 else
-	print(cli.error, "Another instance of Allium is already running")
+	print(cli.error, false, "Another instance of Allium is already running")
 	return
 end
 
 do -- Plugin loading process
-	print(cli.info, "Loading plugins")
+	print(cli.info, false, "Loading plugins")
 	local loader_group = raisin.group(1)
 	local function scopeDown(dir)
 		for _, plugin in pairs(fs.list(dir)) do
 			if (not fs.isDir(dir.."/"..plugin)) and plugin:find(".lua") then
 				local file, err = loadfile(dir.."/"..plugin, _ENV)
 				if not file then
-					print(cli.error, err)
+					print(cli.error, false, err)
 				else
 					local thread = function()
 						local suc, err = pcall(file)
 						if not suc then
-							print(cli.error, err)
+							print(cli.error, false, err)
 						end
 					end
 					raisin.thread(thread, 0, loader_group)
@@ -554,7 +566,7 @@ local interpreter = function() -- Main command interpretation thread
 							"&4!"..cmd_exec.command.." crashed! This is likely not your fault, but the developer's. Please contact the developer of &a"..cmd_exec.plugin.."&4. Error:",
 							"&c&h[[Click here to place error into chat prompt, so you may copy it if needed for an issue report]]&s[["..err.."]]"..err.."&r"
 						})
-						print(cli.warn, cmd.." | "..err)
+						print(cli.warn, false, cmd.." | "..err)
 					end
 				end
 				raisin.thread(exec_command, 0, group.command)
@@ -587,7 +599,7 @@ local scanner = function() -- Login/out scanner thread
 				end
 			end
 		else
-			print(cli.warn, "Could not list online players, skipping tick.")
+			print(cli.warn, false, "Could not list online players, skipping tick.")
 		end
     end
 end
@@ -601,7 +613,7 @@ if not fs.exists(path.."cfg/persistence.lson") then --In the situation that this
 	fpers.close()
 end
 
-print(cli.info, "Allium started.")
+print(cli.info, false, "Allium started.")
 allium.tell("@a", "&eHello World!")
 raisin.manager.run()
 

From 17e9de006a538e2d63df453870bb35c72289da06 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Thu, 24 Oct 2019 02:31:55 -0700
Subject: [PATCH 21/32] Modify depman downloading

Stopped it from being saved on disk
---
 startup.lua | 19 ++++++-------------
 1 file changed, 6 insertions(+), 13 deletions(-)

diff --git a/startup.lua b/startup.lua
index f439156..b946371 100644
--- a/startup.lua
+++ b/startup.lua
@@ -74,20 +74,13 @@ end
 if config.updates.dependencies then
     -- Allium DepMan Instance & Listing: https://github.com/hugeblank/allium-depman/
     print("Checking for dependency updates...")
-    local didrun = false
-    parallel.waitForAll(function()
-        local ipath = path.."instance.lua"
-        if fs.exists(ipath) then
-            fs.delete(ipath)
-        end
-        didrun = shell.run("wget https://raw.githubusercontent.com/hugeblank/allium-depman/master/instance.lua "..ipath)
-        if not didrun then return end
-        didrun = shell.run(ipath.." upgrade "..path.." https://raw.githubusercontent.com/hugeblank/allium-depman/master/listing.lson "..path.."/cfg/deps.lson "..path.."/lib "..allium_version)
-    end, function()
-        multishell.setTitle(multishell.getCurrent(), "depman")
-    end)
+    local didrun, err
+    didrun = http.get("https://raw.githubusercontent.com/hugeblank/allium-depman/master/instance.lua")
+    if didrun then
+        didrun, err = pcall(load(didrun.readAll(), "Depman", nil, _ENV), "upgrade", path, "https://raw.githubusercontent.com/hugeblank/allium-depman/master/listing.lson", path.."/cfg/deps.lson", path.."/lib", allium_version)
+    end
     if not didrun then
-        printError("Could not update dependencies")
+        printError("Could not update dependencies: "..(err or "Failed to download instance"))
         return
     end
 end

From d4f3f6ceda1fab5e4c9141cd43d06f4b4c173446 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Thu, 24 Oct 2019 02:34:23 -0700
Subject: [PATCH 22/32] Update allium-stem plugin

- Added 'position_x/y/z' infill
- Brought parsing block into help command as a result
---
 plugins/allium-stem.lua | 221 +++++++++++++++++++++-------------------
 1 file changed, 117 insertions(+), 104 deletions(-)

diff --git a/plugins/allium-stem.lua b/plugins/allium-stem.lua
index 9c48a59..e569d18 100644
--- a/plugins/allium-stem.lua
+++ b/plugins/allium-stem.lua
@@ -1,121 +1,133 @@
 local allium = require("allium")
-local stem = allium.register("allium", "0.4.2", "Allium Stem")
-local addDetails
-do -- Just a block for organization of command parsing stuffs
-	local function infill(variant, execute)
-		local out = {}
-		if variant == "username" then
-			local players = allium.getPlayers()
-			for i = 1, #players do
-				out[#out+1] = " &6-&r &g[["..execute..players[i].." ]]&h[[Click to add user "..players[i].."]]&a"..players[i]
-			end
-		elseif variant == "plugin" then
-			local list = allium.getInfo()
-			for plugin in pairs(list) do
-				out[#out+1] = " &6-&r &g[["..execute..plugin.." ]]&h[[Click to add plugin "..plugin.."]]&a"..plugin
-			end
-		elseif variant == "command" then
-			local list = allium.getInfo()
-			for plugin, v in pairs(list) do
-				for command in pairs(v) do
-					local rawcmd = command
-					local command = plugin..":"..command
-					out[#out+1] = " &6-&r &g[["..execute..command.." ]]&h[[Click to add command !"..rawcmd.."]]&a!"..command
+local stem = allium.register("allium", "0.5.0", "Allium Stem") --UPDATE THIS
+
+local help = function(name, args, data)
+	local cmds_per, page = 8, 1 -- Turn this into a per-user persistence preference
+	local info = {}
+	local out_str = ""
+	local addDetails
+	local next_command = "!allium:help "
+
+	do -- Just a block for organization of command parsing stuffs
+		local function infill(variant, execute)
+			local out = {}
+			if type(variant) == "string" then
+				if variant == "username" then
+					local players = allium.getPlayers()
+					for i = 1, #players do
+						out[#out+1] = " &6-&r &g[["..execute..players[i].." ]]&h[[Click to add user "..players[i].."]]&a"..players[i]
+					end
+				elseif variant == "plugin" then
+					local list = allium.getInfo()
+					for plugin in pairs(list) do
+						out[#out+1] = " &6-&r &g[["..execute..plugin.." ]]&h[[Click to add plugin "..plugin.."]]&a"..plugin
+					end
+				elseif variant == "command" then
+					local list = allium.getInfo()
+					for plugin, v in pairs(list) do
+						for command in pairs(v) do
+							local rawcmd = command
+							local command = plugin..":"..command
+							out[#out+1] = " &6-&r &g[["..execute..command.." ]]&h[[Click to add command !"..rawcmd.."]]&a!"..command
+						end
+					end
+				elseif variant:sub(1, -2) == "position_" then
+					local position = allium.getPosition(name).position
+					if variant:sub(-1, -1) == "x" then
+						out[#out+1] = " &6-&r &g[["..execute..position[1].." ]]&h[[Click to add your x position]]&a"..position[1]
+					elseif variant:sub(-1, -1) == "y" then
+						out[#out+1] = " &6-&r &g[["..execute..position[2].." ]]&h[[Click to add your y position]]&a"..position[2]
+					elseif variant:sub(-1, -1) == "z" then
+						out[#out+1] = " &6-&r &g[["..execute..position[3].." ]]&h[[Click to add your z position]]&a"..position[3]
+					end
+				end
+			elseif type(variant) == "function" or type(variant) == "table" then
+				local result = {}
+				if type(variant) == "function" then
+					result = variant()
+				else
+					result = variant
+				end
+				for i = 1, #result do
+					if type(result[i]) == "string" and not result[i]:find("=") then
+						out[#out+1] = " &6-&r &g[["..execute..result[i].." ]]&h[[Click to add "..result[i].."]]&a"..result[i]
+					end
 				end
 			end
-		elseif type(variant) == "function" or type(variant) == "table" then
-			local result = {}
-			if type(variant) == "function" then
-				result = variant()
+			return out
+		end
+
+		local function parse(label, data, execute)
+			local prefix, postfix, execution, hover, information = "&6 - &r<&a", "&r>:", "", ""
+			if type(data[1]) == "string" then
+				information = data[1]
 			else
-				result = variant
+				information = "&oNo information found"
+			end
+			if data.optional == true then
+				prefix, postfix = "&6 - &r[&a", "&r]:"
 			end
-			for i = 1, #result do
-				if type(result[i]) == "string" and not result[i]:find("=") then
-					out[#out+1] = " &6-&r &g[["..execute..result[i].." ]]&h[[Click to add "..result[i].."]]&a"..result[i]
+			if data.clickable == true or data.clickable == nil then
+				hover, execution = "Click to add this parameter", execute..label
+				if type(data.infill) == "string" then
+					execution = execution.."="
 				end
 			end
-		end
-		return out
-	end
-
-	local function parse(label, data, execute)
-		local prefix, postfix, execution, hover, information = "&6 - &r<&a", "&r>:", "", ""
-		if type(data[1]) == "string" then
-			information = data[1]
-		else
-			information = "&oNo information found"
-		end
-		if data.optional == true then
-			prefix, postfix = "&6 - &r[&a", "&r]:"
-		end
-		if data.clickable == true or data.clickable == nil then
-			hover, execution = "Click to add this parameter", execute..label
-			if type(data.infill) == "string" then
-				execution = execution.."="
+			if data.default and tostring(data.default) then -- Overrides infill. default and infill shouldn't even be used in the same place anyways.
+				execution = execute..label.."=\"\""..data.default.."\"\"" -- Quoting a quote so it gets placed in chat properly
 			end
+			local meta = ""
+			if #execution ~= 0 then
+				meta = meta.."&g[["..execution.."]]"
+			end
+			if #hover ~= 0 then
+				meta = meta.."&h[["..hover.."]]"
+			end
+			return prefix..meta..label..postfix.." "..information
 		end
-		if data.default and tostring(data.default) then -- Overrides infill. default and infill shouldn't even be used in the same place anyways.
-			execution = execute..label.."=\"\""..data.default.."\"\"" -- Quoting a quote so it gets placed in chat properly
-		end
-		local meta = ""
-		if #execution ~= 0 then
-			meta = meta.."&g[["..execution.."]]"
-		end
-		if #hover ~= 0 then
-			meta = meta.."&h[["..hover.."]]"
-		end
-		return prefix..meta..label..postfix.." "..information
-	end
 
-	addDetails = function(info, args, execute, command) 
-		if not args[1] then
-				-- We're at the end of parsing and should render possible fields
-				local out = {}
-				if info then
-					for k, v in pairs(info) do
-						if type(v) == "table" then
-							out[#out+1] = parse(k, v, execute)
+		addDetails = function(info, args, execute, command)
+			if not args[1] then --or info then
+					-- We're at the end of parsing and should render possible fields
+					local out = {}
+					if info then
+						for k, v in pairs(info) do
+							if type(v) == "table" then
+								out[#out+1] = parse(k, v, execute)
+							end
 						end
 					end
+					if #out == 0 or not info then
+						out = {" &6-&a No more parameters to add!", " &6-&a Click &r&c&h[[Click to run command]]&g[["..command.."]]here&r&a to run the command", " &6- &eOR&a click on the first line to add the command to the chat input."}
+					end
+					return out, command
+			else -- Otherwise things are going totally as planned and we should just recurse onwards
+				local param_data = {}
+				local is_tag = args[1]:find("=")
+				if is_tag then
+					param_data.param = args[1]:sub(1, is_tag-1)
+					param_data.tag = args[1]:sub(is_tag+1, -1)
+					table.remove(args, 1)
+				else
+					param_data.param = table.remove(args, 1)
 				end
-				if #out == 0 or not info then
-					out = {" &6-&a No more parameters to add!", " &6-&a Click &r&c&h[[Add command to chat input]]&s[["..command.."]]here&r&a, or the red command to add it to your chat input."}
-				end
-				return out, command
-		else -- Otherwise things are going totally as planned and we should just recurse onwards
-			local param_data = {}
-			local is_tag = args[1]:find("=")
-			if is_tag then
-				param_data.param = args[1]:sub(1, is_tag-1)
-				param_data.tag = args[1]:sub(is_tag+1, -1)
-				table.remove(args, 1)
-			else
-				param_data.param = table.remove(args, 1)
-			end
-			if is_tag and #param_data.tag == 0 then
-				-- If the parameter is an infill thing, and doesn't have a value attached to it:
-				if not (info[param_data.param] and info[param_data.param].infill) then
-					return "Missing infill information"
+				if is_tag and #param_data.tag == 0 then
+					-- If the parameter is an infill thing, and doesn't have a value attached to it:
+					if not (info[param_data.param] and info[param_data.param].infill) then
+						return "Missing infill information"
+					end
+					return infill(info[param_data.param].infill, execute..param_data.param.."="), command
+				elseif param_data.tag then
+					execute = execute..param_data.param.."="..param_data.tag.." "
+					command = command..param_data.tag.." "
+				else
+					execute = execute..param_data.param.." "
+					command = command..param_data.param.." "
 				end
-				return infill(info[param_data.param].infill, execute..param_data.param.."="), command
-			elseif param_data.tag then
-				execute = execute..param_data.param.."="..param_data.tag.." "
-				command = command..param_data.tag.." "
-			else
-				execute = execute..param_data.param.." "
-				command = command..param_data.param.." "
+				return addDetails(info[param_data.param], args, execute, command)
 			end
-			return addDetails(info[param_data.param], args, execute, command)
 		end
 	end
-end
-
-local help = function(name, args, data)
-	local cmds_per, page = 7, 1 -- Turn this into a per-user persistence preference
-	local info = {}
-	local out_str = ""
-	local next_command = "!allium:help "
 
 	local function run()
 		for i = (cmds_per*(page-1))+1, (cmds_per*page) do
@@ -123,7 +135,7 @@ local help = function(name, args, data)
 				out_str = out_str..info[i].."\\n"
 			end
 		end
-		if out_str == "" or page <= 0 then
+		if #out_str == 0 or page <= 0 then
 			data.error("Page does not exist.")
 			return
 		end
@@ -134,8 +146,9 @@ local help = function(name, args, data)
 		allium.tell(name, out_str, true)
 	end
 
-	if tonumber(args[#args]) then
-		page = tonumber(args[#args])
+	local pagenum = tonumber(args[#args])
+	if pagenum and pagenum == math.ceil(pagenum) then
+		page = pagenum
 		args[#args] = nil
 	end
 

From 1c5240bc5b4ffab53c3875d239db948f36761c13 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Thu, 24 Oct 2019 20:28:48 -0700
Subject: [PATCH 23/32] Protect commands from crashing Allium

---
 allium.lua | 24 +++++++++++++++---------
 1 file changed, 15 insertions(+), 9 deletions(-)

diff --git a/allium.lua b/allium.lua
index 0b8df9c..c7614ff 100644
--- a/allium.lua
+++ b/allium.lua
@@ -112,7 +112,7 @@ do -- Allium image setup <3
 	term.setBackgroundColor(colors.black) -- Reset terminal and cursor
 	term.setTextColor(colors.white)
 	print(cli.info, true, "Loading ", colors.magenta, "All", colors.purple, "i", colors.magenta, "um")
-	print(cli.info, false, "Initializing API")
+	allium.log("Initializing API")
 end
 
 allium.assert = assert
@@ -252,7 +252,13 @@ allium.register = function(p_name, version, fullname)
 	funcs.thread = function(thread)
 		-- Add a thread that repeatedly iterates
 		assert(type(thread) == "function", "Invalid argument #1 (function expected, got "..type(thread)..")")
-		return raisin.thread(thread, 0, group.thread)
+		local wrapper = function()
+			local s, e = pcall(thread)
+			if not s then
+				allium.warn("Thread in "..real_name.." | "..e)
+			end
+		end
+		return raisin.thread(wrapper, 0, group.thread)
 	end
 
 	funcs.loadConfig = function(default)
@@ -420,7 +426,7 @@ for _, side in pairs(peripheral.getNames()) do -- Finding the chat module
 	if allium.side then break end
 end
 if not allium.side then
-	print(cli.warn, false, "Allium could not find chat module")
+	allium.warn("Allium could not find chat module")
 end
 
 -- Packaging the Allium API
@@ -434,7 +440,7 @@ else
 end
 
 do -- Plugin loading process
-	print(cli.info, false, "Loading plugins")
+	allium.log("Loading plugins")
 	local loader_group = raisin.group(1)
 	local function scopeDown(dir)
 		for _, plugin in pairs(fs.list(dir)) do
@@ -566,7 +572,7 @@ local interpreter = function() -- Main command interpretation thread
 							"&4!"..cmd_exec.command.." crashed! This is likely not your fault, but the developer's. Please contact the developer of &a"..cmd_exec.plugin.."&4. Error:",
 							"&c&h[[Click here to place error into chat prompt, so you may copy it if needed for an issue report]]&s[["..err.."]]"..err.."&r"
 						})
-						print(cli.warn, false, cmd.." | "..err)
+						allium.warn(cmd.." | "..err)
 					end
 				end
 				raisin.thread(exec_command, 0, group.command)
@@ -577,7 +583,7 @@ local interpreter = function() -- Main command interpretation thread
 	end
 end
 
-local scanner = function() -- Login/out scanner thread
+local player_scanner = function() -- Login/out scanner thread
     local online = {}
     while true do
         local cur_players = allium.getPlayers()
@@ -599,13 +605,13 @@ local scanner = function() -- Login/out scanner thread
 				end
 			end
 		else
-			print(cli.warn, false, "Could not list online players, skipping tick.")
+			allium.warn("Could not list online players, skipping tick.")
 		end
     end
 end
 
 raisin.thread(interpreter, 0)
-raisin.thread(scanner, 1)
+raisin.thread(player_scanner, 1)
 
 if not fs.exists(path.."cfg/persistence.lson") then --In the situation that this is a first installation, let's do some setup
 	local fpers = fs.open(path.."cfg/persistence.lson", "w")
@@ -613,7 +619,7 @@ if not fs.exists(path.."cfg/persistence.lson") then --In the situation that this
 	fpers.close()
 end
 
-print(cli.info, false, "Allium started.")
+allium.log("Allium started.")
 allium.tell("@a", "&eHello World!")
 raisin.manager.run()
 

From eb889b1840412feec134dc8e60a76d97f7d58482 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Fri, 25 Oct 2019 23:52:42 -0700
Subject: [PATCH 24/32] Grand Config Rewrite

- Added Small button UI to terminate, reboot, shutdown, and update Allium when requested
- Automatic updates have been removed in favor of giving notifications
- Allowed restart time-out value to be configurable, when Allium crashes.
- Added scan task to depman to allow for checking if dependencies need updating
- Added a first-run phase to startup
- tweaked how the version is handled internally
- typo in prior commit title, meant threads. oops.
- Finally, THIS IS A PRE-RELEASE. It's janky, and definitely not expected to work perfectly. I need to rewrite the config loading process...
---
 allium.lua  | 108 ++++++++++++++++++++++++++++++----
 startup.lua | 164 +++++++++++++++++++++++++++++++++++++++++++---------
 2 files changed, 234 insertions(+), 38 deletions(-)

diff --git a/allium.lua b/allium.lua
index c7614ff..b1b0b3f 100644
--- a/allium.lua
+++ b/allium.lua
@@ -66,6 +66,14 @@ local cli = {
 	error = {"[", colors.red, "E", colors.white, "] "}
 }
 
+-- Logging wrapper functions
+allium.log = function(...)
+	print(cli.info, false, ...)
+end
+
+allium.warn = function(...)
+	print(cli.warn, false, ...)
+end
 
 local config = ...
 do -- Configuration parsing
@@ -81,6 +89,7 @@ do -- Configuration parsing
 	end
 end
 
+local main -- Main terminal window Allium is outputting to
 do -- Allium image setup <3
 	local image = {
 		"  2a2",
@@ -107,7 +116,7 @@ do -- Allium image setup <3
 		term.setCursorPos(x-7, cy+1)
 	end
 	local win = window.create(term.current(), 1, 1, x-9, y, true) -- Create a window to prevent text from writing over the image
-	term.redirect(win) -- Redirect the terminal
+	main = term.redirect(win) -- Redirect the terminal
 	term.setCursorPos(1, 1)
 	term.setBackgroundColor(colors.black) -- Reset terminal and cursor
 	term.setTextColor(colors.white)
@@ -122,14 +131,6 @@ allium.sanitize = function(name)
 	return name:lower():gsub(" ", "_"):gsub("[^a-z0-9_]", "")
 end
 
-allium.log = function(...)
-	print(cli.info, false, ...)
-end
-
-allium.warn = function(...)
-	print(cli.warn, false, ...)
-end
-
 allium.tell = function(name, message, alt_name)
 	assert(type(name) == "string", "Invalid argument #1 (expected string, got "..type(name)..")")
     assert(type(message) == "string" or type(message) == "table", "Invalid argument #2 (expected string or table, got "..type(message)..")")
@@ -610,8 +611,95 @@ local player_scanner = function() -- Login/out scanner thread
     end
 end
 
+local common = {
+	unhide_update = false,
+	run = {}
+}
+common.refresh = function()
+	local done = term.redirect(main)
+	local x, y = term.getSize()
+	common.bY = y-1
+	if common.unhide_update then
+		common.bX = x-6
+		term.setCursorPos(x-6, y-1)
+		term.blit("TRS \24", "888f8", "14efb")
+	else
+		common.bx = x-4
+		term.setCursorPos(x-5, y-1)
+		term.blit("TRS", "888", "14e")
+	end
+	term.setBackgroundColor(colors.black) -- Reset terminal and cursor
+	term.setTextColor(colors.white)
+	term.redirect(done)
+end
+
+local button_manager = function()
+	common.refresh()
+	while true do
+		local e = {os.pullEvent("mouse_click")}
+		table.remove(e, 1)
+		if table.remove(e, 1) == 1 then
+			local x = table.remove(e, 1)
+			if table.remove(e, 1) == common.bY then
+				if x-common.bX == 0 then -- Terminate
+					allium.log("Exiting Allium...")
+					sleep(1)
+					return
+				elseif x-common.bX == 1 then -- Reboot
+					allium.log("Rebooting...")
+					sleep(1)
+					os.reboot()
+				elseif x-common.bX == 2 then -- Shutdown
+					allium.log("Shutting down...")
+					sleep(1)
+					os.shutdown()
+				elseif x-common.bX == 4 and common.unhide_update then -- Update
+					allium.log("Downloading updates...")
+					for i = 1, #common.run do
+						common.run[i]()
+					end
+					allium.log("Rebooting to apply updates...")
+					sleep(1)
+					os.reboot()
+				end
+			end
+		end
+	end
+end
+
+local update_panel = function() -- Update checker & UI handler thread
+	if config.updates.notify.dependencies then
+		local deps = config.updates.check.dependencies()
+		local suffixer
+		if #deps > 0 then
+			if #deps == 1 then
+				suffixer = {"Utility ", " is "}
+			else
+				suffixer = {"Utilities: ", " are "}
+			end
+			allium.log(suffixer[1]..table.concat(deps, ", ")..suffixer[2].."ready to be updated")
+			common.run[#common.run+1] = config.updates.run.dependencies
+			common.unhide_update = true
+		end
+	end
+	if config.updates.notify.allium then
+		local sha = config.updates.check.allium()
+		if sha ~= config.sha then
+			allium.log("Allium is ready to be updated")
+			common.run[#common.run+1] = config.updates.run.allium
+			common.unhide_update = true
+		end
+	end
+	if config.updates.notify.plugins then
+		-- Things will also be here
+	end
+	common.refresh()
+end
+
 raisin.thread(interpreter, 0)
 raisin.thread(player_scanner, 1)
+raisin.thread(button_manager, 1)
+raisin.thread(update_panel, 1)
 
 if not fs.exists(path.."cfg/persistence.lson") then --In the situation that this is a first installation, let's do some setup
 	local fpers = fs.open(path.."cfg/persistence.lson", "w")
@@ -621,6 +709,6 @@ end
 
 allium.log("Allium started.")
 allium.tell("@a", "&eHello World!")
-raisin.manager.run()
+raisin.manager.run(1)
 
 package.preload["allium"] = nil
\ No newline at end of file
diff --git a/startup.lua b/startup.lua
index b946371..a98bd0f 100644
--- a/startup.lua
+++ b/startup.lua
@@ -2,7 +2,8 @@
 -- x.x.x-pr = unstable, potential breaking changes
 local allium_version = "0.9.0-pr"
 
-local path = "/"
+local github, json, path = require("lib.nap")("https://api.github.com"), require("lib.json"), "/"
+local firstrun = false
 for str in string.gmatch(shell.getRunningProgram(), ".+[/]") do
 	path = path..str
 end
@@ -17,12 +18,20 @@ end
     Configurations can be changed in /cfg/allium.lson
 ]]
 local default = {
-    version = allium_version, -- Allium's version
-    label = "<&r&dAll&5&h[[Killroy wuz here.]]&i[[https://www.youtube.com/watch?v=XqZsoesa55w\\&t=15s]]i&r&dum&r> ", -- The label the loader uses
+    label = "<&r&dAll&5&h[[Kilroy wuz here.]]&i[[https://www.youtube.com/watch?v=XqZsoesa55w\\&t=15s]]i&r&dum&r> ", -- The label the loader uses
     import_timeout = 5, -- The maximum amount of time it takes to wait for a plugin dependency to provide its module.
-    updates = { -- Various auto-update configurations. Server operators may want to change this from the default
-        dependencies = true, -- Automatically update dependencies
-        allium = true -- Automatically update allium
+    restart_timeout = 5, -- The amount of time to wait when allium errors before restarting
+    updates = { -- Various update configurations.
+        notify = { -- Configurations to trigger notifications when parts of Allium are ready for an update
+            dependencies = true, -- Notify when dependencies need updating
+            plugins = true, -- Notify when plugins need updating
+            allium = true -- Notify when allium needs updating
+        },
+        repo = { -- Repo specific information for Allium in case you want to use a fork
+            user = "hugeblank", -- User to pull updates from
+            branch = "master", --  Branch/Tag to pull updates from
+            name = "Allium" -- Name of repo to pull updates from
+        }
     }
 }
 
@@ -30,11 +39,10 @@ local default = {
 local loadSettings = function(file, default)
     assert(type(file) == "string", "file must be a string")
     if not fs.exists(file) then
-        local setting, v = fs.open(file,"w"), default.version
-        default.version = nil
+        firstrun = true
+        local setting = fs.open(file,"w")
         setting.write(textutils.serialise(default))
         setting.close()
-        default.version = v
         return default
     end
     local setting = fs.open(file, "r")
@@ -59,32 +67,130 @@ local loadSettings = function(file, default)
 end
 
 local config = loadSettings(path.."cfg/allium.lson", default)
+local depman
+config.updates.check = {}
+config.updates.run = {}
 
--- Checking Allium/Plugin updates
-if config.updates.allium then
-    if fs.exists(path.."cfg/repolist.csh") then -- Checking for a repolist shell executable
-        -- Update all plugins and programs on the repolist
-        for line in io.lines(path.."cfg/repolist.csh") do
-            shell.run(path..line)
+if config.updates.notify.dependencies then
+    local depget = http.get("https://raw.githubusercontent.com/hugeblank/allium-depman/master/instance.lua")
+    if depget then
+        local contents = depget.readAll()
+        depget.close()
+        local depargs = { -- Depman args minus the task which can be inserted into the first index
+            path,
+            "https://raw.githubusercontent.com/hugeblank/allium-depman/master/listing.lson",
+            path.."/cfg/deps.lson",
+            path.."/lib",
+            allium_version
+        }
+        depman = function(task)
+            local args = {}
+            for i = 1, #depargs do
+                args[i] = depargs[i]
+            end
+            local env = _ENV
+            env._ENV = env
+            local out
+            env.print = function(...) out = {...} end
+            if pcall(load(contents, "Depman", nil, env), task, table.unpack(args)) then
+                return table.unpack(out)
+            end
+        end
+        config.updates.check.dependencies = function()
+            return textutils.unserialise(depman("scan"))
+        end
+        config.updates.run.dependencies = function()
+            return depman("upgrade")
+        end
+    end
+end
+
+if config.updates.notify.allium then
+    config.updates.check.allium = function()
+        local repo = config.updates.repo
+        local jsonresponse = github.repos[repo.user][repo.name].commits[repo.branch]({
+            method = "GET"
+        })
+        if jsonresponse then
+            local out = jsonresponse.readAll()
+            jsonresponse.close()
+            return json.decode(out).sha
+        else
+            config.updates.notify.allium = false
+        end
+    end
+    config.updates.run.allium = function(sha)
+        local repo = config.updates.repo
+        os.run({
+            term = {
+                write=function()end,
+                setCursorPos=function()end
+            },
+            print = function() end
+        },
+        fs.combine(path, "/lib/gget.lua"),
+        repo.user,
+        repo.name,
+        repo.branch
+        )
+        local file = fs.open(fs.combine(path, "/cfg/version.lson"), "w")
+        if file then
+            file.write(textutils.serialise({sha = sha})) 
+            -- Not adding version because we're outdated now. We've been replaced.
+            file.close()
+        else
+            printError("Could not write to file. Is the disk full?")
+            return
         end
     end
 end
 
--- Filling Dependencies
-if config.updates.dependencies then
-    -- Allium DepMan Instance & Listing: https://github.com/hugeblank/allium-depman/
-    print("Checking for dependency updates...")
-    local didrun, err
-    didrun = http.get("https://raw.githubusercontent.com/hugeblank/allium-depman/master/instance.lua")
-    if didrun then
-        didrun, err = pcall(load(didrun.readAll(), "Depman", nil, _ENV), "upgrade", path, "https://raw.githubusercontent.com/hugeblank/allium-depman/master/listing.lson", path.."/cfg/deps.lson", path.."/lib", allium_version)
+if config.updates.notify.plugins then
+    -- Things will be here
+end
+
+-- First run installation of utilities
+if firstrun then
+    print("Welcome to Allium! Doing some first-run setup and then we'll be on our way.")
+    if depman then
+        depman("upgrade")
     end
-    if not didrun then
-        printError("Could not update dependencies: "..(err or "Failed to download instance"))
+    local sha, file = config.updates.check.allium(), fs.open(fs.combine(path, "/cfg/version.lson"), "w")
+    if file then
+        file.write(textutils.serialise({sha = sha, version = allium_version}))
+        file.close()
+    else
+        printError("Could not write to file. Is the disk full?")
         return
     end
 end
 
+local r_file = fs.open(fs.combine(path, "/cfg/version.lson"), "r")
+if r_file then
+    local v_data = textutils.unserialise(r_file.readAll())
+    r_file.close()
+    if v_data then
+        config.version, config.sha = v_data.version, v_data.sha
+    else
+        printError("Could not parse version data, did you mess with ./cfg/version.lson?")
+        return
+    end
+    if not config.version then
+        local w_file = fs.open(fs.combine(path, "/cfg/version.lson"), "w")
+        if w_file then -- Reapply version because it was removed by the last version
+            v_data.version = allium_version
+            w_file.write(textutils.serialise(v_data))
+            w_file.close()
+        else
+            printError("Could not write to file. Is the disk full?")
+            return
+        end
+    end
+else
+    printError("Could not read version data, did you delete ./cfg/version.lson?")
+    return
+end
+
 -- Clearing the screen
 term.setBackgroundColor(colors.black)
 term.setTextColor(colors.white)
@@ -108,6 +214,8 @@ for _, side in pairs(peripheral.getNames()) do -- Finding the chat module
 end
 
 -- Rebooting or exiting
-print("Rebooting in 5 seconds")
-print("Press any key to cancel")
-parallel.waitForAny(function() repeat until os.pullEvent("char") end, function() sleep(5) os.reboot() end)
\ No newline at end of file
+if config.restart_timeout > 0 then
+    print("Rebooting in "..config.restart_timeout.." seconds")
+    print("Press any key to cancel")
+    parallel.waitForAny(function() repeat until os.pullEvent("char") end, function() sleep(config.restart_timeout) os.reboot() end)
+end
\ No newline at end of file

From 3851791ebd1d4293a490e43ecd3b1113849b6d1b Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Sat, 26 Oct 2019 00:22:20 -0700
Subject: [PATCH 25/32] This is why we have an unstable-as branch

---
 allium.lua  |  5 +++--
 startup.lua | 13 +++++++++----
 2 files changed, 12 insertions(+), 6 deletions(-)

diff --git a/allium.lua b/allium.lua
index b1b0b3f..e666517 100644
--- a/allium.lua
+++ b/allium.lua
@@ -656,7 +656,7 @@ local button_manager = function()
 				elseif x-common.bX == 4 and common.unhide_update then -- Update
 					allium.log("Downloading updates...")
 					for i = 1, #common.run do
-						common.run[i]()
+						common.run[i](config.sha)
 					end
 					allium.log("Rebooting to apply updates...")
 					sleep(1)
@@ -686,6 +686,7 @@ local update_panel = function() -- Update checker & UI handler thread
 		local sha = config.updates.check.allium()
 		if sha ~= config.sha then
 			allium.log("Allium is ready to be updated")
+			config.sha = sha
 			common.run[#common.run+1] = config.updates.run.allium
 			common.unhide_update = true
 		end
@@ -711,4 +712,4 @@ allium.log("Allium started.")
 allium.tell("@a", "&eHello World!")
 raisin.manager.run(1)
 
-package.preload["allium"] = nil
\ No newline at end of file
+package.preload["allium"] = nil
diff --git a/startup.lua b/startup.lua
index a98bd0f..be60ebe 100644
--- a/startup.lua
+++ b/startup.lua
@@ -124,9 +124,13 @@ if config.updates.notify.allium then
         os.run({
             term = {
                 write=function()end,
-                setCursorPos=function()end
+                setCursorPos=function()end,
+                getCursorPos=function() return 1, 1 end
             },
-            print = function() end
+            print = function() end,
+            shell = {
+                getRunningProgram = function() return path.."/lib/gget.lua" end
+            }
         },
         fs.combine(path, "/lib/gget.lua"),
         repo.user,
@@ -135,7 +139,7 @@ if config.updates.notify.allium then
         )
         local file = fs.open(fs.combine(path, "/cfg/version.lson"), "w")
         if file then
-            file.write(textutils.serialise({sha = sha})) 
+            file.write(textutils.serialise({sha = sha}))
             -- Not adding version because we're outdated now. We've been replaced.
             file.close()
         else
@@ -179,6 +183,7 @@ if r_file then
         local w_file = fs.open(fs.combine(path, "/cfg/version.lson"), "w")
         if w_file then -- Reapply version because it was removed by the last version
             v_data.version = allium_version
+            config.version = allium_version
             w_file.write(textutils.serialise(v_data))
             w_file.close()
         else
@@ -218,4 +223,4 @@ if config.restart_timeout > 0 then
     print("Rebooting in "..config.restart_timeout.." seconds")
     print("Press any key to cancel")
     parallel.waitForAny(function() repeat until os.pullEvent("char") end, function() sleep(config.restart_timeout) os.reboot() end)
-end
\ No newline at end of file
+end

From f39fa554a85d597f1d2c9424abe41199c0398e90 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Sat, 26 Oct 2019 01:59:07 -0700
Subject: [PATCH 26/32] Minor fixes beyond what was functional

---
 allium.lua  | 14 ++++++++------
 startup.lua | 36 ++++++++++++++++++++++++++++--------
 2 files changed, 36 insertions(+), 14 deletions(-)

diff --git a/allium.lua b/allium.lua
index e666517..12358a4 100644
--- a/allium.lua
+++ b/allium.lua
@@ -624,7 +624,7 @@ common.refresh = function()
 		term.setCursorPos(x-6, y-1)
 		term.blit("TRS \24", "888f8", "14efb")
 	else
-		common.bx = x-4
+		common.bX = x-4
 		term.setCursorPos(x-5, y-1)
 		term.blit("TRS", "888", "14e")
 	end
@@ -656,7 +656,10 @@ local button_manager = function()
 				elseif x-common.bX == 4 and common.unhide_update then -- Update
 					allium.log("Downloading updates...")
 					for i = 1, #common.run do
-						common.run[i](config.sha)
+						local s, e = pcall(table.unpack(common.run[i]))
+						if not s then
+							print(cli.error, true, "Failed to execute an update: "..e)
+						end
 					end
 					allium.log("Rebooting to apply updates...")
 					sleep(1)
@@ -678,7 +681,7 @@ local update_panel = function() -- Update checker & UI handler thread
 				suffixer = {"Utilities: ", " are "}
 			end
 			allium.log(suffixer[1]..table.concat(deps, ", ")..suffixer[2].."ready to be updated")
-			common.run[#common.run+1] = config.updates.run.dependencies
+			common.run[#common.run+1] = {config.updates.run.dependencies}
 			common.unhide_update = true
 		end
 	end
@@ -686,8 +689,7 @@ local update_panel = function() -- Update checker & UI handler thread
 		local sha = config.updates.check.allium()
 		if sha ~= config.sha then
 			allium.log("Allium is ready to be updated")
-			config.sha = sha
-			common.run[#common.run+1] = config.updates.run.allium
+			common.run[#common.run+1] = {config.updates.run.allium, sha}
 			common.unhide_update = true
 		end
 	end
@@ -712,4 +714,4 @@ allium.log("Allium started.")
 allium.tell("@a", "&eHello World!")
 raisin.manager.run(1)
 
-package.preload["allium"] = nil
+package.preload["allium"] = nil
\ No newline at end of file
diff --git a/startup.lua b/startup.lua
index be60ebe..74ff753 100644
--- a/startup.lua
+++ b/startup.lua
@@ -79,18 +79,31 @@ if config.updates.notify.dependencies then
         local depargs = { -- Depman args minus the task which can be inserted into the first index
             path,
             "https://raw.githubusercontent.com/hugeblank/allium-depman/master/listing.lson",
-            path.."/cfg/deps.lson",
+            path.."/cfg/dependencies.lson",
             path.."/lib",
             allium_version
         }
+        local copyEnv -- My linter sucks and doesn't understand recursion.
+        copyEnv = function(t)
+            local out = {}
+            for key, value in pairs(t) do
+                if key == "_ENV" then
+                    out[key] = out
+                elseif type(value) == "table" then
+                    out[key] = copyEnv(value)
+                else
+                    out[key] = value
+                end
+            end
+            return out
+        end
         depman = function(task)
             local args = {}
             for i = 1, #depargs do
                 args[i] = depargs[i]
             end
-            local env = _ENV
-            env._ENV = env
             local out
+            local env = copyEnv(_ENV)
             env.print = function(...) out = {...} end
             if pcall(load(contents, "Depman", nil, env), task, table.unpack(args)) then
                 return table.unpack(out)
@@ -121,13 +134,15 @@ if config.updates.notify.allium then
     end
     config.updates.run.allium = function(sha)
         local repo = config.updates.repo
+        local null = function() end
         os.run({
             term = {
-                write=function()end,
-                setCursorPos=function()end,
+                write=null,
+                setCursorPos=null,
                 getCursorPos=function() return 1, 1 end
             },
-            print = function() end,
+            print = null,
+            write = null,
             shell = {
                 getRunningProgram = function() return path.."/lib/gget.lua" end
             }
@@ -177,6 +192,7 @@ if r_file then
         config.version, config.sha = v_data.version, v_data.sha
     else
         printError("Could not parse version data, did you mess with ./cfg/version.lson?")
+        print("If you're updating from a prior version, delete allium.config, reboot, and you should be good.")
         return
     end
     if not config.version then
@@ -193,6 +209,7 @@ if r_file then
     end
 else
     printError("Could not read version data, did you delete ./cfg/version.lson?")
+    print("If you're updating from a prior version, delete allium.config, reboot, and you should be good.")
     return
 end
 
@@ -204,7 +221,10 @@ term.setCursorPos(1, 1)
 
 -- Running Allium
 multishell.setTitle(multishell.getCurrent(), "Allium")
-os.run(_ENV, path.."allium.lua", config)
+local s, e = pcall(os.run(_ENV, path.."allium.lua", config))
+if not s then
+    printError(e)
+end
 
 -- Removing all captures
 for _, side in pairs(peripheral.getNames()) do -- Finding the chat module
@@ -223,4 +243,4 @@ if config.restart_timeout > 0 then
     print("Rebooting in "..config.restart_timeout.." seconds")
     print("Press any key to cancel")
     parallel.waitForAny(function() repeat until os.pullEvent("char") end, function() sleep(config.restart_timeout) os.reboot() end)
-end
+end
\ No newline at end of file

From 5ee38eb64b55157ebca62e2990f0741731db9e31 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Sat, 26 Oct 2019 02:34:28 -0700
Subject: [PATCH 27/32] Replace that damn environment copier with something
 dumber

---
 startup.lua | 26 +++++++-------------------
 1 file changed, 7 insertions(+), 19 deletions(-)

diff --git a/startup.lua b/startup.lua
index 74ff753..f182595 100644
--- a/startup.lua
+++ b/startup.lua
@@ -83,34 +83,22 @@ if config.updates.notify.dependencies then
             path.."/lib",
             allium_version
         }
-        local copyEnv -- My linter sucks and doesn't understand recursion.
-        copyEnv = function(t)
-            local out = {}
-            for key, value in pairs(t) do
-                if key == "_ENV" then
-                    out[key] = out
-                elseif type(value) == "table" then
-                    out[key] = copyEnv(value)
-                else
-                    out[key] = value
-                end
-            end
-            return out
-        end
         depman = function(task)
             local args = {}
             for i = 1, #depargs do
                 args[i] = depargs[i]
             end
             local out
-            local env = copyEnv(_ENV)
-            env.print = function(...) out = {...} end
-            if pcall(load(contents, "Depman", nil, env), task, table.unpack(args)) then
+            local temp = _G.print -- The good ol' switcheroo
+            _G.print = function(...) out = {...} end
+            local result = pcall(load(contents, "Depman", nil, _ENV), task, table.unpack(args))
+            _G.print = temp
+            if result then
                 return table.unpack(out)
             end
         end
         config.updates.check.dependencies = function()
-            return textutils.unserialise(depman("scan"))
+            return depman("scan")
         end
         config.updates.run.dependencies = function()
             return depman("upgrade")
@@ -221,7 +209,7 @@ term.setCursorPos(1, 1)
 
 -- Running Allium
 multishell.setTitle(multishell.getCurrent(), "Allium")
-local s, e = pcall(os.run(_ENV, path.."allium.lua", config))
+local s, e = pcall(os.run, _ENV, path.."allium.lua", config)
 if not s then
     printError(e)
 end

From f657e6cd7e486ed965a8d45871ee3b6a2df78678 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Sat, 26 Oct 2019 14:35:22 -0700
Subject: [PATCH 28/32] Fix issues related to pulling updates

---
 allium.lua  | 125 +++++++++++++++++++++++++++-------------------------
 startup.lua |  21 ++++++---
 2 files changed, 78 insertions(+), 68 deletions(-)

diff --git a/allium.lua b/allium.lua
index 12358a4..da1c3cd 100644
--- a/allium.lua
+++ b/allium.lua
@@ -624,7 +624,7 @@ common.refresh = function()
 		term.setCursorPos(x-6, y-1)
 		term.blit("TRS \24", "888f8", "14efb")
 	else
-		common.bX = x-4
+		common.bX = x-5
 		term.setCursorPos(x-5, y-1)
 		term.blit("TRS", "888", "14e")
 	end
@@ -633,76 +633,79 @@ common.refresh = function()
 	term.redirect(done)
 end
 
-local button_manager = function()
-	common.refresh()
-	while true do
-		local e = {os.pullEvent("mouse_click")}
-		table.remove(e, 1)
-		if table.remove(e, 1) == 1 then
-			local x = table.remove(e, 1)
-			if table.remove(e, 1) == common.bY then
-				if x-common.bX == 0 then -- Terminate
-					allium.log("Exiting Allium...")
-					sleep(1)
-					return
-				elseif x-common.bX == 1 then -- Reboot
-					allium.log("Rebooting...")
-					sleep(1)
-					os.reboot()
-				elseif x-common.bX == 2 then -- Shutdown
-					allium.log("Shutting down...")
-					sleep(1)
-					os.shutdown()
-				elseif x-common.bX == 4 and common.unhide_update then -- Update
-					allium.log("Downloading updates...")
-					for i = 1, #common.run do
-						local s, e = pcall(table.unpack(common.run[i]))
-						if not s then
-							print(cli.error, true, "Failed to execute an update: "..e)
-						end
-					end
-					allium.log("Rebooting to apply updates...")
-					sleep(1)
-					os.reboot()
+local update_interaction = function()
+	parallel.waitForAll(function() -- Update checker on initialize
+		if config.updates.notify.dependencies then
+			local suc, deps = config.updates.check.dependencies()
+			local suffixer
+			if type(deps) == "table" and #deps > 0 then
+				if #deps == 1 then
+					suffixer = {"Utility ", " is "}
+				else
+					suffixer = {"Utilities: ", " are "}
 				end
+				allium.log(suffixer[1]..table.concat(deps, ", ")..suffixer[2].."ready to be updated")
+				common.run[#common.run+1] = {config.updates.run.dependencies}
+				common.unhide_update = true
+			elseif not suc then
+				print(cli.error, true, "Error in checking for dependency updates: "..deps)
 			end
 		end
-	end
-end
-
-local update_panel = function() -- Update checker & UI handler thread
-	if config.updates.notify.dependencies then
-		local deps = config.updates.check.dependencies()
-		local suffixer
-		if #deps > 0 then
-			if #deps == 1 then
-				suffixer = {"Utility ", " is "}
-			else
-				suffixer = {"Utilities: ", " are "}
+		if config.updates.notify.allium then
+			local sha = config.updates.check.allium()
+			if sha ~= config.sha then
+				allium.log("Allium is ready to be updated")
+				common.run[#common.run+1] = {config.updates.run.allium, sha}
+				common.unhide_update = true
+			elseif not sha then
+				allium.warn("Failed to scan for allium updates")
 			end
-			allium.log(suffixer[1]..table.concat(deps, ", ")..suffixer[2].."ready to be updated")
-			common.run[#common.run+1] = {config.updates.run.dependencies}
-			common.unhide_update = true
 		end
-	end
-	if config.updates.notify.allium then
-		local sha = config.updates.check.allium()
-		if sha ~= config.sha then
-			allium.log("Allium is ready to be updated")
-			common.run[#common.run+1] = {config.updates.run.allium, sha}
-			common.unhide_update = true
+		if config.updates.notify.plugins then
+			-- Things will also be here
 		end
-	end
-	if config.updates.notify.plugins then
-		-- Things will also be here
-	end
-	common.refresh()
+		common.refresh()
+	end, function() -- User Interface
+		common.refresh()
+		while true do
+			local e = {os.pullEvent("mouse_click")}
+			table.remove(e, 1)
+			if table.remove(e, 1) == 1 then
+				local x = table.remove(e, 1)
+				if table.remove(e, 1) == common.bY then
+					if x-common.bX == 0 then -- Terminate
+						allium.log("Exiting Allium...")
+						sleep(1)
+						return
+					elseif x-common.bX == 1 then -- Reboot
+						allium.log("Rebooting...")
+						sleep(1)
+						os.reboot()
+					elseif x-common.bX == 2 then -- Shutdown
+						allium.log("Shutting down...")
+						sleep(1)
+						os.shutdown()
+					elseif x-common.bX == 4 and common.unhide_update then -- Update
+						allium.log("Downloading updates...")
+						for i = 1, #common.run do
+							local s, err = pcall(table.unpack(common.run[i]))
+							if not s then
+								print(cli.error, true, "Failed to execute an update: "..err)
+							end
+						end
+						allium.log("Rebooting to apply updates...")
+						sleep(1)
+						os.reboot()
+					end
+				end
+			end
+		end
+	end)
 end
 
 raisin.thread(interpreter, 0)
 raisin.thread(player_scanner, 1)
-raisin.thread(button_manager, 1)
-raisin.thread(update_panel, 1)
+raisin.thread(update_interaction, 1)
 
 if not fs.exists(path.."cfg/persistence.lson") then --In the situation that this is a first installation, let's do some setup
 	local fpers = fs.open(path.."cfg/persistence.lson", "w")
diff --git a/startup.lua b/startup.lua
index f182595..cb72a9a 100644
--- a/startup.lua
+++ b/startup.lua
@@ -28,9 +28,9 @@ local default = {
             allium = true -- Notify when allium needs updating
         },
         repo = { -- Repo specific information for Allium in case you want to use a fork
-            user = "hugeblank", -- User to pull updates from
-            branch = "master", --  Branch/Tag to pull updates from
-            name = "Allium" -- Name of repo to pull updates from
+            user = "hugeblank", -- User to check updates from
+            branch = "master", --  Branch/Tag to check updates from
+            name = "Allium" -- Name of repo to check updates from
         }
     }
 }
@@ -91,14 +91,21 @@ if config.updates.notify.dependencies then
             local out
             local temp = _G.print -- The good ol' switcheroo
             _G.print = function(...) out = {...} end
-            local result = pcall(load(contents, "Depman", nil, _ENV), task, table.unpack(args))
+            local result, err = pcall(load(contents, "Depman", nil, _ENV), task, table.unpack(args))
             _G.print = temp
             if result then
-                return table.unpack(out)
+                return result, table.unpack(out)
+            else
+                return result, err
             end
         end
         config.updates.check.dependencies = function()
-            return depman("scan")
+            local suc, out = depman("scan")
+            if suc then
+                return suc, textutils.unserialise(out)
+            else
+                return suc, out
+            end
         end
         config.updates.run.dependencies = function()
             return depman("upgrade")
@@ -117,7 +124,7 @@ if config.updates.notify.allium then
             jsonresponse.close()
             return json.decode(out).sha
         else
-            config.updates.notify.allium = false
+            return false
         end
     end
     config.updates.run.allium = function(sha)

From 78732c3683ee878eb77bc2fb3e4f306b24254723 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Sat, 26 Oct 2019 21:34:31 -0700
Subject: [PATCH 29/32] Pre-Release for color 2.0

Woo!
---
 allium.lua              | 32 ++++++++++++++--------------
 plugins/allium-stem.lua | 44 +++++++++++++++++++--------------------
 startup.lua             | 46 +++++++++++++++++------------------------
 3 files changed, 57 insertions(+), 65 deletions(-)

diff --git a/allium.lua b/allium.lua
index da1c3cd..f0ddd31 100644
--- a/allium.lua
+++ b/allium.lua
@@ -66,15 +66,6 @@ local cli = {
 	error = {"[", colors.red, "E", colors.white, "] "}
 }
 
--- Logging wrapper functions
-allium.log = function(...)
-	print(cli.info, false, ...)
-end
-
-allium.warn = function(...)
-	print(cli.warn, false, ...)
-end
-
 local config = ...
 do -- Configuration parsing
 	if type(config) ~= "table" then
@@ -121,7 +112,7 @@ do -- Allium image setup <3
 	term.setBackgroundColor(colors.black) -- Reset terminal and cursor
 	term.setTextColor(colors.white)
 	print(cli.info, true, "Loading ", colors.magenta, "All", colors.purple, "i", colors.magenta, "um")
-	allium.log("Initializing API")
+	print(cli.info, true, "Initializing API")
 end
 
 allium.assert = assert
@@ -131,14 +122,23 @@ allium.sanitize = function(name)
 	return name:lower():gsub(" ", "_"):gsub("[^a-z0-9_]", "")
 end
 
+-- Logging wrapper functions
+allium.log = function(...)
+	print(cli.info, false, ...)
+end
+
+allium.warn = function(...)
+	print(cli.warn, false, ...)
+end
+
 allium.tell = function(name, message, alt_name)
 	assert(type(name) == "string", "Invalid argument #1 (expected string, got "..type(name)..")")
     assert(type(message) == "string" or type(message) == "table", "Invalid argument #2 (expected string or table, got "..type(message)..")")
 	local out
 	if type(message) == "table" then
-		_, out = commands.tellraw(name, color.format(table.concat(message, "\\n")))
+		_, out = commands.tellraw(name, color.format(table.concat(message, "\n")))
 	else
-		message = message:gsub("\n", "\\n")
+	--message = message:gsub("\n", "\\n")
 		_, out = commands.tellraw(name, color.format((function(alt_name) if alt_name == true then return "" elseif alt_name then return alt_name.."&r" else return config.label.."&r" end end)(alt_name)..message))
     end
     return textutils.serialise(out)
@@ -571,14 +571,14 @@ local interpreter = function() -- Main command interpretation thread
 					if stat == false then -- It crashed...
 						allium.tell(name, {
 							"&4!"..cmd_exec.command.." crashed! This is likely not your fault, but the developer's. Please contact the developer of &a"..cmd_exec.plugin.."&4. Error:",
-							"&c&h[[Click here to place error into chat prompt, so you may copy it if needed for an issue report]]&s[["..err.."]]"..err.."&r"
+							"&c&h(Click here to place error into chat prompt, so you may copy it if needed for an issue report)&s("..err..")"..err.."&r"
 						})
 						allium.warn(cmd.." | "..err)
 					end
 				end
 				raisin.thread(exec_command, 0, group.command)
     		else -- This isn't even a valid command...
-	    		allium.tell(name, "&6Invalid Command, use &c&g[[!allium:help]]!help&r&6 for assistance.") --bleh!
+	    		allium.tell(name, "&6Invalid Command, use &c&g(!allium:help)!help&r&6 for assistance.") --bleh!
     		end
 	    end
 	end
@@ -635,7 +635,7 @@ end
 
 local update_interaction = function()
 	parallel.waitForAll(function() -- Update checker on initialize
-		if config.updates.notify.dependencies then
+		if config.updates.check.dependencies then
 			local suc, deps = config.updates.check.dependencies()
 			local suffixer
 			if type(deps) == "table" and #deps > 0 then
@@ -651,7 +651,7 @@ local update_interaction = function()
 				print(cli.error, true, "Error in checking for dependency updates: "..deps)
 			end
 		end
-		if config.updates.notify.allium then
+		if config.updates.check.allium then
 			local sha = config.updates.check.allium()
 			if sha ~= config.sha then
 				allium.log("Allium is ready to be updated")
diff --git a/plugins/allium-stem.lua b/plugins/allium-stem.lua
index e569d18..f02c27a 100644
--- a/plugins/allium-stem.lua
+++ b/plugins/allium-stem.lua
@@ -1,5 +1,5 @@
 local allium = require("allium")
-local stem = allium.register("allium", "0.5.0", "Allium Stem") --UPDATE THIS
+local stem = allium.register("allium", "0.6.0", "Allium Stem")
 
 local help = function(name, args, data)
 	local cmds_per, page = 8, 1 -- Turn this into a per-user persistence preference
@@ -15,12 +15,12 @@ local help = function(name, args, data)
 				if variant == "username" then
 					local players = allium.getPlayers()
 					for i = 1, #players do
-						out[#out+1] = " &6-&r &g[["..execute..players[i].." ]]&h[[Click to add user "..players[i].."]]&a"..players[i]
+						out[#out+1] = " &6-&r &g("..execute..players[i].." )&h(Click to add user "..players[i]..")&a"..players[i]
 					end
 				elseif variant == "plugin" then
 					local list = allium.getInfo()
 					for plugin in pairs(list) do
-						out[#out+1] = " &6-&r &g[["..execute..plugin.." ]]&h[[Click to add plugin "..plugin.."]]&a"..plugin
+						out[#out+1] = " &6-&r &g("..execute..plugin.." )&h(Click to add plugin "..plugin..")&a"..plugin
 					end
 				elseif variant == "command" then
 					local list = allium.getInfo()
@@ -28,17 +28,17 @@ local help = function(name, args, data)
 						for command in pairs(v) do
 							local rawcmd = command
 							local command = plugin..":"..command
-							out[#out+1] = " &6-&r &g[["..execute..command.." ]]&h[[Click to add command !"..rawcmd.."]]&a!"..command
+							out[#out+1] = " &6-&r &g("..execute..command.." )&h(Click to add command !"..rawcmd..")&a!"..command
 						end
 					end
 				elseif variant:sub(1, -2) == "position_" then
 					local position = allium.getPosition(name).position
 					if variant:sub(-1, -1) == "x" then
-						out[#out+1] = " &6-&r &g[["..execute..position[1].." ]]&h[[Click to add your x position]]&a"..position[1]
+						out[#out+1] = " &6-&r &g("..execute..position[1].." )&h(Click to add your x position)&a"..position[1]
 					elseif variant:sub(-1, -1) == "y" then
-						out[#out+1] = " &6-&r &g[["..execute..position[2].." ]]&h[[Click to add your y position]]&a"..position[2]
+						out[#out+1] = " &6-&r &g("..execute..position[2].." )&h(Click to add your y position)&a"..position[2]
 					elseif variant:sub(-1, -1) == "z" then
-						out[#out+1] = " &6-&r &g[["..execute..position[3].." ]]&h[[Click to add your z position]]&a"..position[3]
+						out[#out+1] = " &6-&r &g("..execute..position[3].." )&h(Click to add your z position)&a"..position[3]
 					end
 				end
 			elseif type(variant) == "function" or type(variant) == "table" then
@@ -50,7 +50,7 @@ local help = function(name, args, data)
 				end
 				for i = 1, #result do
 					if type(result[i]) == "string" and not result[i]:find("=") then
-						out[#out+1] = " &6-&r &g[["..execute..result[i].." ]]&h[[Click to add "..result[i].."]]&a"..result[i]
+						out[#out+1] = " &6-&r &g("..execute..result[i].." )&h(Click to add "..result[i]..")&a"..result[i]
 					end
 				end
 			end
@@ -78,10 +78,10 @@ local help = function(name, args, data)
 			end
 			local meta = ""
 			if #execution ~= 0 then
-				meta = meta.."&g[["..execution.."]]"
+				meta = meta.."&g("..execution..")"
 			end
 			if #hover ~= 0 then
-				meta = meta.."&h[["..hover.."]]"
+				meta = meta.."&h("..hover..")"
 			end
 			return prefix..meta..label..postfix.." "..information
 		end
@@ -98,7 +98,7 @@ local help = function(name, args, data)
 						end
 					end
 					if #out == 0 or not info then
-						out = {" &6-&a No more parameters to add!", " &6-&a Click &r&c&h[[Click to run command]]&g[["..command.."]]here&r&a to run the command", " &6- &eOR&a click on the first line to add the command to the chat input."}
+						out = {" &6-&a No more parameters to add!", " &6-&a Click &r&c&h(Click to run command)&g("..command..")here&r&a to run the command", " &6- &eOR&a click on the first line to add the command to the chat input."}
 					end
 					return out, command
 			else -- Otherwise things are going totally as planned and we should just recurse onwards
@@ -142,7 +142,7 @@ local help = function(name, args, data)
 		out_str = "&2===================&r &dAll&5i&r&dum&e Help Menu&r &2===================&r\\n"..out_str
 		local template = #(" << "..page.."/"..math.ceil(#info/cmds_per).." >> ")
 		local sides = 32-template
-		out_str = out_str.."&2"..string.rep("=", sides).."&r &6&l&h[[Previous Page]]&g[["..next_command..(page-1).."]]<<&r&c&l "..page.."/"..math.ceil(#info/cmds_per).." &r&6&l&h[[Next Page]]&g[["..next_command..(page+1).."]]>>&r &2"..string.rep("=", sides).."&r"
+		out_str = out_str.."&2"..string.rep("=", sides).."&r &6&l&h(Previous Page)&g("..next_command..(page-1)..")<<&r&c&l "..page.."/"..math.ceil(#info/cmds_per).." &r&6&l&h(Next Page)&g("..next_command..(page+1)..")>>&r &2"..string.rep("=", sides).."&r"
 		allium.tell(name, out_str, true)
 	end
 
@@ -161,7 +161,7 @@ local help = function(name, args, data)
 				else
 					entry.usage = ""
 				end
-				info[#info+1] = "&c&g[[!allium:help "..p_name..":"..cmd_name.."]]&h[[Click to begin autofill]]!"..p_name..":"..cmd_name.."&r: "..entry.info[1]
+				info[#info+1] = "&c&g(!allium:help "..p_name..":"..cmd_name..")&h(Click to begin autofill)!"..p_name..":"..cmd_name.."&r: "..entry.info[1]
 			end
 		end
 		return run()
@@ -182,7 +182,7 @@ local help = function(name, args, data)
 						data.error(cmd..": "..infill_info)
 						return
 					end
-					info[#info+1] = "&c&s[["..infill_text.."]]&h[[Click to add to chat input]]"..infill_text.."&r"
+					info[#info+1] = "&c&s("..infill_text..")&h(Click to add to chat input)"..infill_text.."&r"
 					for i = 1, #infill_info do
 						info[#info+1] = infill_info[i]
 					end
@@ -204,7 +204,7 @@ local help = function(name, args, data)
 					else
 						entry.usage = ""
 					end
-					info[#info+1] = "&c&g[[!allium:help "..args[1]..":"..cmd_name.."]]&h[[Click to begin autofill]]!"..cmd_name.."&r: "..entry.info[1]
+					info[#info+1] = "&c&g(!allium:help "..args[1]..":"..cmd_name..")&h(Click to begin autofill)!"..cmd_name.."&r: "..entry.info[1]
 				end
 				return run()
 			else
@@ -217,12 +217,12 @@ end
 
 local credits = function(name)
 	allium.tell(name, {
-		"&dAll&5i&dum &av"..tostring(allium.version).."&r was cultivated with love by &a&h[[Check out his repo!]]&i[[https://github.com/hugeblank]]hugeblank&r.",
-		"Documentation on Allium can be found here: &9&h[[Read up on Allium!]]&ihttps://github.com/hugeblank/allium-wiki&r.",
-		"Contribute and report issues to Allium here: &9&h[[Check out where Allium is grown!]]&ihttps://github.com/hugeblank/allium&r.",
+		"&dAll&5i&dum &av"..tostring(allium.version).."&r was cultivated with love by &a&h(Check out his repo!)&i(https://github.com/hugeblank)hugeblank&r.",
+		"Documentation on Allium can be found here: &9&h(Read up on Allium!)&ihttps://github.com/hugeblank/allium-wiki&r.",
+		"Contribute and report issues to Allium here: &9&h(Check out where Allium is grown!)&ihttps://github.com/hugeblank/allium&r.",
 		"&6Other Contributors:",
-		"&a - &rCommand formatting API by &1&h[[Check out his profile!]]&i[[https://github.com/roger109z]]roger109z&r.",
-		"&a - &rJSON parsing library by &d&h[[Check out their profile!]]&i[[https://github.com/rxi]]rxi&r."
+		"&a - &rCommand formatting API by &1&h(Check out his profile!)&i(https://github.com/roger109z)roger109z&r.",
+		"&a - &rJSON parsing library by &d&h(Check out their profile!)&i(https://github.com/rxi)rxi&r."
 	}, true)
 end
 
@@ -231,9 +231,9 @@ local plugins = function(name)
     local str = ""
     local plugins = allium.getInfo()
 	for p_name in pairs(plugins) do
-		local p_str = "&h[["..p_name.." v"..tostring(allium.getVersion(p_name)).."]]"
+		local p_str = "&h("..p_name.." v"..tostring(allium.getVersion(p_name))..")"
 		if plugins[p_name]["credits"] then
-			p_str = p_str.."&g[[!"..p_name..":credits]]"
+			p_str = p_str.."&g(!"..p_name..":credits)"
 		end
 		pluginlist[#pluginlist+1] = p_str..allium.getName(p_name)
     end
diff --git a/startup.lua b/startup.lua
index cb72a9a..d9b493d 100644
--- a/startup.lua
+++ b/startup.lua
@@ -1,8 +1,8 @@
 -- Allium version
 -- x.x.x-pr = unstable, potential breaking changes
-local allium_version = "0.9.0-pr"
+local allium_version = "0.9.0-pr.newcolor"
 
-local github, json, path = require("lib.nap")("https://api.github.com"), require("lib.json"), "/"
+local path = "/"
 local firstrun = false
 for str in string.gmatch(shell.getRunningProgram(), ".+[/]") do
 	path = path..str
@@ -18,9 +18,8 @@ end
     Configurations can be changed in /cfg/allium.lson
 ]]
 local default = {
-    label = "<&r&dAll&5&h[[Kilroy wuz here.]]&i[[https://www.youtube.com/watch?v=XqZsoesa55w\\&t=15s]]i&r&dum&r> ", -- The label the loader uses
+    label = "<&r&dAll&5&h(Kilroy wuz here.)&i(https://www.youtube.com/watch?v=XqZsoesa55w\\&t=15s)i&r&dum&r> ", -- The label the loader uses
     import_timeout = 5, -- The maximum amount of time it takes to wait for a plugin dependency to provide its module.
-    restart_timeout = 5, -- The amount of time to wait when allium errors before restarting
     updates = { -- Various update configurations.
         notify = { -- Configurations to trigger notifications when parts of Allium are ready for an update
             dependencies = true, -- Notify when dependencies need updating
@@ -84,20 +83,12 @@ if config.updates.notify.dependencies then
             allium_version
         }
         depman = function(task)
-            local args = {}
-            for i = 1, #depargs do
-                args[i] = depargs[i]
-            end
-            local out
+            local out = {}
             local temp = _G.print -- The good ol' switcheroo
             _G.print = function(...) out = {...} end
-            local result, err = pcall(load(contents, "Depman", nil, _ENV), task, table.unpack(args))
+            local result = pcall(load(contents, "Depman", nil, _ENV), task, table.unpack(depargs))
             _G.print = temp
-            if result then
-                return result, table.unpack(out)
-            else
-                return result, err
-            end
+            return result, table.unpack(out)
         end
         config.updates.check.dependencies = function()
             local suc, out = depman("scan")
@@ -113,6 +104,17 @@ if config.updates.notify.dependencies then
     end
 end
 
+
+-- First run installation of utilities
+if firstrun then
+    print("Welcome to Allium! Doing some first-run setup and then we'll be on our way.")
+    fs.delete(fs.combine(path, "/lib"))
+    if depman then
+        depman("upgrade")
+    end
+end
+local github, json = require("lib.nap")("https://api.github.com"), require("lib.json")
+
 if config.updates.notify.allium then
     config.updates.check.allium = function()
         local repo = config.updates.repo
@@ -163,12 +165,9 @@ if config.updates.notify.plugins then
     -- Things will be here
 end
 
--- First run installation of utilities
+-- Final firstrun stuff
 if firstrun then
-    print("Welcome to Allium! Doing some first-run setup and then we'll be on our way.")
-    if depman then
-        depman("upgrade")
-    end
+    print("Finalizing installation")
     local sha, file = config.updates.check.allium(), fs.open(fs.combine(path, "/cfg/version.lson"), "w")
     if file then
         file.write(textutils.serialise({sha = sha, version = allium_version}))
@@ -231,11 +230,4 @@ for _, side in pairs(peripheral.getNames()) do -- Finding the chat module
 			end
 		end
     end
-end
-
--- Rebooting or exiting
-if config.restart_timeout > 0 then
-    print("Rebooting in "..config.restart_timeout.." seconds")
-    print("Press any key to cancel")
-    parallel.waitForAny(function() repeat until os.pullEvent("char") end, function() sleep(config.restart_timeout) os.reboot() end)
 end
\ No newline at end of file

From d97a2d0301647ec22459662435f6c518320f9d1c Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Sat, 26 Oct 2019 23:09:59 -0700
Subject: [PATCH 30/32] Fix newline issue

roger is a bitch
he aint shit
he can suck
on my dick
I aint with
all this shit
why he do me like this???
---
 allium.lua              | 22 +++++++++++-----------
 plugins/allium-stem.lua |  6 +++---
 2 files changed, 14 insertions(+), 14 deletions(-)

diff --git a/allium.lua b/allium.lua
index f0ddd31..72a70dc 100644
--- a/allium.lua
+++ b/allium.lua
@@ -1,7 +1,7 @@
 -- Allium by hugeblank
 
 -- Dependency Loading
-local raisin, color, semver, mojson = require("lib.raisin"), require("lib.color"), require("lib.semver"), require("lib.mojson")
+local raisin, color, semver, mojson, json = require("lib.raisin"), require("lib.color"), require("lib.semver"), require("lib.mojson"), require("lib.json")
 
 -- Internal definitions
 local allium, plugins, group = {}, {}, {thread = raisin.group(1) , command = raisin.group(2)}
@@ -133,15 +133,16 @@ end
 
 allium.tell = function(name, message, alt_name)
 	assert(type(name) == "string", "Invalid argument #1 (expected string, got "..type(name)..")")
-    assert(type(message) == "string" or type(message) == "table", "Invalid argument #2 (expected string or table, got "..type(message)..")")
-	local out
+	assert(type(message) == "string" or type(message) == "table", "Invalid argument #2 (expected string or table, got "..type(message)..")")
+	local out = {}
 	if type(message) == "table" then
-		_, out = commands.tellraw(name, color.format(table.concat(message, "\n")))
+		for i = 1, #message do
+			_, out[#out+1] = commands.async.tellraw(name, json.encode(color.format(message[i])))
+		end
 	else
-	--message = message:gsub("\n", "\\n")
-		_, out = commands.tellraw(name, color.format((function(alt_name) if alt_name == true then return "" elseif alt_name then return alt_name.."&r" else return config.label.."&r" end end)(alt_name)..message))
-    end
-    return textutils.serialise(out)
+		_, out = commands.tellraw(name, json.encode(color.format((function(alt_name) if alt_name == true then return "" elseif alt_name then return alt_name.."&r" else return config.label.."&r" end end)(alt_name)..message)))
+	end
+    return out
 end
 
 allium.execute = function(name, command)
@@ -463,8 +464,8 @@ do -- Plugin loading process
 			end
 		end
 	end
-	if fs.exists(path.."/plugins") then
-		scopeDown(path.."/plugins")
+	if fs.exists(fs.combine(path, "/plugins")) then
+		scopeDown(fs.combine(path, "/plugins"))
 	end
 	raisin.manager.runGroup(loader_group)
 end
@@ -675,7 +676,6 @@ local update_interaction = function()
 				if table.remove(e, 1) == common.bY then
 					if x-common.bX == 0 then -- Terminate
 						allium.log("Exiting Allium...")
-						sleep(1)
 						return
 					elseif x-common.bX == 1 then -- Reboot
 						allium.log("Rebooting...")
diff --git a/plugins/allium-stem.lua b/plugins/allium-stem.lua
index f02c27a..97b748b 100644
--- a/plugins/allium-stem.lua
+++ b/plugins/allium-stem.lua
@@ -132,14 +132,14 @@ local help = function(name, args, data)
 	local function run()
 		for i = (cmds_per*(page-1))+1, (cmds_per*page) do
 			if info[i] then
-				out_str = out_str..info[i].."\\n"
+				out_str = out_str..info[i].."\n"
 			end
 		end
 		if #out_str == 0 or page <= 0 then
 			data.error("Page does not exist.")
 			return
 		end
-		out_str = "&2===================&r &dAll&5i&r&dum&e Help Menu&r &2===================&r\\n"..out_str
+		out_str = "&2===================&r &dAll&5i&r&dum&e Help Menu&r &2===================&r\n"..out_str
 		local template = #(" << "..page.."/"..math.ceil(#info/cmds_per).." >> ")
 		local sides = 32-template
 		out_str = out_str.."&2"..string.rep("=", sides).."&r &6&l&h(Previous Page)&g("..next_command..(page-1)..")<<&r&c&l "..page.."/"..math.ceil(#info/cmds_per).." &r&6&l&h(Next Page)&g("..next_command..(page+1)..")>>&r &2"..string.rep("=", sides).."&r"
@@ -217,7 +217,7 @@ end
 
 local credits = function(name)
 	allium.tell(name, {
-		"&dAll&5i&dum &av"..tostring(allium.version).."&r was cultivated with love by &a&h(Check out his repo!)&i(https://github.com/hugeblank)hugeblank&r.",
+		"&dAll&5i&dum &av"..tostring(allium.version).."&r was cultivated with love by &a&h(Check out his profile!)&i(https://github.com/hugeblank)hugeblank&r.",
 		"Documentation on Allium can be found here: &9&h(Read up on Allium!)&ihttps://github.com/hugeblank/allium-wiki&r.",
 		"Contribute and report issues to Allium here: &9&h(Check out where Allium is grown!)&ihttps://github.com/hugeblank/allium&r.",
 		"&6Other Contributors:",

From 8a62785b9f1c7f4a3fdb2903a8afe1abfcaa382a Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Sat, 26 Oct 2019 23:54:07 -0700
Subject: [PATCH 31/32] Utilize latest version of raisin

---
 allium.lua | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/allium.lua b/allium.lua
index 72a70dc..bd0aa77 100644
--- a/allium.lua
+++ b/allium.lua
@@ -676,7 +676,7 @@ local update_interaction = function()
 				if table.remove(e, 1) == common.bY then
 					if x-common.bX == 0 then -- Terminate
 						allium.log("Exiting Allium...")
-						return
+						raisin.manager.halt()
 					elseif x-common.bX == 1 then -- Reboot
 						allium.log("Rebooting...")
 						sleep(1)
@@ -715,6 +715,6 @@ end
 
 allium.log("Allium started.")
 allium.tell("@a", "&eHello World!")
-raisin.manager.run(1)
+raisin.manager.run()
 
 package.preload["allium"] = nil
\ No newline at end of file

From 6360b3abf1957b23ae960452e656f0784aa1ecc2 Mon Sep 17 00:00:00 2001
From: hugeblank <toddlangejr@gmail.com>
Date: Wed, 6 Nov 2019 22:41:03 -0800
Subject: [PATCH 32/32] Final changes for release

---
 allium.lua  | 60 +++++++++++++++++++++++++----------------------------
 startup.lua | 20 +++++++++---------
 2 files changed, 38 insertions(+), 42 deletions(-)

diff --git a/allium.lua b/allium.lua
index bd0aa77..3362969 100644
--- a/allium.lua
+++ b/allium.lua
@@ -66,7 +66,7 @@ local cli = {
 	error = {"[", colors.red, "E", colors.white, "] "}
 }
 
-local config = ...
+local config, up = ...
 do -- Configuration parsing
 	if type(config) ~= "table" then
 		printError("Invalid input configuration, make sure you're using the provided init file.")
@@ -612,32 +612,30 @@ local player_scanner = function() -- Login/out scanner thread
     end
 end
 
-local common = {
-	unhide_update = false,
-	run = {}
-}
-common.refresh = function()
-	local done = term.redirect(main)
-	local x, y = term.getSize()
-	common.bY = y-1
-	if common.unhide_update then
-		common.bX = x-6
-		term.setCursorPos(x-6, y-1)
-		term.blit("TRS \24", "888f8", "14efb")
-	else
-		common.bX = x-5
-		term.setCursorPos(x-5, y-1)
-		term.blit("TRS", "888", "14e")
+local update_interaction = function() -- Update UI scanning and handling thread
+	local common = {
+		run = {}
+	}
+	common.refresh = function()
+		local done = term.redirect(main)
+		local x, y = term.getSize()
+		common.bY = y-1
+		if #common.run > 0 then
+			common.bX = x-6
+			term.setCursorPos(x-6, y-1)
+			term.blit("TRS \24", "888f8", "14efb")
+		else
+			common.bX = x-5
+			term.setCursorPos(x-5, y-1)
+			term.blit("TRS", "888", "14e")
+		end
+		term.setBackgroundColor(colors.black) -- Reset terminal and cursor
+		term.setTextColor(colors.white)
+		term.redirect(done)
 	end
-	term.setBackgroundColor(colors.black) -- Reset terminal and cursor
-	term.setTextColor(colors.white)
-	term.redirect(done)
-end
-
-local update_interaction = function()
 	parallel.waitForAll(function() -- Update checker on initialize
-		if config.updates.check.dependencies then
-			local suc, deps = config.updates.check.dependencies()
+		if config.updates.notify.dependencies then
+			local suc, deps = up.check.dependencies()
 			local suffixer
 			if type(deps) == "table" and #deps > 0 then
 				if #deps == 1 then
@@ -646,18 +644,16 @@ local update_interaction = function()
 					suffixer = {"Utilities: ", " are "}
 				end
 				allium.log(suffixer[1]..table.concat(deps, ", ")..suffixer[2].."ready to be updated")
-				common.run[#common.run+1] = {config.updates.run.dependencies}
-				common.unhide_update = true
+				common.run[#common.run+1] = {up.run.dependencies}
 			elseif not suc then
 				print(cli.error, true, "Error in checking for dependency updates: "..deps)
 			end
 		end
-		if config.updates.check.allium then
-			local sha = config.updates.check.allium()
+		if config.updates.notify.allium then
+			local sha = up.check.allium()
 			if sha ~= config.sha then
 				allium.log("Allium is ready to be updated")
-				common.run[#common.run+1] = {config.updates.run.allium, sha}
-				common.unhide_update = true
+				common.run[#common.run+1] = {up.run.allium, sha}
 			elseif not sha then
 				allium.warn("Failed to scan for allium updates")
 			end
@@ -685,7 +681,7 @@ local update_interaction = function()
 						allium.log("Shutting down...")
 						sleep(1)
 						os.shutdown()
-					elseif x-common.bX == 4 and common.unhide_update then -- Update
+					elseif x-common.bX == 4 and #common.run > 0 then -- Update
 						allium.log("Downloading updates...")
 						for i = 1, #common.run do
 							local s, err = pcall(table.unpack(common.run[i]))
diff --git a/startup.lua b/startup.lua
index d9b493d..f212986 100644
--- a/startup.lua
+++ b/startup.lua
@@ -1,6 +1,6 @@
 -- Allium version
 -- x.x.x-pr = unstable, potential breaking changes
-local allium_version = "0.9.0-pr.newcolor"
+local allium_version = "0.9.0"
 
 local path = "/"
 local firstrun = false
@@ -65,10 +65,10 @@ local loadSettings = function(file, default)
     return config
 end
 
-local config = loadSettings(path.."cfg/allium.lson", default)
+local config, up = loadSettings(fs.combine(path, "cfg/allium.lson"), default), {}
 local depman
-config.updates.check = {}
-config.updates.run = {}
+up.check = {}
+up.run = {}
 
 if config.updates.notify.dependencies then
     local depget = http.get("https://raw.githubusercontent.com/hugeblank/allium-depman/master/instance.lua")
@@ -90,7 +90,7 @@ if config.updates.notify.dependencies then
             _G.print = temp
             return result, table.unpack(out)
         end
-        config.updates.check.dependencies = function()
+        up.check.dependencies = function()
             local suc, out = depman("scan")
             if suc then
                 return suc, textutils.unserialise(out)
@@ -98,7 +98,7 @@ if config.updates.notify.dependencies then
                 return suc, out
             end
         end
-        config.updates.run.dependencies = function()
+        up.run.dependencies = function()
             return depman("upgrade")
         end
     end
@@ -116,7 +116,7 @@ end
 local github, json = require("lib.nap")("https://api.github.com"), require("lib.json")
 
 if config.updates.notify.allium then
-    config.updates.check.allium = function()
+    up.check.allium = function()
         local repo = config.updates.repo
         local jsonresponse = github.repos[repo.user][repo.name].commits[repo.branch]({
             method = "GET"
@@ -126,10 +126,10 @@ if config.updates.notify.allium then
             jsonresponse.close()
             return json.decode(out).sha
         else
-            return false
+            return false, "No response from github"
         end
     end
-    config.updates.run.allium = function(sha)
+    up.run.allium = function(sha)
         local repo = config.updates.repo
         local null = function() end
         os.run({
@@ -215,7 +215,7 @@ term.setCursorPos(1, 1)
 
 -- Running Allium
 multishell.setTitle(multishell.getCurrent(), "Allium")
-local s, e = pcall(os.run, _ENV, path.."allium.lua", config)
+local s, e = pcall(os.run, _ENV, path.."allium.lua", config, up)
 if not s then
     printError(e)
 end