From 059f4c0097a8a7b70423ab79db0135ab23df2901 Mon Sep 17 00:00:00 2001
From: Andrew <cybershell@cybershell.xyz>
Date: Wed, 1 Feb 2023 23:45:23 -0600
Subject: [PATCH] added some features

- Added `cron` command to run lists with `cron` time specifed
- Changed `-c` flag to `-f` flag for passing config file
- Modified some config keys
  - cmdArgs -> Args
  - Got rid of `hosts.config`
- better SSH handling
  - respects values in config file
---
 .goreleaser.yaml                 |   2 +-
 README.md                        |  36 +-
 cmd/backup.go                    |  17 +-
 cmd/cron.go                      |  24 ++
 cmd/exec.go                      |  13 +-
 cmd/root.go                      |  33 +-
 examples/backy.yaml              |  27 +-
 go.mod                           |  16 +-
 go.sum                           |  38 +-
 pkg/backy/backy.go               | 646 +++++++------------------------
 pkg/backy/config.go              | 276 +++++++++++++
 pkg/backy/cron.go                |  28 ++
 pkg/backy/mongo.go               |  96 +++++
 pkg/backy/notification.go        |  91 +++++
 pkg/backy/ssh.go                 | 317 ++++++++++++---
 pkg/backy/types.go               | 100 +++--
 pkg/backy/utils.go               | 209 ++++++++++
 pkg/logging/logging.go           |  55 +++
 pkg/notification/notification.go | 101 -----
 19 files changed, 1349 insertions(+), 776 deletions(-)
 create mode 100644 cmd/cron.go
 create mode 100644 pkg/backy/config.go
 create mode 100644 pkg/backy/cron.go
 create mode 100644 pkg/backy/mongo.go
 create mode 100644 pkg/backy/notification.go
 create mode 100644 pkg/backy/utils.go
 delete mode 100644 pkg/notification/notification.go

diff --git a/.goreleaser.yaml b/.goreleaser.yaml
index 5ae1505..2a0be51 100644
--- a/.goreleaser.yaml
+++ b/.goreleaser.yaml
@@ -14,7 +14,7 @@ archives:
   - format: tar.gz
     # this name template makes the OS and Arch compatible with the results of uname.
     name_template: >-
-      {{ .ProjectName }}_
+      {{ .ProjectName }}_{{ .Version }}_
       {{- title .Os }}_
       {{- if eq .Arch "amd64" }}x86_64
       {{- else if eq .Arch "386" }}i386
diff --git a/README.md b/README.md
index 2863edc..aa704c0 100644
--- a/README.md
+++ b/README.md
@@ -25,7 +25,7 @@ To run a config:
 `backy backup`
 
 Or to use a specific file:
-```backy backup -c /path/to/file```
+```backy backup -f /path/to/file```
 
 If you leave the config path blank, the following paths will be searched in order:
 
@@ -38,28 +38,26 @@ Create a file at `~/.config/backy.yaml`:
 commands:
   stop-docker-container:
     cmd: docker
-    cmdArgs:
+    Args:
       - compose
       - -f /some/path/to/docker-compose.yaml
       - down
-    # if host is not defined, 
+    # if host is not defined, cmd will be run locally
     host: some-host 
-    env: ~/path/to/env/file
   backup-docker-container-script:
     cmd: /path/to/script
+    # The host has to be defined in the config file
     host: some-host
-    env: ~/path/to/env/file
   shell-cmd:
     cmd: rsync
     shell: bash
-    cmdArgs:
+    Args:
       - -av some-host:/path/to/data ~/Docker/Backups/docker-data
   hostname:
     cmd: hostname
 
 cmd-configs:
-  # this can be any name you want
-  cmds-to-run: 
+  cmds-to-run: # this can be any name you want
     # all commands have to be defined
     order:
       - stop-docker-container
@@ -68,7 +66,9 @@ cmd-configs:
       - hostname
     notifications:
       - matrix
+    name: backup-some-server
   hostname:
+    name: hostname
     order:
       - hostname
     notifications:
@@ -76,22 +76,26 @@ cmd-configs:
 
 hosts:
   some-host:
-    config:
-      usefile: true
-      user: root
-      private-key-path:
+    hostname: some-hostname
+    config: ~/.ssh/config
+    user: user
+    privatekeypath: /path/to/private/key
+    port: 22
+    password: 
+
 
 logging:
   verbose: true
   file: /path/to/logs/commands.log
+  console: false
+  cmd-std-out: false
 
 
 notifications:
   prod-email:
     id: prod-email
     type: mail
-    host: yourhost.tld
-    port: 587
+    host: yourhost.tld:port
     senderAddress: email@domain.tld
     to:
       - admin@domain.tld
@@ -100,11 +104,9 @@ notifications:
   matrix:
     id: matrix
     type: matrix
-    homeserver: your-home-server.tld
+    home-server: your-home-server.tld
     room-id: room-id
     access-token: your-access-token
     user-id: your-user-id
 
 ```
-
-Note, let me know if a path lookup fails due to using Go's STDLib `os`
diff --git a/cmd/backup.go b/cmd/backup.go
index f95e527..e715580 100644
--- a/cmd/backup.go
+++ b/cmd/backup.go
@@ -1,8 +1,11 @@
+// backup.go
+// Copyright (C) Andrew Woodlee 2023
+// License: Apache-2.0
+
 package cmd
 
 import (
 	"git.andrewnw.xyz/CyberShell/backy/pkg/backy"
-	"git.andrewnw.xyz/CyberShell/backy/pkg/notification"
 
 	"github.com/spf13/cobra"
 )
@@ -18,17 +21,17 @@ var (
 )
 
 // Holds command list to run
-var cmdList []string
+var cmdLists []string
 
 func init() {
 
-	backupCmd.Flags().StringSliceVarP(&cmdList, "lists", "l", nil, "Accepts a comma-separated names of command lists to execute.")
+	backupCmd.Flags().StringSliceVarP(&cmdLists, "lists", "l", nil, "Accepts a comma-separated names of command lists to execute.")
 
 }
 
 func Backup(cmd *cobra.Command, args []string) {
-
-	config := backy.ReadAndParseConfigFile(cfgFile, cmdList)
-	notification.SetupNotify(*config)
-	config.RunBackyConfig()
+	backyConfOpts := backy.NewOpts(cfgFile, backy.AddCommandLists(cmdLists))
+	backyConfOpts.InitConfig()
+	config := backy.ReadConfig(backyConfOpts)
+	config.RunBackyConfig("")
 }
diff --git a/cmd/cron.go b/cmd/cron.go
new file mode 100644
index 0000000..143f3e8
--- /dev/null
+++ b/cmd/cron.go
@@ -0,0 +1,24 @@
+package cmd
+
+import (
+	"git.andrewnw.xyz/CyberShell/backy/pkg/backy"
+
+	"github.com/spf13/cobra"
+)
+
+var (
+	cronCmd = &cobra.Command{
+		Use:   "cron command ...",
+		Short: "Runs commands defined in config file.",
+		Long:  `Cron executes commands at the time defined in config file.`,
+		Run:   cron,
+	}
+)
+
+func cron(cmd *cobra.Command, args []string) {
+
+	opts := backy.NewOpts(cfgFile, backy.UseCron())
+	opts.InitConfig()
+
+	backy.ReadConfig(opts).Cron()
+}
diff --git a/cmd/exec.go b/cmd/exec.go
index aa244ef..49ea8c8 100644
--- a/cmd/exec.go
+++ b/cmd/exec.go
@@ -1,3 +1,7 @@
+// exec.go
+// Copyright (C) Andrew Woodlee 2023
+// License: Apache-2.0
+
 package cmd
 
 import (
@@ -9,7 +13,7 @@ import (
 
 var (
 	execCmd = &cobra.Command{
-		Use:   "exec command1 command2",
+		Use:   "exec command ...",
 		Short: "Runs commands defined in config file.",
 		Long:  `Exec executes commands defined in config file.`,
 		Run:   execute,
@@ -23,9 +27,8 @@ func execute(cmd *cobra.Command, args []string) {
 	}
 
 	opts := backy.NewOpts(cfgFile, backy.AddCommands(args))
-
-	commands := opts.GetCmdsInConfigFile()
-
-	commands.ExecuteCmds()
+	opts.InitConfig()
+	// opts.InitMongo()
+	backy.ReadConfig(opts).ExecuteCmds()
 
 }
diff --git a/cmd/root.go b/cmd/root.go
index 2dcbdcd..fbca535 100644
--- a/cmd/root.go
+++ b/cmd/root.go
@@ -7,11 +7,8 @@ package cmd
 import (
 	"fmt"
 	"os"
-	"path"
-	"strings"
 
 	"github.com/spf13/cobra"
-	"github.com/spf13/viper"
 )
 
 var (
@@ -35,35 +32,9 @@ func Execute() {
 }
 
 func init() {
-	cobra.OnInitialize(initConfig)
 
-	rootCmd.PersistentFlags().StringVarP(&cfgFile, "config", "c", "", "config file to read from")
+	rootCmd.PersistentFlags().StringVarP(&cfgFile, "config", "f", "", "config file to read from")
 	rootCmd.PersistentFlags().BoolVarP(&verbose, "verbose", "v", false, "Sets verbose level")
 
-	rootCmd.AddCommand(backupCmd)
-	rootCmd.AddCommand(execCmd)
-}
-
-func initConfig() {
-	backyConfig := viper.New()
-	if cfgFile != strings.TrimSpace("") {
-		// Use config file from the flag.
-		backyConfig.SetConfigFile(cfgFile)
-	} else {
-		// Find home directory.
-		home, err := os.UserHomeDir()
-		cobra.CheckErr(err)
-
-		configPath := path.Join(home, ".config", "backy")
-		// Search config in config directory with name "backy" (without extension).
-		backyConfig.AddConfigPath(configPath)
-		backyConfig.SetConfigType("yaml")
-		backyConfig.SetConfigName("backy")
-	}
-
-	backyConfig.AutomaticEnv()
-
-	if err := backyConfig.ReadInConfig(); err == nil {
-		// fmt.Println("Using config file:", backyConfig.ConfigFileUsed())
-	}
+	rootCmd.AddCommand(backupCmd, execCmd, cronCmd)
 }
diff --git a/examples/backy.yaml b/examples/backy.yaml
index bc0629d..e1bb24e 100644
--- a/examples/backy.yaml
+++ b/examples/backy.yaml
@@ -1,28 +1,26 @@
 commands:
   stop-docker-container:
     cmd: docker
-    cmdArgs:
+    Args:
       - compose
       - -f /some/path/to/docker-compose.yaml
       - down
-    # if host is not defined, 
+    # if host is not defined, cmd will be run locally
     host: some-host 
-    env: ~/path/to/env/file
   backup-docker-container-script:
     cmd: /path/to/script
+    # The host has to be defined in the config file
     host: some-host
-    env: ~/path/to/env/file
   shell-cmd:
     cmd: rsync
     shell: bash
-    cmdArgs:
+    Args:
       - -av some-host:/path/to/data ~/Docker/Backups/docker-data
   hostname:
     cmd: hostname
 
 cmd-configs:
-  # this can be any name you want
-  cmds-to-run: 
+  cmds-to-run: # this can be any name you want
     # all commands have to be defined
     order:
       - stop-docker-container
@@ -31,7 +29,9 @@ cmd-configs:
       - hostname
     notifications:
       - matrix
+    name: backup-some-server
   hostname:
+    name: hostname
     order:
       - hostname
     notifications:
@@ -39,14 +39,19 @@ cmd-configs:
 
 hosts:
   some-host:
-    config:
-      usefile: true
-      user: root
-      private-key-path:
+    hostname: some-hostname
+    config: ~/.ssh/config
+    user: user
+    privatekeypath: /path/to/private/key
+    port: 22
+    password: 
+
 
 logging:
   verbose: true
   file: /path/to/logs/commands.log
+  console: false
+  cmd-std-out: false
 
 
 notifications:
diff --git a/go.mod b/go.mod
index a96cf0d..c6418df 100644
--- a/go.mod
+++ b/go.mod
@@ -3,30 +3,38 @@ module git.andrewnw.xyz/CyberShell/backy
 go 1.19
 
 require (
+	github.com/go-co-op/gocron v1.18.0
+	github.com/joho/godotenv v1.4.0
 	github.com/kevinburke/ssh_config v1.2.0
+	github.com/mattn/go-isatty v0.0.17
 	github.com/nikoksr/notify v0.36.0
+	github.com/pkg/errors v0.9.1
 	github.com/rs/zerolog v1.28.0
 	github.com/spf13/cobra v1.6.1
 	github.com/spf13/viper v1.14.0
+	go.mongodb.org/mongo-driver v1.11.1
 	golang.org/x/crypto v0.5.0
 	gopkg.in/natefinch/lumberjack.v2 v2.0.0
 	maunium.net/go/mautrix v0.13.0
+	mvdan.cc/sh/v3 v3.6.0
 )
 
 require (
 	github.com/davecgh/go-spew v1.1.1 // indirect
 	github.com/fsnotify/fsnotify v1.6.0 // indirect
+	github.com/golang/snappy v0.0.1 // indirect
 	github.com/hashicorp/hcl v1.0.0 // indirect
 	github.com/inconshreveable/mousetrap v1.1.0 // indirect
 	github.com/jordan-wright/email v4.0.1-0.20210109023952-943e75fe5223+incompatible // indirect
+	github.com/klauspost/compress v1.13.6 // indirect
 	github.com/magiconair/properties v1.8.7 // indirect
 	github.com/mattn/go-colorable v0.1.13 // indirect
-	github.com/mattn/go-isatty v0.0.17 // indirect
 	github.com/mitchellh/mapstructure v1.5.0 // indirect
+	github.com/montanaflynn/stats v0.0.0-20171201202039-1bf9dbcd8cbe // indirect
 	github.com/pelletier/go-toml v1.9.5 // indirect
 	github.com/pelletier/go-toml/v2 v2.0.6 // indirect
-	github.com/pkg/errors v0.9.1 // indirect
 	github.com/pmezard/go-difflib v1.0.0 // indirect
+	github.com/robfig/cron/v3 v3.0.1 // indirect
 	github.com/spf13/afero v1.9.3 // indirect
 	github.com/spf13/cast v1.5.0 // indirect
 	github.com/spf13/jwalterweatherman v1.1.0 // indirect
@@ -38,6 +46,10 @@ require (
 	github.com/tidwall/match v1.1.1 // indirect
 	github.com/tidwall/pretty v1.2.0 // indirect
 	github.com/tidwall/sjson v1.2.5 // indirect
+	github.com/xdg-go/pbkdf2 v1.0.0 // indirect
+	github.com/xdg-go/scram v1.1.1 // indirect
+	github.com/xdg-go/stringprep v1.0.3 // indirect
+	github.com/youmark/pkcs8 v0.0.0-20181117223130-1be2e3e5546d // indirect
 	golang.org/x/net v0.5.0 // indirect
 	golang.org/x/sync v0.1.0 // indirect
 	golang.org/x/sys v0.4.0 // indirect
diff --git a/go.sum b/go.sum
index d074898..4ba7623 100644
--- a/go.sum
+++ b/go.sum
@@ -58,9 +58,11 @@ github.com/envoyproxy/go-control-plane v0.9.4/go.mod h1:6rpuAdCZL397s3pYoYcLgu1m
 github.com/envoyproxy/go-control-plane v0.9.7/go.mod h1:cwu0lG7PUMfa9snN8LXBig5ynNVH9qI8YYLbd1fK2po=
 github.com/envoyproxy/go-control-plane v0.9.9-0.20201210154907-fd9021fe5dad/go.mod h1:cXg6YxExXjJnVBQHBLXeUAgxn2UodCpnH306RInaBQk=
 github.com/envoyproxy/protoc-gen-validate v0.1.0/go.mod h1:iSmxcyjqTsJpI2R4NaDN7+kN2VEUnK/pcBlmesArF7c=
-github.com/frankban/quicktest v1.14.3 h1:FJKSZTDHjyhriyC81FLQ0LY93eSai0ZyR/ZIkd3ZUKE=
+github.com/frankban/quicktest v1.14.4 h1:g2rn0vABPOOXmZUj+vbmUp0lPoXEMuhTpIluN0XL9UY=
 github.com/fsnotify/fsnotify v1.6.0 h1:n+5WquG0fcWoWp6xPWfHdbskMCQaFnG6PfBrh1Ky4HY=
 github.com/fsnotify/fsnotify v1.6.0/go.mod h1:sl3t1tCWJFWoRz9R8WJCbQihKKwmorjAbSClcnxKAGw=
+github.com/go-co-op/gocron v1.18.0 h1:SxTyJ5xnSN4byCq7b10LmmszFdxQlSQJod8s3gbnXxA=
+github.com/go-co-op/gocron v1.18.0/go.mod h1:sD/a0Aadtw5CpflUJ/lpP9Vfdk979Wl1Sg33HPHg0FY=
 github.com/go-gl/glfw v0.0.0-20190409004039-e6da0acd62b1/go.mod h1:vR7hzQXu2zJy9AVAgeJqvqgH9Q5CA+iKCZ2gyEVpxRU=
 github.com/go-gl/glfw/v3.3/glfw v0.0.0-20191125211704-12ad95a8df72/go.mod h1:tQ2UAYgL5IevRw8kRxooKSPJfGvJ9fJQFa0TUsXzTg8=
 github.com/go-gl/glfw/v3.3/glfw v0.0.0-20200222043503-6f7a984d4dc4/go.mod h1:tQ2UAYgL5IevRw8kRxooKSPJfGvJ9fJQFa0TUsXzTg8=
@@ -90,6 +92,8 @@ github.com/golang/protobuf v1.4.0/go.mod h1:jodUvKwWbYaEsadDk5Fwe5c77LiNKVO9IDvq
 github.com/golang/protobuf v1.4.1/go.mod h1:U8fpvMrcmy5pZrNK1lt4xCsGvpyWQ/VVv6QDs8UjoX8=
 github.com/golang/protobuf v1.4.2/go.mod h1:oDoupMAO8OvCJWAcko0GGGIgR6R6ocIYbsSw735rRwI=
 github.com/golang/protobuf v1.4.3/go.mod h1:oDoupMAO8OvCJWAcko0GGGIgR6R6ocIYbsSw735rRwI=
+github.com/golang/snappy v0.0.1 h1:Qgr9rKW7uDUkrbSmQeiDsGa8SjGyCOGtuasMWwvp2P4=
+github.com/golang/snappy v0.0.1/go.mod h1:/XxbfmMg8lxefKM7IXC3fBNl/7bRcc72aCRzEWrmP2Q=
 github.com/google/btree v0.0.0-20180813153112-4030bb1f1f0c/go.mod h1:lNA+9X1NB3Zf8V7Ke586lFgjr2dZNuvo3lPJSGZ5JPQ=
 github.com/google/btree v1.0.0/go.mod h1:lNA+9X1NB3Zf8V7Ke586lFgjr2dZNuvo3lPJSGZ5JPQ=
 github.com/google/go-cmp v0.2.0/go.mod h1:oXzfMopK8JAjlY9xF4vHSVASa0yLyX7SntLO5aqRK0M=
@@ -129,6 +133,8 @@ github.com/ianlancetaylor/demangle v0.0.0-20200824232613-28f6c0f3b639/go.mod h1:
 github.com/inconshreveable/mousetrap v1.0.1/go.mod h1:vpF70FUmC8bwa3OWnCshd2FqLfsEA9PFc4w1p2J65bw=
 github.com/inconshreveable/mousetrap v1.1.0 h1:wN+x4NVGpMsO7ErUn/mUI3vEoE6Jt13X2s0bqwp9tc8=
 github.com/inconshreveable/mousetrap v1.1.0/go.mod h1:vpF70FUmC8bwa3OWnCshd2FqLfsEA9PFc4w1p2J65bw=
+github.com/joho/godotenv v1.4.0 h1:3l4+N6zfMWnkbPEXKng2o2/MR5mSwTrBih4ZEkkz1lg=
+github.com/joho/godotenv v1.4.0/go.mod h1:f4LDr5Voq0i2e/R5DDNOoa2zzDfwtkZa6DnEwAbqwq4=
 github.com/jordan-wright/email v4.0.1-0.20210109023952-943e75fe5223+incompatible h1:jdpOPRN1zP63Td1hDQbZW73xKmzDvZHzVdNYxhnTMDA=
 github.com/jordan-wright/email v4.0.1-0.20210109023952-943e75fe5223+incompatible/go.mod h1:1c7szIrayyPPB/987hsnvNzLushdWf4o/79s3P08L8A=
 github.com/jstemmer/go-junit-report v0.0.0-20190106144839-af01ea7f8024/go.mod h1:6v2b51hI/fHJwM22ozAgKL4VKDeJcHhJFhtBdhmNjmU=
@@ -136,9 +142,11 @@ github.com/jstemmer/go-junit-report v0.9.1/go.mod h1:Brl9GWCQeLvo8nXZwPNNblvFj/X
 github.com/kevinburke/ssh_config v1.2.0 h1:x584FjTGwHzMwvHx18PXxbBVzfnxogHaAReU4gf13a4=
 github.com/kevinburke/ssh_config v1.2.0/go.mod h1:CT57kijsi8u/K/BOFA39wgDQJ9CxiF4nAY/ojJ6r6mM=
 github.com/kisielk/gotool v1.0.0/go.mod h1:XhKaO+MFFWcvkIS/tQcRk01m1F5IRFswLeQ+oQHNcck=
+github.com/klauspost/compress v1.13.6 h1:P76CopJELS0TiO2mebmnzgWaajssP/EszplttgQxcgc=
+github.com/klauspost/compress v1.13.6/go.mod h1:/3/Vjq9QcHkK5uEr5lBEmyoZ1iFhe47etQ6QUkpK6sk=
 github.com/kr/fs v0.1.0/go.mod h1:FFnZGqtBN9Gxj7eW1uZ42v5BccTP0vu6NEaFoC2HwRg=
 github.com/kr/pretty v0.1.0/go.mod h1:dAy3ld7l9f0ibDNOQOHHMYYIIbhfbHSm3C4ZsoJORNo=
-github.com/kr/pretty v0.3.0 h1:WgNl7dwNpEZ6jJ9k1snq4pZsg7DOEN8hP9Xw0Tsjwk0=
+github.com/kr/pretty v0.3.1 h1:flRD4NNwYAUpkphVc1HcthR4KEIFJ65n8Mw5qdRn3LE=
 github.com/kr/pty v1.1.1/go.mod h1:pFQYn66WHrOpPYNljwOMqo10TkYh1fy3cYio2l3bCsQ=
 github.com/kr/text v0.1.0/go.mod h1:4Jbv+DJW3UT/LiOwJeYQe1efqtUx/iVham/4vfdArNI=
 github.com/kr/text v0.2.0 h1:5Nx0Ya0ZqY2ygV366QzturHI13Jq95ApcVaJBhpS+AY=
@@ -153,6 +161,8 @@ github.com/mattn/go-isatty v0.0.17 h1:BTarxUcIeDqL27Mc+vyvdWYSL28zpIhv3RoTdsLMPn
 github.com/mattn/go-isatty v0.0.17/go.mod h1:kYGgaQfpe5nmfYZH+SKPsOc2e4SrIfOl2e/yFXSvRLM=
 github.com/mitchellh/mapstructure v1.5.0 h1:jeMsZIYE/09sWLaz43PL7Gy6RuMjD2eJVyuac5Z2hdY=
 github.com/mitchellh/mapstructure v1.5.0/go.mod h1:bFUtVrKA4DC2yAKiSyO/QUcy7e+RRV2QTWOzhPopBRo=
+github.com/montanaflynn/stats v0.0.0-20171201202039-1bf9dbcd8cbe h1:iruDEfMl2E6fbMZ9s0scYfZQ84/6SPL6zC8ACM2oIL0=
+github.com/montanaflynn/stats v0.0.0-20171201202039-1bf9dbcd8cbe/go.mod h1:wL8QJuTMNUDYhXwkmfOly8iTdp5TEcJFWZD2D7SIkUc=
 github.com/nikoksr/notify v0.36.0 h1:OeO/COtxZYLjtFuxBhpeVLfCFdGt48KKgOHKu43w8H0=
 github.com/nikoksr/notify v0.36.0/go.mod h1:U5h6rVleLTcAJASy7kRdD4vtsFBBxirWQKYX8NJ4jcw=
 github.com/pelletier/go-toml v1.9.5 h1:4yBQzkHv+7BHq2PQUZF3Mx0IYxG7LsP222s7Agd3ve8=
@@ -165,8 +175,10 @@ github.com/pkg/sftp v1.13.1/go.mod h1:3HaPG6Dq1ILlpPZRO0HVMrsydcdLt6HRDccSgb87qR
 github.com/pmezard/go-difflib v1.0.0 h1:4DBwDE0NGyQoBHbLQYPwSUPoCMWR5BEzIk/f1lZbAQM=
 github.com/pmezard/go-difflib v1.0.0/go.mod h1:iKH77koFhYxTK1pcRnkKkqfTogsbg7gZNVY4sRDYZ/4=
 github.com/prometheus/client_model v0.0.0-20190812154241-14fe0d1b01d4/go.mod h1:xMI15A0UPsDsEKsMN9yxemIoYk6Tm2C1GtYGdfGttqA=
+github.com/robfig/cron/v3 v3.0.1 h1:WdRxkvbJztn8LMz/QEvLN5sBU+xKpSqwwUO1Pjr4qDs=
+github.com/robfig/cron/v3 v3.0.1/go.mod h1:eQICP3HwyT7UooqI/z+Ov+PtYAWygg1TEWWzGIFLtro=
 github.com/rogpeppe/go-internal v1.3.0/go.mod h1:M8bDsm7K2OlrFYOpmOWEs/qY81heoFRclV5y23lUDJ4=
-github.com/rogpeppe/go-internal v1.6.1 h1:/FiVV8dS/e+YqF2JvO3yXRFbBLTIuSDkuC7aBOAvL+k=
+github.com/rogpeppe/go-internal v1.9.0 h1:73kH8U+JUqXU8lRuOHeVHaa/SZPifC7BkcraZVejAe8=
 github.com/rs/xid v1.4.0/go.mod h1:trrq9SKmegXys3aeAKXMUTdJsYXVwGY3RLcfgqegfbg=
 github.com/rs/zerolog v1.28.0 h1:MirSo27VyNi7RJYP3078AA1+Cyzd2GB66qy3aUHvsWY=
 github.com/rs/zerolog v1.28.0/go.mod h1:NILgTygv/Uej1ra5XxGf82ZFSLk58MFGAUS2o6usyD0=
@@ -190,6 +202,7 @@ github.com/stretchr/objx v0.5.0/go.mod h1:Yh+to48EsGEfYuaHDzXPcE3xhTkx73EhmCGUpE
 github.com/stretchr/testify v1.2.2/go.mod h1:a8OnRcib4nhh0OaRAV+Yts87kKdq0PP7pXfy6kDkUVs=
 github.com/stretchr/testify v1.4.0/go.mod h1:j7eGeouHqKxXV5pUuKE4zz7dFj8WfuZ+81PSLYec5m4=
 github.com/stretchr/testify v1.5.1/go.mod h1:5W2xD1RspED5o8YsWQXVCued0rvSQ+mT+I5cxcmMvtA=
+github.com/stretchr/testify v1.6.1/go.mod h1:6Fq8oRcR53rry900zMqJjRRixrwX3KX962/h/Wwjteg=
 github.com/stretchr/testify v1.7.0/go.mod h1:6Fq8oRcR53rry900zMqJjRRixrwX3KX962/h/Wwjteg=
 github.com/stretchr/testify v1.7.1/go.mod h1:6Fq8oRcR53rry900zMqJjRRixrwX3KX962/h/Wwjteg=
 github.com/stretchr/testify v1.8.0/go.mod h1:yNjHg4UonilssWZ8iaSj1OCr/vHnekPRkoO+kdMU+MU=
@@ -202,14 +215,25 @@ github.com/tidwall/gjson v1.14.4 h1:uo0p8EbA09J7RQaflQ1aBRffTR7xedD2bcIVSYxLnkM=
 github.com/tidwall/gjson v1.14.4/go.mod h1:/wbyibRr2FHMks5tjHJ5F8dMZh3AcwJEMf5vlfC0lxk=
 github.com/tidwall/match v1.1.1 h1:+Ho715JplO36QYgwN9PGYNhgZvoUSc9X2c80KVTi+GA=
 github.com/tidwall/match v1.1.1/go.mod h1:eRSPERbgtNPcGhD8UCthc6PmLEQXEWd3PRB5JTxsfmM=
+github.com/tidwall/pretty v1.0.0/go.mod h1:XNkn88O1ChpSDQmQeStsy+sBenx6DDtFZJxhVysOjyk=
 github.com/tidwall/pretty v1.2.0 h1:RWIZEg2iJ8/g6fDDYzMpobmaoGh5OLl4AXtGUGPcqCs=
 github.com/tidwall/pretty v1.2.0/go.mod h1:ITEVvHYasfjBbM0u2Pg8T2nJnzm8xPwvNhhsoaGGjNU=
 github.com/tidwall/sjson v1.2.5 h1:kLy8mja+1c9jlljvWTlSazM7cKDRfJuR/bOJhcY5NcY=
 github.com/tidwall/sjson v1.2.5/go.mod h1:Fvgq9kS/6ociJEDnK0Fk1cpYF4FIW6ZF7LAe+6jwd28=
+github.com/xdg-go/pbkdf2 v1.0.0 h1:Su7DPu48wXMwC3bs7MCNG+z4FhcyEuz5dlvchbq0B0c=
+github.com/xdg-go/pbkdf2 v1.0.0/go.mod h1:jrpuAogTd400dnrH08LKmI/xc1MbPOebTwRqcT5RDeI=
+github.com/xdg-go/scram v1.1.1 h1:VOMT+81stJgXW3CpHyqHN3AXDYIMsx56mEFrB37Mb/E=
+github.com/xdg-go/scram v1.1.1/go.mod h1:RaEWvsqvNKKvBPvcKeFjrG2cJqOkHTiyTpzz23ni57g=
+github.com/xdg-go/stringprep v1.0.3 h1:kdwGpVNwPFtjs98xCGkHjQtGKh86rDcRZN17QEMCOIs=
+github.com/xdg-go/stringprep v1.0.3/go.mod h1:W3f5j4i+9rC0kuIEJL0ky1VpHXQU3ocBgklLGvcBnW8=
+github.com/youmark/pkcs8 v0.0.0-20181117223130-1be2e3e5546d h1:splanxYIlg+5LfHAM6xpdFEAYOk8iySO56hMFq6uLyA=
+github.com/youmark/pkcs8 v0.0.0-20181117223130-1be2e3e5546d/go.mod h1:rHwXgn7JulP+udvsHwJoVG1YGAP6VLg4y9I5dyZdqmA=
 github.com/yuin/goldmark v1.1.25/go.mod h1:3hX8gzYuyVAZsxl0MRgGTJEmQBFcNTphYh9decYSb74=
 github.com/yuin/goldmark v1.1.27/go.mod h1:3hX8gzYuyVAZsxl0MRgGTJEmQBFcNTphYh9decYSb74=
 github.com/yuin/goldmark v1.1.32/go.mod h1:3hX8gzYuyVAZsxl0MRgGTJEmQBFcNTphYh9decYSb74=
 github.com/yuin/goldmark v1.2.1/go.mod h1:3hX8gzYuyVAZsxl0MRgGTJEmQBFcNTphYh9decYSb74=
+go.mongodb.org/mongo-driver v1.11.1 h1:QP0znIRTuL0jf1oBQoAoM0C6ZJfBK4kx0Uumtv1A7w8=
+go.mongodb.org/mongo-driver v1.11.1/go.mod h1:s7p5vEtfbeR1gYi6pnj3c3/urpbLv2T5Sfd6Rp2HBB8=
 go.opencensus.io v0.21.0/go.mod h1:mSImk1erAIZhrmZN+AvHh14ztQfjbGwt4TtuofqLduU=
 go.opencensus.io v0.22.0/go.mod h1:+kGneAE2xo2IficOXnaByMWTGM9T73dGwxeWcUqIpI8=
 go.opencensus.io v0.22.2/go.mod h1:yxeiOL68Rb0Xd1ddK5vPZ/oVn4vY4Ynel7k9FzqtOIw=
@@ -223,6 +247,7 @@ golang.org/x/crypto v0.0.0-20191011191535-87dc89f01550/go.mod h1:yigFU9vqHzYiE8U
 golang.org/x/crypto v0.0.0-20200622213623-75b288015ac9/go.mod h1:LzIPMQfyMNhhGPhUkYOs5KpL4U8rLKemX1yGLhDgUto=
 golang.org/x/crypto v0.0.0-20210421170649-83a5a9bb288b/go.mod h1:T9bdIzuCu7OtxOm1hfPfRQxPLYneinmdGuTeoZ9dtd4=
 golang.org/x/crypto v0.0.0-20211108221036-ceb1ce70b4fa/go.mod h1:GvvjBRRGRdwPK5ydBHafDWAxML/pGHZbMvKqRZ5+Abc=
+golang.org/x/crypto v0.0.0-20220622213112-05595931fe9d/go.mod h1:IxCIyHEi3zRg3s0A5j5BB6A9Jmi73HwBIUl50j+osU4=
 golang.org/x/crypto v0.5.0 h1:U/0M97KRkSFvyD/3FSmdP5W5swImpNgle/EHFhOsQPE=
 golang.org/x/crypto v0.5.0/go.mod h1:NK/OQwhpMQP3MwtdjgLlYHnH9ebylxKWv3e0fK+mkQU=
 golang.org/x/exp v0.0.0-20190121172915-509febef88a4/go.mod h1:CJ0aWSM057203Lf6IL+f9T1iT9GByDxfZKAQTCR3kQA=
@@ -289,6 +314,7 @@ golang.org/x/net v0.0.0-20201031054903-ff519b6c9102/go.mod h1:sp8m0HH+o8qH0wwXwY
 golang.org/x/net v0.0.0-20201209123823-ac852fbbde11/go.mod h1:m0MpNAwzfU5UDzcl9v0D8zg8gWTRqZa9RBIspLL5mdg=
 golang.org/x/net v0.0.0-20201224014010-6772e930b67b/go.mod h1:m0MpNAwzfU5UDzcl9v0D8zg8gWTRqZa9RBIspLL5mdg=
 golang.org/x/net v0.0.0-20210226172049-e18ecbb05110/go.mod h1:m0MpNAwzfU5UDzcl9v0D8zg8gWTRqZa9RBIspLL5mdg=
+golang.org/x/net v0.0.0-20211112202133-69e39bad7dc2/go.mod h1:9nx3DQGgdP8bBQD5qxJ1jj9UTztislL4KSBs9R2vV5Y=
 golang.org/x/net v0.5.0 h1:GyT4nK/YDHSqa1c4753ouYCDajOYKTja9Xb/OHtgvSw=
 golang.org/x/net v0.5.0/go.mod h1:DivGGAXEgPSlEBzxGzZI+ZLohi+xUj054jfeKui00ws=
 golang.org/x/oauth2 v0.0.0-20180821212333-d2e6202438be/go.mod h1:N/0e6XlmueqKjAGxoOufVs8QHGRruUQn6yWY3a++T0U=
@@ -310,6 +336,7 @@ golang.org/x/sync v0.0.0-20200317015054-43a5402ce75a/go.mod h1:RxMgew5VJxzue5/jJ
 golang.org/x/sync v0.0.0-20200625203802-6e8e738ad208/go.mod h1:RxMgew5VJxzue5/jJTE5uejpjVlOe/izrB70Jof72aM=
 golang.org/x/sync v0.0.0-20201020160332-67f06af15bc9/go.mod h1:RxMgew5VJxzue5/jJTE5uejpjVlOe/izrB70Jof72aM=
 golang.org/x/sync v0.0.0-20201207232520-09787c993a3a/go.mod h1:RxMgew5VJxzue5/jJTE5uejpjVlOe/izrB70Jof72aM=
+golang.org/x/sync v0.0.0-20210220032951-036812b2e83c/go.mod h1:RxMgew5VJxzue5/jJTE5uejpjVlOe/izrB70Jof72aM=
 golang.org/x/sync v0.1.0 h1:wsuoTGHzEhffawBOhz5CYhcrV4IdKZbEyZjBMuTp12o=
 golang.org/x/sync v0.1.0/go.mod h1:RxMgew5VJxzue5/jJTE5uejpjVlOe/izrB70Jof72aM=
 golang.org/x/sys v0.0.0-20180830151530-49385e6e1522/go.mod h1:STP8DvDyc/dI5b8T5hshtkjS+E42TnysNCUPdjciGhY=
@@ -344,6 +371,7 @@ golang.org/x/sys v0.0.0-20201201145000-ef89a241ccb3/go.mod h1:h1NjWce9XRLGQEsW7w
 golang.org/x/sys v0.0.0-20210104204734-6f8348627aad/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
 golang.org/x/sys v0.0.0-20210119212857-b64e53b001e4/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
 golang.org/x/sys v0.0.0-20210225134936-a50acf3fe073/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
+golang.org/x/sys v0.0.0-20210423082822-04245dca01da/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
 golang.org/x/sys v0.0.0-20210423185535-09eb48e85fd7/go.mod h1:h1NjWce9XRLGQEsW7wpKNCjG9DtNlClVuFLEZdDNbEs=
 golang.org/x/sys v0.0.0-20210615035016-665e8c7367d1/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg=
 golang.org/x/sys v0.0.0-20210630005230-0f9fa26af87c/go.mod h1:oPkhp1MJrh7nUepCBck5+mAzfO9JrbApNNgaTdGDITg=
@@ -360,6 +388,8 @@ golang.org/x/text v0.3.1-0.20180807135948-17ff2d5776d2/go.mod h1:NqM8EUOU14njkJ3
 golang.org/x/text v0.3.2/go.mod h1:bEr9sfX3Q8Zfm5fL9x+3itogRgK3+ptLWKqgva+5dAk=
 golang.org/x/text v0.3.3/go.mod h1:5Zoc/QRtKVWzQhOtBMvqHzDpF6irO9z98xDceosuGiQ=
 golang.org/x/text v0.3.4/go.mod h1:5Zoc/QRtKVWzQhOtBMvqHzDpF6irO9z98xDceosuGiQ=
+golang.org/x/text v0.3.6/go.mod h1:5Zoc/QRtKVWzQhOtBMvqHzDpF6irO9z98xDceosuGiQ=
+golang.org/x/text v0.3.7/go.mod h1:u+2+/6zg+i71rQMx5EYifcz6MCKuco9NR6JIITiCfzQ=
 golang.org/x/text v0.6.0 h1:3XmdazWV+ubf7QgHSTWeykHOci5oeekaGJBLkrkaw4k=
 golang.org/x/text v0.6.0/go.mod h1:mrYo+phRRbMaCq/xk9113O4dZlRixOauAjOtrjsXDZ8=
 golang.org/x/time v0.0.0-20181108054448-85acf8d2951c/go.mod h1:tRJNPiyCQ0inRvYxbN9jk5I+vvW/OXSQhTDSoE431IQ=
@@ -527,6 +557,8 @@ honnef.co/go/tools v0.0.1-2020.1.3/go.mod h1:X/FiERA/W4tHapMX5mGpAtMSVEeEUOyHaw9
 honnef.co/go/tools v0.0.1-2020.1.4/go.mod h1:X/FiERA/W4tHapMX5mGpAtMSVEeEUOyHaw9vFzvIQ3k=
 maunium.net/go/mautrix v0.13.0 h1:CRdpMFc1kDSNnCZMcqahR9/pkDy/vgRbd+fHnSCl6Yg=
 maunium.net/go/mautrix v0.13.0/go.mod h1:gYMQPsZ9lQpyKlVp+DGwOuc9LIcE/c8GZW2CvKHISgM=
+mvdan.cc/sh/v3 v3.6.0 h1:gtva4EXJ0dFNvl5bHjcUEvws+KRcDslT8VKheTYkbGU=
+mvdan.cc/sh/v3 v3.6.0/go.mod h1:U4mhtBLZ32iWhif5/lD+ygy1zrgaQhUu+XFy7C8+TTA=
 rsc.io/binaryregexp v0.2.0/go.mod h1:qTv7/COck+e2FymRvadv62gMdZztPaShugOCi3I+8D8=
 rsc.io/quote/v3 v3.1.0/go.mod h1:yEA65RcK8LyAZtP9Kv3t0HmxON59tX3rD+tICJqUlj0=
 rsc.io/sampler v1.3.0/go.mod h1:T1hPZKmBbMNahiBKFy5HrXp6adAjACjK9JXDnKaTXpA=
diff --git a/pkg/backy/backy.go b/pkg/backy/backy.go
index 161bc13..0d4bb4c 100644
--- a/pkg/backy/backy.go
+++ b/pkg/backy/backy.go
@@ -6,187 +6,210 @@ package backy
 import (
 	"bufio"
 	"bytes"
-	"errors"
+	"context"
 	"fmt"
 	"io"
 	"os"
 	"os/exec"
-	"os/user"
-	"path/filepath"
-	"strings"
-	"time"
 
-	"git.andrewnw.xyz/CyberShell/backy/pkg/logging"
 	"github.com/rs/zerolog"
-	"github.com/spf13/viper"
-	"golang.org/x/crypto/ssh"
-	"gopkg.in/natefinch/lumberjack.v2"
 )
 
-var requiredKeys = []string{"commands", "cmd-configs"}
+var requiredKeys = []string{"commands", "cmd-configs", "logging"}
 
 var Sprintf = fmt.Sprintf
 
-func (c *BackyConfigOpts) LogLvl(level string) BackyOptionFunc {
-
-	return func(bco *BackyConfigOpts) {
-		c.BackyLogLvl = &level
-	}
-}
-
-func AddCommands(commands []string) BackyOptionFunc {
-	return func(bco *BackyConfigOpts) {
-		bco.executeCmds = append(bco.executeCmds, commands...)
-	}
-}
-
-func NewOpts(configFilePath string, opts ...BackyOptionFunc) *BackyConfigOpts {
-	b := &BackyConfigOpts{}
-	b.ConfigFilePath = configFilePath
-	for _, opt := range opts {
-		if opt != nil {
-			opt(b)
-		}
-	}
-	return b
-}
-
-/*
-NewConfig initializes new config that holds information	from the config file
-*/
-func NewConfig() *BackyConfigFile {
-	return &BackyConfigFile{
-		Cmds:           make(map[string]*Command),
-		CmdConfigLists: make(map[string]*CmdConfig),
-		Hosts:          make(map[string]Host),
-		Notifications:  make(map[string]*NotificationsConfig),
-	}
-}
-
-type environmentVars struct {
-	file string
-	env  []string
-}
-
 // RunCmd runs a Command.
 // The environment of local commands will be the machine's environment plus any extra
 // variables specified in the Env file or Environment.
-//
-// If host is specifed, the command will call ConnectToSSHHost,
-// returning a client that is used to run the command.
-func (command *Command) RunCmd(log *zerolog.Logger) {
+// Dir can also be specified for local commands.
+func (command *Command) RunCmd(log *zerolog.Logger) error {
 
-	var envVars = environmentVars{
-		file: command.Env,
-		env:  command.Environment,
-	}
+	var (
+		ArgsStr       string
+		cmdOutBuf     bytes.Buffer
+		cmdOutWriters io.Writer
+
+		envVars = environmentVars{
+			file: command.Env,
+			env:  command.Environment,
+		}
+	)
 	envVars.env = append(envVars.env, os.Environ()...)
 
-	var cmdArgsStr string
-	for _, v := range command.CmdArgs {
-		cmdArgsStr += fmt.Sprintf(" %s", v)
-	}
-	var hostStr string
-	if command.Host != nil {
-		hostStr = *command.Host
+	for _, v := range command.Args {
+		ArgsStr += fmt.Sprintf(" %s", v)
 	}
 
-	log.Info().Str("Command", fmt.Sprintf("Running command: %s %s on host %s", command.Cmd, cmdArgsStr, hostStr)).Send()
 	if command.Host != nil {
-		command.RemoteHost.Host = *command.Host
-		command.RemoteHost.Port = 22
+		log.Info().Str("Command", fmt.Sprintf("Running command: %s %s on host %s", command.Cmd, ArgsStr, *command.Host)).Send()
+
 		sshc, err := command.RemoteHost.ConnectToSSHHost(log)
 		if err != nil {
-			log.Err(fmt.Errorf("ssh dial: %w", err)).Send()
+			return err
 		}
 		defer sshc.Close()
 		commandSession, err := sshc.NewSession()
 		if err != nil {
 			log.Err(fmt.Errorf("new ssh session: %w", err)).Send()
+			return err
 		}
 		defer commandSession.Close()
 
 		injectEnvIntoSSH(envVars, commandSession, log)
 		cmd := command.Cmd
-		for _, a := range command.CmdArgs {
+		for _, a := range command.Args {
 			cmd += " " + a
 		}
+		cmdOutWriters = io.MultiWriter(&cmdOutBuf)
 
-		var stdoutBuf, stderrBuf bytes.Buffer
-		commandSession.Stdout = io.MultiWriter(os.Stdout, &stdoutBuf)
-		commandSession.Stderr = io.MultiWriter(os.Stderr, &stderrBuf)
+		if IsCmdStdOutEnabled() {
+			cmdOutWriters = io.MultiWriter(os.Stdout, &cmdOutBuf)
+		}
+
+		commandSession.Stdout = cmdOutWriters
+		commandSession.Stderr = cmdOutWriters
 		err = commandSession.Run(cmd)
-		log.Info().Bytes(fmt.Sprintf("%s stdout", command.Cmd), stdoutBuf.Bytes()).Send()
-		log.Info().Bytes(fmt.Sprintf("%s stderr", command.Cmd), stderrBuf.Bytes()).Send()
+		outScanner := bufio.NewScanner(&cmdOutBuf)
+		for outScanner.Scan() {
+			outMap := make(map[string]interface{})
+			outMap["cmd"] = cmd
+			outMap["output"] = outScanner.Text()
+			log.Info().Fields(outMap).Send()
+		}
 
 		if err != nil {
 			log.Error().Err(fmt.Errorf("error when running cmd: %s: %w", command.Cmd, err)).Send()
+			return err
 		}
 	} else {
 		cmdExists := command.checkCmdExists()
 		if !cmdExists {
-			log.Error().Str(command.Cmd, "not found").Send()
+			log.Info().Str(command.Cmd, "not found").Send()
 		}
-		// shell := "/bin/bash"
+
 		var err error
 		if command.Shell != "" {
-			cmdArgsStr = fmt.Sprintf("%s %s", command.Cmd, cmdArgsStr)
-			localCMD := exec.Command(command.Shell, "-c", cmdArgsStr)
+			log.Info().Str("Command", fmt.Sprintf("Running command: %s %s on local machine in %s", command.Cmd, ArgsStr, command.Shell)).Send()
+			ArgsStr = fmt.Sprintf("%s %s", command.Cmd, ArgsStr)
+			localCMD := exec.Command(command.Shell, "-c", ArgsStr)
 			if command.Dir != nil {
 				localCMD.Dir = *command.Dir
 			}
-
-			var stdoutBuf, stderrBuf bytes.Buffer
-			localCMD.Stdout = io.MultiWriter(os.Stdout, &stdoutBuf)
-			localCMD.Stderr = io.MultiWriter(os.Stderr, &stderrBuf)
 			injectEnvIntoLocalCMD(envVars, localCMD, log)
+
+			cmdOutWriters = io.MultiWriter(&cmdOutBuf)
+
+			if IsCmdStdOutEnabled() {
+				cmdOutWriters = io.MultiWriter(os.Stdout, &cmdOutBuf)
+			}
+
+			localCMD.Stdout = cmdOutWriters
+			localCMD.Stderr = cmdOutWriters
 			err = localCMD.Run()
-			log.Info().Bytes(fmt.Sprintf("%s stdout", command.Cmd), stdoutBuf.Bytes()).Send()
-			log.Info().Bytes(fmt.Sprintf("%s stderr", command.Cmd), stderrBuf.Bytes()).Send()
+			outScanner := bufio.NewScanner(&cmdOutBuf)
+			for outScanner.Scan() {
+				outMap := make(map[string]interface{})
+				outMap["cmd"] = command.Cmd
+				outMap["output"] = outScanner.Text()
+				log.Info().Fields(outMap).Send()
+			}
 
 			if err != nil {
 				log.Error().Err(fmt.Errorf("error when running cmd: %s: %w", command.Cmd, err)).Send()
+				return err
 			}
-			return
+			return nil
 		}
-		localCMD := exec.Command(command.Cmd, command.CmdArgs...)
+		log.Info().Str("Command", fmt.Sprintf("Running command: %s %s on local machine", command.Cmd, ArgsStr)).Send()
+
+		localCMD := exec.Command(command.Cmd, command.Args...)
 		if command.Dir != nil {
 			localCMD.Dir = *command.Dir
 		}
-		var stdoutBuf, stderrBuf bytes.Buffer
-		localCMD.Stdout = io.MultiWriter(os.Stdout, &stdoutBuf)
-		localCMD.Stderr = io.MultiWriter(os.Stderr, &stderrBuf)
 		injectEnvIntoLocalCMD(envVars, localCMD, log)
+		cmdOutWriters = io.MultiWriter(&cmdOutBuf)
+
+		if IsCmdStdOutEnabled() {
+			cmdOutWriters = io.MultiWriter(os.Stdout, &cmdOutBuf)
+		}
+		localCMD.Stdout = cmdOutWriters
+		localCMD.Stderr = cmdOutWriters
 		err = localCMD.Run()
-		log.Info().Bytes(fmt.Sprintf("%s stdout", command.Cmd), stdoutBuf.Bytes()).Send()
-		log.Info().Bytes(fmt.Sprintf("%s stderr", command.Cmd), stderrBuf.Bytes()).Send()
+		outScanner := bufio.NewScanner(&cmdOutBuf)
+		for outScanner.Scan() {
+			outMap := make(map[string]interface{})
+			outMap["cmd"] = command.Cmd
+			outMap["output"] = outScanner.Text()
+			log.Info().Fields(outMap).Send()
+		}
 		if err != nil {
 			log.Error().Err(fmt.Errorf("error when running cmd: %s: %w", command.Cmd, err)).Send()
+			return err
 		}
 	}
+	return nil
 }
 
-func cmdListWorker(id int, jobs <-chan *CmdConfig, config *BackyConfigFile, results chan<- string) {
-	for j := range jobs {
-		for _, cmd := range j.Order {
+func cmdListWorker(id int, jobs <-chan *CmdList, config *BackyConfigFile, results chan<- string) {
+	for list := range jobs {
+		var currentCmd string
+		fieldsMap := make(map[string]interface{})
+		fieldsMap["list"] = list.Name
+		cmdLog := config.Logger.Info()
+		var count int
+		var Msg string
+		for _, cmd := range list.Order {
+			currentCmd = config.Cmds[cmd].Cmd
+			fieldsMap["cmd"] = config.Cmds[cmd].Cmd
+			cmdLog.Fields(fieldsMap).Send()
 			cmdToRun := config.Cmds[cmd]
-			cmdToRun.RunCmd(&config.Logger)
+			cmdLogger := config.Logger.With().
+				Str("backy-cmd", cmd).
+				Logger()
+			runOutErr := cmdToRun.RunCmd(&cmdLogger)
+			count++
+			if runOutErr != nil {
+				if list.NotifyConfig != nil {
+					notifySendErr := list.NotifyConfig.Send(context.Background(), fmt.Sprintf("List %s failed on command %s ", list.Name, cmd),
+						fmt.Sprintf("List %s failed on command %s running command %s. \n Error: %v", list.Name, cmd, currentCmd, runOutErr))
+					if notifySendErr != nil {
+						config.Logger.Err(notifySendErr).Send()
+					}
+				}
+				config.Logger.Err(runOutErr).Send()
+				break
+			} else {
+
+				if count == len(list.Order) {
+					Msg += fmt.Sprintf("%s ", cmd)
+					if list.NotifyConfig != nil {
+						err := list.NotifyConfig.Send(context.Background(), fmt.Sprintf("List %s succeded", list.Name),
+							fmt.Sprintf("Command list %s was completed successfully. The following commands ran:\n %s", list.Name, Msg))
+						if err != nil {
+							config.Logger.Err(err).Send()
+						}
+					}
+				} else {
+					Msg += fmt.Sprintf("%s, ", cmd)
+				}
+			}
 		}
+
 		results <- "done"
 	}
 }
 
 // RunBackyConfig runs a command list from the BackyConfigFile.
-func (config *BackyConfigFile) RunBackyConfig() {
+func (config *BackyConfigFile) RunBackyConfig(cron string) {
 	configListsLen := len(config.CmdConfigLists)
-	jobs := make(chan *CmdConfig, configListsLen)
+	listChan := make(chan *CmdList, configListsLen)
 	results := make(chan string)
-	// configChan := make(chan map[string]Command)
 
 	// This starts up 3 workers, initially blocked
 	// because there are no jobs yet.
 	for w := 1; w <= 3; w++ {
-		go cmdListWorker(w, jobs, config, results)
+		go cmdListWorker(w, listChan, config, results)
 
 	}
 
@@ -194,10 +217,15 @@ func (config *BackyConfigFile) RunBackyConfig() {
 	// channel to indicate that's all the work we have.
 	// configChan <- config.Cmds
 	for _, cmdConfig := range config.CmdConfigLists {
-		jobs <- cmdConfig
-		// fmt.Println("sent job", config.Order)
+		if cron != "" {
+			if cron == cmdConfig.Cron {
+				listChan <- cmdConfig
+			}
+		} else {
+			listChan <- cmdConfig
+		}
 	}
-	close(jobs)
+	close(listChan)
 
 	for a := 1; a <= configListsLen; a++ {
 		<-results
@@ -210,413 +238,3 @@ func (config *BackyConfigFile) ExecuteCmds() {
 		cmd.RunCmd(&config.Logger)
 	}
 }
-
-// ReadAndParseConfigFile validates and reads the config file.
-func ReadAndParseConfigFile(configFile string, lists []string) *BackyConfigFile {
-
-	backyConfigFile := NewConfig()
-
-	backyViper := viper.New()
-
-	if configFile != "" {
-		backyViper.SetConfigFile(configFile)
-	} else {
-		backyViper.SetConfigName("backy.yaml")          // name of config file (with extension)
-		backyViper.SetConfigType("yaml")                // REQUIRED if the config file does not have the extension in the name
-		backyViper.AddConfigPath(".")                   // optionally look for config in the working directory
-		backyViper.AddConfigPath("$HOME/.config/backy") // call multiple times to add many search paths
-	}
-	err := backyViper.ReadInConfig() // Find and read the config file
-	if err != nil {                  // Handle errors reading the config file
-		panic(fmt.Errorf("fatal error reading config file %s: %w", backyViper.ConfigFileUsed(), err))
-	}
-
-	CheckConfigValues(backyViper)
-
-	for _, l := range lists {
-		if !backyViper.IsSet(getCmdListFromConfig(l)) {
-			logging.ExitWithMSG(Sprintf("list %s not found", l), 1, nil)
-		}
-	}
-
-	var backyLoggingOpts *viper.Viper
-	backyLoggingOptsSet := backyViper.IsSet("logging")
-	if backyLoggingOptsSet {
-		backyLoggingOpts = backyViper.Sub("logging")
-	}
-	verbose := backyLoggingOpts.GetBool("verbose")
-
-	logFile := backyLoggingOpts.GetString("file")
-	if verbose {
-		zerolog.SetGlobalLevel(zerolog.InfoLevel)
-		globalLvl := zerolog.GlobalLevel().String()
-		os.Setenv("BACKY_LOGLEVEL", globalLvl)
-	}
-	output := zerolog.ConsoleWriter{Out: os.Stdout, TimeFormat: time.RFC1123}
-	output.FormatLevel = func(i interface{}) string {
-		return strings.ToUpper(fmt.Sprintf("| %-6s|", i))
-	}
-	output.FormatMessage = func(i interface{}) string {
-		return fmt.Sprintf("%s", i)
-	}
-	output.FormatFieldName = func(i interface{}) string {
-		return fmt.Sprintf("%s: ", i)
-	}
-	output.FormatFieldValue = func(i interface{}) string {
-		return strings.ToUpper(fmt.Sprintf("%s", i))
-	}
-
-	fileLogger := &lumberjack.Logger{
-		MaxSize:    500, // megabytes
-		MaxBackups: 3,
-		MaxAge:     28,   //days
-		Compress:   true, // disabled by default
-	}
-	if strings.TrimSpace(logFile) != "" {
-		fileLogger.Filename = logFile
-	} else {
-		fileLogger.Filename = "./backy.log"
-	}
-
-	// UNIX Time is faster and smaller than most timestamps
-	zerolog.TimeFieldFormat = zerolog.TimeFormatUnix
-	// zerolog.TimeFieldFormat = time.RFC1123
-	writers := zerolog.MultiLevelWriter(os.Stdout, fileLogger)
-	log := zerolog.New(writers).With().Timestamp().Logger()
-
-	backyConfigFile.Logger = log
-
-	commandsMap := backyViper.GetStringMapString("commands")
-	commandsMapViper := backyViper.Sub("commands")
-	unmarshalErr := commandsMapViper.Unmarshal(&backyConfigFile.Cmds)
-	if unmarshalErr != nil {
-		panic(fmt.Errorf("error unmarshalling cmds struct: %w", unmarshalErr))
-	}
-
-	var cmdNames []string
-	for k := range commandsMap {
-		cmdNames = append(cmdNames, k)
-	}
-	hostConfigsMap := make(map[string]*viper.Viper)
-
-	for _, cmdName := range cmdNames {
-		subCmd := backyViper.Sub(getNestedConfig("commands", cmdName))
-
-		hostSet := subCmd.IsSet("host")
-		host := subCmd.GetString("host")
-
-		if hostSet {
-			log.Debug().Timestamp().Str(cmdName, "host is set").Str("host", host).Send()
-			if backyViper.IsSet(getNestedConfig("hosts", host)) {
-				hostconfig := backyViper.Sub(getNestedConfig("hosts", host))
-				hostConfigsMap[host] = hostconfig
-			}
-		} else {
-			log.Debug().Timestamp().Str(cmdName, "host is not set").Send()
-		}
-
-	}
-
-	cmdListCfg := backyViper.Sub("cmd-configs")
-	unmarshalErr = cmdListCfg.Unmarshal(&backyConfigFile.CmdConfigLists)
-	if unmarshalErr != nil {
-		panic(fmt.Errorf("error unmarshalling cmd list struct: %w", unmarshalErr))
-	}
-	var cmdNotFoundSliceErr []error
-	for cmdListName, cmdList := range backyConfigFile.CmdConfigLists {
-		for _, cmdInList := range cmdList.Order {
-			_, cmdNameFound := backyConfigFile.Cmds[cmdInList]
-			if !cmdNameFound {
-				cmdNotFoundStr := fmt.Sprintf("command %s is not defined in config file", cmdInList)
-				cmdNotFoundErr := errors.New(cmdNotFoundStr)
-				cmdNotFoundSliceErr = append(cmdNotFoundSliceErr, cmdNotFoundErr)
-			} else {
-				log.Info().Str(cmdInList, "found in "+cmdListName).Send()
-			}
-		}
-		for _, notificationID := range cmdList.Notifications {
-
-			cmdList.NotificationsConfig = make(map[string]*NotificationsConfig)
-			notifConfig := backyViper.Sub(getNestedConfig("notifications", notificationID))
-			config := &NotificationsConfig{
-				Config:  notifConfig,
-				Enabled: true,
-			}
-			cmdList.NotificationsConfig[notificationID] = config
-			// First we get a "copy" of the entry
-			if entry, ok := cmdList.NotificationsConfig[notificationID]; ok {
-
-				// Then we modify the copy
-				entry.Config = notifConfig
-				entry.Enabled = true
-
-				// Then we reassign the copy
-				cmdList.NotificationsConfig[notificationID] = entry
-			}
-			backyConfigFile.CmdConfigLists[cmdListName].NotificationsConfig[notificationID] = config
-
-		}
-	}
-
-	if len(lists) > 0 {
-		for l := range backyConfigFile.CmdConfigLists {
-			if !contains(lists, l) {
-				delete(backyConfigFile.CmdConfigLists, l)
-			}
-		}
-	}
-
-	if len(cmdNotFoundSliceErr) > 0 {
-		var cmdNotFoundErrorLog = log.Fatal()
-		for _, err := range cmdNotFoundSliceErr {
-			if err != nil {
-				cmdNotFoundErrorLog.Err(err)
-			}
-		}
-		cmdNotFoundErrorLog.Send()
-	}
-
-	var notificationsMap = make(map[string]interface{})
-	if backyViper.IsSet("notifications") {
-		notificationsMap = backyViper.GetStringMap("notifications")
-		for id := range notificationsMap {
-			notifConfig := backyViper.Sub(getNestedConfig("notifications", id))
-			config := &NotificationsConfig{
-				Config:  notifConfig,
-				Enabled: true,
-			}
-			backyConfigFile.Notifications[id] = config
-		}
-	}
-
-	return backyConfigFile
-}
-
-// GetCmdsInConfigFile validates and reads the config file for commands.
-func (opts *BackyConfigOpts) GetCmdsInConfigFile() *BackyConfigFile {
-
-	backyConfigFile := NewConfig()
-
-	backyViper := viper.New()
-
-	if opts.ConfigFilePath != strings.TrimSpace("") {
-		backyViper.SetConfigFile(opts.ConfigFilePath)
-	} else {
-		backyViper.SetConfigName("backy.yaml")          // name of config file (with extension)
-		backyViper.SetConfigType("yaml")                // REQUIRED if the config file does not have the extension in the name
-		backyViper.AddConfigPath(".")                   // optionally look for config in the working directory
-		backyViper.AddConfigPath("$HOME/.config/backy") // call multiple times to add many search paths
-	}
-	err := backyViper.ReadInConfig() // Find and read the config file
-	if err != nil {                  // Handle errors reading the config file
-		panic(fmt.Errorf("fatal error reading config file %s: %w", backyViper.ConfigFileUsed(), err))
-	}
-
-	CheckConfigValues(backyViper)
-	for _, c := range opts.executeCmds {
-		if !backyViper.IsSet(getCmdFromConfig(c)) {
-			logging.ExitWithMSG(Sprintf("command %s is not in config file %s", c, backyViper.ConfigFileUsed()), 1, nil)
-		}
-	}
-	var backyLoggingOpts *viper.Viper
-	backyLoggingOptsSet := backyViper.IsSet("logging")
-	if backyLoggingOptsSet {
-		backyLoggingOpts = backyViper.Sub("logging")
-	}
-	verbose := backyLoggingOpts.GetBool("verbose")
-
-	logFile := backyLoggingOpts.GetString("file")
-	if verbose {
-		zerolog.SetGlobalLevel(zerolog.InfoLevel)
-		globalLvl := zerolog.GlobalLevel().String()
-		os.Setenv("BACKY_LOGLEVEL", globalLvl)
-	}
-	output := zerolog.ConsoleWriter{Out: os.Stdout, TimeFormat: time.RFC1123}
-	output.FormatLevel = func(i interface{}) string {
-		return strings.ToUpper(fmt.Sprintf("| %-6s|", i))
-	}
-	output.FormatMessage = func(i interface{}) string {
-		return fmt.Sprintf("%s", i)
-	}
-	output.FormatFieldName = func(i interface{}) string {
-		return fmt.Sprintf("%s: ", i)
-	}
-	output.FormatFieldValue = func(i interface{}) string {
-		return strings.ToUpper(fmt.Sprintf("%s", i))
-	}
-
-	fileLogger := &lumberjack.Logger{
-		MaxSize:    500, // megabytes
-		MaxBackups: 3,
-		MaxAge:     28,   //days
-		Compress:   true, // disabled by default
-	}
-	if strings.TrimSpace(logFile) != "" {
-		fileLogger.Filename = logFile
-	} else {
-		fileLogger.Filename = "./backy.log"
-	}
-
-	// UNIX Time is faster and smaller than most timestamps
-	zerolog.TimeFieldFormat = zerolog.TimeFormatUnix
-	// zerolog.TimeFieldFormat = time.RFC1123
-	writers := zerolog.MultiLevelWriter(os.Stdout, fileLogger)
-	log := zerolog.New(writers).With().Timestamp().Logger()
-
-	backyConfigFile.Logger = log
-
-	commandsMap := backyViper.GetStringMapString("commands")
-	commandsMapViper := backyViper.Sub("commands")
-	unmarshalErr := commandsMapViper.Unmarshal(&backyConfigFile.Cmds)
-	if unmarshalErr != nil {
-		panic(fmt.Errorf("error unmarshalling cmds struct: %w", unmarshalErr))
-	}
-
-	var cmdNames []string
-	for c := range commandsMap {
-		if contains(opts.executeCmds, c) {
-			cmdNames = append(cmdNames, c)
-		}
-		if !contains(opts.executeCmds, c) {
-			delete(backyConfigFile.Cmds, c)
-		}
-	}
-
-	hostConfigsMap := make(map[string]*viper.Viper)
-
-	for _, cmdName := range cmdNames {
-		subCmd := backyViper.Sub(getNestedConfig("commands", cmdName))
-
-		hostSet := subCmd.IsSet("host")
-		host := subCmd.GetString("host")
-
-		if hostSet {
-			log.Debug().Timestamp().Str(cmdName, "host is set").Str("host", host).Send()
-			if backyViper.IsSet(getNestedConfig("hosts", host)) {
-				hostconfig := backyViper.Sub(getNestedConfig("hosts", host))
-				hostConfigsMap[host] = hostconfig
-			}
-		} else {
-			log.Debug().Timestamp().Str(cmdName, "host is not set").Send()
-		}
-
-	}
-
-	return backyConfigFile
-}
-
-func getNestedConfig(nestedConfig, key string) string {
-	return fmt.Sprintf("%s.%s", nestedConfig, key)
-}
-
-func getCmdFromConfig(key string) string {
-	return fmt.Sprintf("commands.%s", key)
-}
-func getCmdListFromConfig(list string) string {
-	return fmt.Sprintf("cmd-configs.%s", list)
-}
-
-func resolveDir(path string) (string, error) {
-	usr, err := user.Current()
-	if err != nil {
-		return path, err
-	}
-	dir := usr.HomeDir
-	if path == "~" {
-		// In case of "~", which won't be caught by the "else if"
-		path = dir
-	} else if strings.HasPrefix(path, "~/") {
-		// Use strings.HasPrefix so we don't match paths like
-		// "/something/~/something/"
-		path = filepath.Join(dir, path[2:])
-	}
-	return path, nil
-}
-
-func injectEnvIntoSSH(envVarsToInject environmentVars, process *ssh.Session, log *zerolog.Logger) {
-	if envVarsToInject.file != "" {
-		envPath, envPathErr := resolveDir(envVarsToInject.file)
-		if envPathErr != nil {
-			log.Err(envPathErr).Send()
-		}
-		file, err := os.Open(envPath)
-		if err != nil {
-			log.Err(err).Send()
-		}
-		defer file.Close()
-
-		scanner := bufio.NewScanner(file)
-		for scanner.Scan() {
-			envVar := scanner.Text()
-			envVarArr := strings.Split(envVar, "=")
-			process.Setenv(envVarArr[0], envVarArr[1])
-		}
-		if err := scanner.Err(); err != nil {
-			log.Err(err).Send()
-		}
-	}
-	if len(envVarsToInject.env) > 0 {
-		for _, envVal := range envVarsToInject.env {
-			if strings.Contains(envVal, "=") {
-				envVarArr := strings.Split(envVal, "=")
-				process.Setenv(strings.ToUpper(envVarArr[0]), envVarArr[1])
-			}
-		}
-	}
-}
-
-func injectEnvIntoLocalCMD(envVarsToInject environmentVars, process *exec.Cmd, log *zerolog.Logger) {
-	if envVarsToInject.file != "" {
-		envPath, envPathErr := resolveDir(envVarsToInject.file)
-		if envPathErr != nil {
-			log.Error().Err(envPathErr).Send()
-		}
-		file, err := os.Open(envPath)
-		if err != nil {
-			log.Err(err).Send()
-		}
-		defer file.Close()
-
-		scanner := bufio.NewScanner(file)
-		for scanner.Scan() {
-			envVar := scanner.Text()
-			process.Env = append(process.Env, envVar)
-		}
-		if err := scanner.Err(); err != nil {
-			log.Err(err).Send()
-		}
-	}
-	if len(envVarsToInject.env) > 0 {
-		for _, envVal := range envVarsToInject.env {
-			if strings.Contains(envVal, "=") {
-				process.Env = append(process.Env, envVal)
-			}
-		}
-	}
-	envVarsToInject.env = append(envVarsToInject.env, os.Environ()...)
-}
-
-func (cmd *Command) checkCmdExists() bool {
-	_, err := exec.LookPath(cmd.Cmd)
-	return err == nil
-}
-
-func contains(s []string, e string) bool {
-	for _, a := range s {
-		if a == e {
-			return true
-		}
-	}
-	return false
-}
-
-func CheckConfigValues(config *viper.Viper) {
-
-	for _, key := range requiredKeys {
-		isKeySet := config.IsSet(key)
-		if !isKeySet {
-			logging.ExitWithMSG(Sprintf("Config key %s is not defined in %s", key, config.ConfigFileUsed()), 1, nil)
-		}
-
-	}
-}
diff --git a/pkg/backy/config.go b/pkg/backy/config.go
new file mode 100644
index 0000000..daa56ac
--- /dev/null
+++ b/pkg/backy/config.go
@@ -0,0 +1,276 @@
+package backy
+
+import (
+	"errors"
+	"fmt"
+	"os"
+	"path"
+	"strings"
+
+	"git.andrewnw.xyz/CyberShell/backy/pkg/logging"
+	"github.com/joho/godotenv"
+	"github.com/mattn/go-isatty"
+	"github.com/rs/zerolog"
+	"github.com/spf13/viper"
+	"mvdan.cc/sh/v3/shell"
+)
+
+// ReadConfig validates and reads the config file.
+func ReadConfig(opts *BackyConfigOpts) *BackyConfigFile {
+
+	if isatty.IsTerminal(os.Stdout.Fd()) {
+		os.Setenv("BACKY_TERM", "enabled")
+	} else if isatty.IsCygwinTerminal(os.Stdout.Fd()) {
+		os.Setenv("BACKY_TERM", "enabled")
+	} else {
+		os.Setenv("BACKY_TERM", "disabled")
+	}
+
+	backyConfigFile := NewConfig()
+	backyViper := opts.viper
+	// loadEnv(backyViper)
+	envFileInConfigDir := fmt.Sprintf("%s/.env", path.Dir(backyViper.ConfigFileUsed()))
+
+	envFileErr := godotenv.Load()
+	if envFileErr != nil {
+		_ = godotenv.Load(envFileInConfigDir)
+	}
+	if backyViper.GetBool(getNestedConfig("logging", "cmd-std-out")) {
+		os.Setenv("BACKY_STDOUT", "enabled")
+	}
+
+	CheckConfigValues(backyViper)
+	for _, c := range opts.executeCmds {
+		if !backyViper.IsSet(getCmdFromConfig(c)) {
+			logging.ExitWithMSG(Sprintf("command %s is not in config file %s", c, backyViper.ConfigFileUsed()), 1, nil)
+		}
+	}
+
+	for _, l := range opts.executeLists {
+		if !backyViper.IsSet(getCmdListFromConfig(l)) {
+			logging.ExitWithMSG(Sprintf("list %s not found", l), 1, nil)
+		}
+	}
+
+	var backyLoggingOpts *viper.Viper
+	isBackyLoggingOptsSet := backyViper.IsSet("logging")
+	if isBackyLoggingOptsSet {
+		backyLoggingOpts = backyViper.Sub("logging")
+	}
+	verbose := backyLoggingOpts.GetBool("verbose")
+
+	logFile := backyLoggingOpts.GetString("file")
+
+	zerolog.SetGlobalLevel(zerolog.InfoLevel)
+
+	if verbose {
+		zerolog.SetGlobalLevel(zerolog.DebugLevel)
+		globalLvl := zerolog.GlobalLevel()
+		os.Setenv("BACKY_LOGLEVEL", Sprintf("%x", globalLvl))
+	}
+
+	consoleLoggingEnabled := backyLoggingOpts.GetBool("console")
+
+	// Other qualifiers can go here as well
+	if consoleLoggingEnabled {
+		os.Setenv("BACKY_CONSOLE_LOGGING", "enabled")
+	} else {
+		os.Setenv("BACKY_CONSOLE_LOGGING", "")
+	}
+
+	writers := logging.SetLoggingWriters(backyLoggingOpts, logFile)
+
+	log := zerolog.New(writers).With().Timestamp().Logger()
+
+	backyConfigFile.Logger = log
+
+	commandsMap := backyViper.GetStringMapString("commands")
+	commandsMapViper := backyViper.Sub("commands")
+	unmarshalErr := commandsMapViper.Unmarshal(&backyConfigFile.Cmds)
+	if unmarshalErr != nil {
+		panic(fmt.Errorf("error unmarshalling cmds struct: %w", unmarshalErr))
+	}
+
+	hostConfigsMap := make(map[string]*viper.Viper)
+
+	for cmdName, cmdConf := range backyConfigFile.Cmds {
+		envFileErr := testFile(cmdConf.Env)
+		if envFileErr != nil {
+			backyConfigFile.Logger.Info().Str("cmd", cmdName).Err(envFileErr).Send()
+			os.Exit(1)
+		}
+
+		host := cmdConf.Host
+		if host != nil {
+			if backyViper.IsSet(getNestedConfig("hosts", *host)) {
+				hostconfig := backyViper.Sub(getNestedConfig("hosts", *host))
+				hostConfigsMap[*host] = hostconfig
+			}
+		}
+	}
+
+	hostsMapViper := backyViper.Sub("hosts")
+	unmarshalErr = hostsMapViper.Unmarshal(&backyConfigFile.Hosts)
+	if unmarshalErr != nil {
+		panic(fmt.Errorf("error unmarshalling hosts struct: %w", unmarshalErr))
+	}
+	for _, v := range backyConfigFile.Hosts {
+
+		if v.JumpHost != "" {
+			proxyHost, defined := backyConfigFile.Hosts[v.JumpHost]
+			if defined {
+				v.ProxyHost = proxyHost
+			}
+		}
+	}
+	cmdListCfg := backyViper.Sub("cmd-configs")
+	unmarshalErr = cmdListCfg.Unmarshal(&backyConfigFile.CmdConfigLists)
+	if unmarshalErr != nil {
+		panic(fmt.Errorf("error unmarshalling cmd list struct: %w", unmarshalErr))
+	}
+
+	var cmdNotFoundSliceErr []error
+	for cmdListName, cmdList := range backyConfigFile.CmdConfigLists {
+		if opts.useCron {
+			cron := strings.TrimSpace(cmdList.Cron)
+			if cron == "" {
+				delete(backyConfigFile.CmdConfigLists, cmdListName)
+			}
+		}
+		for _, cmdInList := range cmdList.Order {
+			_, cmdNameFound := backyConfigFile.Cmds[cmdInList]
+			if !cmdNameFound {
+				cmdNotFoundStr := fmt.Sprintf("command %s in list %s is not defined in config file", cmdInList, cmdListName)
+				cmdNotFoundErr := errors.New(cmdNotFoundStr)
+				cmdNotFoundSliceErr = append(cmdNotFoundSliceErr, cmdNotFoundErr)
+			}
+		}
+		for _, notificationID := range cmdList.Notifications {
+			if !backyViper.IsSet(getNestedConfig("notifications", notificationID)) {
+				logging.ExitWithMSG(fmt.Sprintf("%s in list %s not found in notifications", notificationID, cmdListName), 1, nil)
+			}
+		}
+	}
+
+	if len(cmdNotFoundSliceErr) > 0 {
+		var cmdNotFoundErrorLog = log.Fatal()
+		cmdNotFoundErrorLog.Errs("commands not found", cmdNotFoundSliceErr).Send()
+	}
+
+	if opts.useCron && len(backyConfigFile.CmdConfigLists) > 0 {
+		log.Info().Msg("Starting cron mode...")
+
+	} else if opts.useCron && (len(backyConfigFile.CmdConfigLists) == 0) {
+		logging.ExitWithMSG("No cron fields detected in any command lists", 1, nil)
+	}
+
+	for c := range commandsMap {
+		if opts.executeCmds != nil && !contains(opts.executeCmds, c) {
+			delete(backyConfigFile.Cmds, c)
+		}
+	}
+
+	if len(opts.executeLists) > 0 {
+		for l := range backyConfigFile.CmdConfigLists {
+			if !contains(opts.executeLists, l) {
+				delete(backyConfigFile.CmdConfigLists, l)
+			}
+		}
+	}
+
+	var notificationsMap = make(map[string]interface{})
+	if backyViper.IsSet("notifications") {
+		notificationsMap = backyViper.GetStringMap("notifications")
+		for id := range notificationsMap {
+			notifConfig := backyViper.Sub(getNestedConfig("notifications", id))
+			config := &NotificationsConfig{
+				Config:  notifConfig,
+				Enabled: true,
+			}
+			backyConfigFile.Notifications[id] = config
+		}
+	}
+
+	for _, cmd := range backyConfigFile.Cmds {
+		if cmd.Host != nil {
+			host, hostFound := backyConfigFile.Hosts[*cmd.Host]
+			if hostFound {
+				cmd.RemoteHost = host
+				cmd.RemoteHost.Host = host.Host
+				if host.HostName != "" {
+					cmd.RemoteHost.HostName = host.HostName
+				}
+			} else {
+				cmd.RemoteHost = &Host{Host: *cmd.Host}
+			}
+		}
+
+	}
+	backyConfigFile.SetupNotify()
+	return backyConfigFile
+}
+
+func getNestedConfig(nestedConfig, key string) string {
+	return fmt.Sprintf("%s.%s", nestedConfig, key)
+}
+
+func getCmdFromConfig(key string) string {
+	return fmt.Sprintf("commands.%s", key)
+}
+func getCmdListFromConfig(list string) string {
+	return fmt.Sprintf("cmd-configs.%s", list)
+}
+
+func (opts *BackyConfigOpts) InitConfig() {
+	if opts.viper != nil {
+		return
+	}
+	backyViper := viper.New()
+
+	if strings.TrimSpace(opts.ConfigFilePath) != "" {
+		backyViper.SetConfigFile(opts.ConfigFilePath)
+	} else {
+		backyViper.SetConfigName("backy.yaml")          // name of config file (with extension)
+		backyViper.SetConfigType("yaml")                // REQUIRED if the config file does not have the extension in the name
+		backyViper.AddConfigPath(".")                   // optionally look for config in the working directory
+		backyViper.AddConfigPath("$HOME/.config/backy") // call multiple times to add many search paths
+	}
+	err := backyViper.ReadInConfig() // Find and read the config file
+	if err != nil {                  // Handle errors reading the config file
+		panic(fmt.Errorf("fatal error reading config file %s: %w", backyViper.ConfigFileUsed(), err))
+	}
+	opts.viper = backyViper
+}
+
+func loadEnv(backyViper *viper.Viper) {
+	envFileInConfigDir := fmt.Sprintf("%s/.env", path.Dir(backyViper.ConfigFileUsed()))
+	var backyEnv map[string]string
+	backyEnv, envFileErr := godotenv.Read()
+
+	// envFile, envFileErr := os.Open(".env")
+	if envFileErr != nil {
+		backyEnv, _ = godotenv.Read(envFileInConfigDir)
+	}
+	envFileErr = godotenv.Load()
+	if envFileErr != nil {
+		_ = godotenv.Load(envFileInConfigDir)
+	}
+
+	env := func(name string) string {
+		name = strings.ToUpper(name)
+		envVar, found := backyEnv[name]
+		if found {
+			return envVar
+		}
+		return ""
+	}
+	envVars := []string{"APP=${BACKY_APP}"}
+
+	for indx, v := range envVars {
+		if strings.Contains(v, "$") || (strings.Contains(v, "${") && strings.Contains(v, "}")) {
+			out, _ := shell.Expand(v, env)
+			envVars[indx] = out
+			// println(out)
+		}
+	}
+}
diff --git a/pkg/backy/cron.go b/pkg/backy/cron.go
new file mode 100644
index 0000000..b601b4b
--- /dev/null
+++ b/pkg/backy/cron.go
@@ -0,0 +1,28 @@
+// cron.go
+// Copyright (C) Andrew Woodlee 2023
+// License: Apache-2.0
+
+package backy
+
+import (
+	"strings"
+	"time"
+
+	"github.com/go-co-op/gocron"
+)
+
+func (conf *BackyConfigFile) Cron() {
+	s := gocron.NewScheduler(time.Local)
+	s.TagsUnique()
+	for _, config := range conf.CmdConfigLists {
+		if strings.TrimSpace(config.Cron) != "" {
+			_, err := s.CronWithSeconds(config.Cron).Tag(config.Name).Do(func(cron string) {
+				conf.RunBackyConfig(cron)
+			}, config.Cron)
+			if err != nil {
+				panic(err)
+			}
+		}
+	}
+	s.StartBlocking()
+}
diff --git a/pkg/backy/mongo.go b/pkg/backy/mongo.go
new file mode 100644
index 0000000..8eaf195
--- /dev/null
+++ b/pkg/backy/mongo.go
@@ -0,0 +1,96 @@
+package backy
+
+import (
+	"context"
+	"errors"
+	"fmt"
+	"os"
+	"time"
+
+	"github.com/joho/godotenv"
+	"go.mongodb.org/mongo-driver/bson"
+	"go.mongodb.org/mongo-driver/mongo"
+	"go.mongodb.org/mongo-driver/mongo/options"
+	"go.mongodb.org/mongo-driver/mongo/readpref"
+)
+
+const mongoConfigKey = "global.mongo"
+
+func (opts *BackyConfigOpts) InitMongo() {
+
+	if !opts.viper.GetBool(getMongoConfigKey("enabled")) {
+		return
+	}
+	var (
+		err    error
+		client *mongo.Client
+	)
+
+	// TODO: Get uri and creditials from config
+	host := opts.viper.GetString(getMongoConfigKey("host"))
+	port := opts.viper.GetInt32(getMongoConfigKey("port"))
+
+	client, err = mongo.NewClient(options.Client().ApplyURI(fmt.Sprintf("mongo://%s:%d", host, port)))
+	if opts.viper.GetBool(getMongoConfigKey("prod")) {
+		mongoEnvFileSet := opts.viper.IsSet(getMongoConfigKey("env"))
+		if mongoEnvFileSet {
+			getMongoConfigFromEnv(opts)
+		}
+		auth := options.Credential{}
+		auth.Password = opts.viper.GetString("global.mongo.password")
+		auth.Username = opts.viper.GetString("global.mongo.username")
+		client, err = mongo.NewClient(options.Client().SetAuth(auth).ApplyURI("mongodb://localhost:27017"))
+
+	}
+	if err != nil {
+		opts.ConfigFile.Logger.Fatal().Err(err).Send()
+	}
+	ctx, ctxCancel := context.WithTimeout(context.Background(), 10*time.Second)
+	defer ctxCancel()
+	err = client.Connect(ctx)
+	if err != nil {
+		opts.ConfigFile.Logger.Fatal().Err(err).Send()
+	}
+	defer client.Disconnect(ctx)
+	err = client.Ping(ctx, readpref.Primary())
+	if err != nil {
+		opts.ConfigFile.Logger.Fatal().Err(err).Send()
+	}
+	databases, err := client.ListDatabaseNames(ctx, bson.M{})
+	if err != nil {
+		opts.ConfigFile.Logger.Fatal().Err(err).Send()
+	}
+	fmt.Println(databases)
+	backyDB := client.Database("backy")
+	backyDB.CreateCollection(context.Background(), "cmds")
+	backyDB.CreateCollection(context.Background(), "cmd-lists")
+	backyDB.CreateCollection(context.Background(), "logs")
+	opts.DB = backyDB
+}
+
+func getMongoConfigFromEnv(opts *BackyConfigOpts) error {
+	mongoEnvFile, err := os.Open(opts.viper.GetString("global.mongo.env"))
+	if err != nil {
+		return err
+	}
+	mongoMap, mongoErr := godotenv.Parse(mongoEnvFile)
+	if mongoErr != nil {
+		return err
+	}
+	mongoPW, mongoPWFound := mongoMap["MONGO_PASSWORD"]
+	if !mongoPWFound {
+		return errors.New("MONGO_PASSWORD not set in " + mongoEnvFile.Name())
+	}
+	mongoUser, mongoUserFound := mongoMap["MONGO_USER"]
+	if !mongoUserFound {
+		return errors.New("MONGO_PASSWORD not set in " + mongoEnvFile.Name())
+	}
+	opts.viper.Set(mongoConfigKey+".password", mongoPW)
+	opts.viper.Set(mongoConfigKey+".username", mongoUser)
+
+	return nil
+}
+
+func getMongoConfigKey(key string) string {
+	return fmt.Sprintf("global.mongo.%s", key)
+}
diff --git a/pkg/backy/notification.go b/pkg/backy/notification.go
new file mode 100644
index 0000000..d255335
--- /dev/null
+++ b/pkg/backy/notification.go
@@ -0,0 +1,91 @@
+// notification.go
+// Copyright (C) Andrew Woodlee 2023
+// License: Apache-2.0
+package backy
+
+import (
+	"fmt"
+
+	"github.com/nikoksr/notify"
+	"github.com/nikoksr/notify/service/mail"
+	"github.com/nikoksr/notify/service/matrix"
+	"maunium.net/go/mautrix/id"
+)
+
+type matrixStruct struct {
+	homeserver  string
+	roomid      id.RoomID
+	accessToken string
+	userId      id.UserID
+}
+
+type mailConfig struct {
+	senderaddress string
+	host          string
+	to            []string
+	username      string
+	password      string
+	port          string
+}
+
+func SetupCommandsNotifiers(backyConfig BackyConfigFile, ids ...string) {
+
+}
+
+// SetupNotify sets up notify instances for each command list.
+
+func (backyConfig *BackyConfigFile) SetupNotify() {
+
+	for _, cmdConfig := range backyConfig.CmdConfigLists {
+		var services []notify.Notifier
+		for notifyID := range backyConfig.Notifications {
+			if contains(cmdConfig.Notifications, notifyID) {
+
+				if backyConfig.Notifications[notifyID].Enabled {
+					config := backyConfig.Notifications[notifyID].Config
+					switch config.GetString("type") {
+					case "matrix":
+						mtrx := matrixStruct{
+							userId:      id.UserID(config.GetString("user-id")),
+							roomid:      id.RoomID(config.GetString("room-id")),
+							accessToken: config.GetString("access-token"),
+							homeserver:  config.GetString("homeserver"),
+						}
+						mtrxClient, _ := setupMatrix(mtrx)
+						services = append(services, mtrxClient)
+					case "mail":
+						mailCfg := mailConfig{
+							senderaddress: config.GetString("senderaddress"),
+							password:      config.GetString("password"),
+							username:      config.GetString("username"),
+							to:            config.GetStringSlice("to"),
+							host:          config.GetString("host"),
+							port:          fmt.Sprint(config.GetUint16("port")),
+						}
+						mailClient := setupMail(mailCfg)
+						services = append(services, mailClient)
+					}
+				}
+			}
+		}
+		cmdConfig.NotifyConfig = notify.NewWithServices(services...)
+	}
+
+	// logging.ExitWithMSG("This was a test of notifications", 0, nil)
+}
+
+func setupMatrix(config matrixStruct) (*matrix.Matrix, error) {
+	matrixClient, matrixErr := matrix.New(config.userId, config.roomid, config.homeserver, config.accessToken)
+	if matrixErr != nil {
+		panic(matrixErr)
+	}
+	return matrixClient, nil
+
+}
+
+func setupMail(config mailConfig) *mail.Mail {
+	mailClient := mail.New(config.senderaddress, config.host+":"+config.port)
+	mailClient.AuthenticateSMTP("", config.username, config.password, config.host)
+	mailClient.AddReceivers(config.to...)
+	return mailClient
+}
diff --git a/pkg/backy/ssh.go b/pkg/backy/ssh.go
index 403ed12..eefc695 100644
--- a/pkg/backy/ssh.go
+++ b/pkg/backy/ssh.go
@@ -5,95 +5,288 @@
 package backy
 
 import (
+	"bufio"
+	"fmt"
+	"log"
 	"os"
 	"os/user"
-	"path/filepath"
 	"strings"
+	"time"
 
 	"github.com/kevinburke/ssh_config"
+	"github.com/pkg/errors"
 	"github.com/rs/zerolog"
 	"golang.org/x/crypto/ssh"
 	"golang.org/x/crypto/ssh/knownhosts"
 )
 
+var ErrPrivateKeyFileFailedToOpen = errors.New("Private key file failed to open.")
+var TS = strings.TrimSpace
+
 // ConnectToSSHHost connects to a host by looking up the config values in the directory ~/.ssh/config
-// Other than host, it does not yet respect other config values set in the backy config file.
+// It uses any set values and looks up an unset values in the config files
 // It returns an ssh.Client used to run commands against.
 func (remoteConfig *Host) ConnectToSSHHost(log *zerolog.Logger) (*ssh.Client, error) {
 
 	var sshClient *ssh.Client
 	var connectErr error
 
-	khPath := filepath.Join(os.Getenv("HOME"), ".ssh", "known_hosts")
-	f, _ := os.Open(filepath.Join(os.Getenv("HOME"), ".ssh", "config"))
-	cfg, _ := ssh_config.Decode(f)
-	for _, host := range cfg.Hosts {
-		// var hostKey ssh.PublicKey
-		if host.Matches(remoteConfig.Host) {
-			var identityFile string
-			if remoteConfig.PrivateKeyPath == "" {
-				identityFile, _ = cfg.Get(remoteConfig.Host, "IdentityFile")
-				usr, _ := user.Current()
-				dir := usr.HomeDir
-				if identityFile == "~" {
-					// In case of "~", which won't be caught by the "else if"
-					identityFile = dir
-				} else if strings.HasPrefix(identityFile, "~/") {
-					// Use strings.HasPrefix so we don't match paths like
-					// "/something/~/something/"
-					identityFile = filepath.Join(dir, identityFile[2:])
-				}
-				remoteConfig.PrivateKeyPath = filepath.Join(identityFile)
-				log.Debug().Str("Private key path", remoteConfig.PrivateKeyPath).Send()
-			}
-			remoteConfig.HostName, _ = cfg.Get(remoteConfig.Host, "HostName")
-			remoteConfig.User, _ = cfg.Get(remoteConfig.Host, "User")
-			if remoteConfig.HostName == "" {
-				port, _ := cfg.Get(remoteConfig.Host, "Port")
-				if port == "" {
-					port = "22"
-				}
-				// remoteConfig.HostName[0] = remoteConfig.Host + ":" + port
-			} else {
-				// for index, hostName := range remoteConfig.HostName {
-				port, _ := cfg.Get(remoteConfig.Host, "Port")
-				if port == "" {
-					port = "22"
-				}
-				remoteConfig.HostName = remoteConfig.HostName + ":" + port
-				// remoteConfig.HostName[index] = hostName + ":" + port
-			}
+	// TODO: add JumpHost config check
 
-			// TODO: Add value/option to config for host key and add bool to check for host key
-			hostKeyCallback, err := knownhosts.New(khPath)
-			if err != nil {
-				log.Fatal().Err(err).Msg("could not create hostkeycallback function")
+	// if !remoteConfig.UseConfigFiles {
+	// 	log.Info().Msg("Not using config files")
+	// }
+	if TS(remoteConfig.ConfigFilePath) == "" {
+		remoteConfig.useDefaultConfig = true
+	}
+
+	khPath, khPathErr := GetKnownHosts(remoteConfig.KnownHostsFile)
+
+	if khPathErr != nil {
+		return nil, khPathErr
+	}
+	if remoteConfig.ClientConfig == nil {
+		remoteConfig.ClientConfig = &ssh.ClientConfig{}
+	}
+	var sshConfigFile *os.File
+	var sshConfigFileOpenErr error
+	if !remoteConfig.useDefaultConfig {
+
+		sshConfigFile, sshConfigFileOpenErr = os.Open(remoteConfig.ConfigFilePath)
+		if sshConfigFileOpenErr != nil {
+			return nil, sshConfigFileOpenErr
+		}
+	} else {
+		defaultConfig, _ := resolveDir("~/.ssh/config")
+		sshConfigFile, sshConfigFileOpenErr = os.Open(defaultConfig)
+		if sshConfigFileOpenErr != nil {
+			return nil, sshConfigFileOpenErr
+		}
+	}
+	remoteConfig.SSHConfigFile.DefaultUserSettings = ssh_config.DefaultUserSettings
+
+	cfg, decodeErr := ssh_config.Decode(sshConfigFile)
+	if decodeErr != nil {
+		return nil, decodeErr
+	}
+	remoteConfig.SSHConfigFile.SshConfigFile = cfg
+	remoteConfig.GetPrivateKeyFromConfig()
+	remoteConfig.GetHostNameWithPort()
+	remoteConfig.GetSshUserFromConfig()
+
+	if remoteConfig.HostName == "" {
+		return nil, errors.New("No hostname found or specified")
+	}
+	err := remoteConfig.GetAuthMethods()
+	if err != nil {
+		return nil, err
+	}
+
+	// TODO: Add value/option to config for host key and add bool to check for host key
+	hostKeyCallback, err := knownhosts.New(khPath)
+	if err != nil {
+		return nil, errors.Wrap(err, "could not create hostkeycallback function")
+	}
+	remoteConfig.ClientConfig.HostKeyCallback = hostKeyCallback
+	log.Info().Str("user", remoteConfig.ClientConfig.User).Send()
+
+	log.Info().Msgf("Connecting to host %s", remoteConfig.HostName)
+	remoteConfig.ClientConfig.Timeout = time.Second * 30
+	sshClient, connectErr = ssh.Dial("tcp", remoteConfig.HostName, remoteConfig.ClientConfig)
+	if connectErr != nil {
+		return nil, connectErr
+	}
+	return sshClient, nil
+}
+
+func (remoteHost *Host) GetSshUserFromConfig() {
+	if TS(remoteHost.User) == "" {
+		remoteHost.User, _ = remoteHost.SSHConfigFile.SshConfigFile.Get(remoteHost.Host, "User")
+		if TS(remoteHost.User) == "" {
+			remoteHost.User = remoteHost.SSHConfigFile.DefaultUserSettings.Get(remoteHost.Host, "User")
+			if TS(remoteHost.User) == "" {
+				currentUser, _ := user.Current()
+				remoteHost.User = currentUser.Username
 			}
-			privateKey, err := os.ReadFile(remoteConfig.PrivateKeyPath)
+		}
+	}
+	remoteHost.ClientConfig.User = remoteHost.User
+}
+func (remoteHost *Host) GetAuthMethods() error {
+	var signer ssh.Signer
+	var err error
+	var privateKey []byte
+	remoteHost.Password = strings.TrimSpace(remoteHost.Password)
+	remoteHost.PrivateKeyPassword = strings.TrimSpace(remoteHost.PrivateKeyPassword)
+	remoteHost.PrivateKeyPath = strings.TrimSpace(remoteHost.PrivateKeyPath)
+	if remoteHost.PrivateKeyPath != "" {
+		privateKey, err = os.ReadFile(remoteHost.PrivateKeyPath)
+		if err != nil {
+			return err
+		}
+		remoteHost.PrivateKeyPassword, err = GetPrivateKeyPassword(remoteHost.PrivateKeyPassword)
+		if err != nil {
+			return err
+		}
+		if remoteHost.PrivateKeyPassword == "" {
+			signer, err = ssh.ParsePrivateKey(privateKey)
 			if err != nil {
-				log.Fatal().Err(err).Msg("read private key error")
+				return ErrPrivateKeyFileFailedToOpen
 			}
-			signer, err := ssh.ParsePrivateKey(privateKey)
+			remoteHost.ClientConfig.Auth = []ssh.AuthMethod{ssh.PublicKeys(signer)}
+		} else {
+			signer, err = ssh.ParsePrivateKeyWithPassphrase(privateKey, []byte(remoteHost.PrivateKeyPassword))
 			if err != nil {
-				log.Fatal().Err(err).Msg("parse private key error")
+				return err
 			}
-			sshConfig := &ssh.ClientConfig{
-				User:            remoteConfig.User,
-				Auth:            []ssh.AuthMethod{ssh.PublicKeys(signer)},
-				HostKeyCallback: hostKeyCallback,
-				// HostKeyAlgorithms: []string{ssh.KeyAlgoECDSA256},
+			remoteHost.ClientConfig.Auth = []ssh.AuthMethod{ssh.PublicKeys(signer)}
+		}
+	}
+	if remoteHost.Password == "" {
+		remoteHost.Password, err = GetPassword(remoteHost.Password)
+		if err != nil {
+			return err
+		}
+		remoteHost.ClientConfig.Auth = append(remoteHost.ClientConfig.Auth, ssh.Password(remoteHost.Password))
+	}
+	return nil
+}
+
+// GetPrivateKeyFromConfig checks to see if the privateKeyPath is empty.
+// If not, it keeps the value.
+// If empty, the key is looked for in the specified config file.
+// If that path is empty, the default config file is searched
+// If not found in the default file, the privateKeyPath is set to ~/.ssh/id_rsa
+func (remoteHost *Host) GetPrivateKeyFromConfig() {
+	var identityFile string
+	if remoteHost.PrivateKeyPath == "" {
+		identityFile, _ = remoteHost.SSHConfigFile.SshConfigFile.Get(remoteHost.Host, "IdentityFile")
+		if identityFile == "" {
+			identityFile, _ = remoteHost.SSHConfigFile.DefaultUserSettings.GetStrict(remoteHost.Host, "IdentityFile")
+			if identityFile == "" {
+				identityFile = "~/.ssh/id_rsa"
 			}
-			// for _, host := range remoteConfig.HostName {
-			log.Info().Msgf("Connecting to host %s", remoteConfig.HostName)
+		}
+	}
+	if identityFile == "" {
+		identityFile = remoteHost.PrivateKeyPath
+	}
+
+	remoteHost.PrivateKeyPath, _ = resolveDir(identityFile)
+}
+
+// GetHostNameWithPort checks if the port from the config file is empty
+// If it is the port is searched in the SSH config file
+func (remoteHost *Host) GetHostNameWithPort() {
+	var port string
 
-			sshClient, connectErr = ssh.Dial("tcp", remoteConfig.HostName, sshConfig)
-			if connectErr != nil {
-				log.Fatal().Str("host", remoteConfig.HostName).Err(connectErr).Send()
+	if remoteHost.Port == 0 {
+		if remoteHost.HostName == "" {
+			remoteHost.HostName, _ = remoteHost.SSHConfigFile.SshConfigFile.Get(remoteHost.Host, "HostName")
+			if remoteHost.HostName == "" {
+				remoteHost.HostName = remoteHost.SSHConfigFile.DefaultUserSettings.Get(remoteHost.Host, "HostName")
 			}
-			// }
-			break
+			port, _ = remoteHost.SSHConfigFile.SshConfigFile.Get(remoteHost.Host, "Port")
+			if port == "" {
+				port = remoteHost.SSHConfigFile.DefaultUserSettings.Get(remoteHost.Host, "Port")
+				if port == "" {
+					port = "22"
+				}
+			}
+		}
+		remoteHost.HostName = remoteHost.HostName + ":" + port
+	} else {
+		if remoteHost.HostName == "" {
+			remoteHost.HostName, _ = remoteHost.SSHConfigFile.SshConfigFile.Get(remoteHost.Host, "HostName")
+			if remoteHost.HostName == "" {
+				remoteHost.HostName = remoteHost.SSHConfigFile.DefaultUserSettings.Get(remoteHost.Host, "HostName")
+			}
+		}
+		remoteHost.HostName = remoteHost.HostName + ":" + fmt.Sprintf("%v", remoteHost.Port)
+	}
+}
+
+func (remoteHost *Host) ConnectThroughBastion() (*ssh.Client, error) {
+	// connect to the bastion host
+	bClient, err := ssh.Dial("tcp", remoteHost.ProxyHost.HostName, remoteHost.ProxyHost.ClientConfig)
+	if err != nil {
+		return nil, err
+	}
+
+	// Dial a connection to the service host, from the bastion
+	conn, err := bClient.Dial("tcp", remoteHost.HostName)
+	if err != nil {
+		return nil, err
+	}
+
+	ncc, chans, reqs, err := ssh.NewClientConn(conn, remoteHost.HostName, remoteHost.ClientConfig)
+	if err != nil {
+		log.Fatal(err)
+	}
+
+	sClient := ssh.NewClient(ncc, chans, reqs)
+	// sClient is an ssh client connected to the service host, through the bastion host.
+
+	return sClient, nil
+}
+
+func GetKnownHosts(khPath string) (string, error) {
+	if TS(khPath) != "" {
+		return resolveDir(khPath)
+	}
+	return resolveDir("~/.ssh/known_hosts")
+}
+
+func GetPrivateKeyPassword(key string) (string, error) {
+	var prKeyPassword string
+	if strings.HasPrefix(key, "file:") {
+		privKeyPassFilePath := strings.TrimPrefix(key, "file:")
+		privKeyPassFilePath, _ = resolveDir(privKeyPassFilePath)
+		keyFile, keyFileErr := os.Open(privKeyPassFilePath)
+		if keyFileErr != nil {
+			return "", ErrPrivateKeyFileFailedToOpen
 		}
+		passwordScanner := bufio.NewScanner(keyFile)
+		for passwordScanner.Scan() {
+			prKeyPassword = passwordScanner.Text()
+		}
+	} else if strings.HasPrefix(key, "env:") {
+		privKey := strings.TrimPrefix(key, "env:")
+		privKey = strings.TrimPrefix(privKey, "${")
+		privKey = strings.TrimSuffix(privKey, "}")
+		privKey = strings.TrimPrefix(privKey, "$")
+		prKeyPassword = os.Getenv(privKey)
+	} else {
+		prKeyPassword = key
+	}
+	return prKeyPassword, nil
+}
 
+func GetPassword(key string) (string, error) {
+	key = strings.TrimSpace(key)
+	if key == "" {
+		return "", nil
+	}
+	var password string
+	if strings.HasPrefix(key, "file:") {
+		passFilePath := strings.TrimPrefix(key, "file:")
+		passFilePath, _ = resolveDir(passFilePath)
+		keyFile, keyFileErr := os.Open(passFilePath)
+		if keyFileErr != nil {
+			return "", errors.New("Password file failed to open")
+		}
+		passwordScanner := bufio.NewScanner(keyFile)
+		for passwordScanner.Scan() {
+			password = passwordScanner.Text()
+		}
+	} else if strings.HasPrefix(key, "env:") {
+		passEnv := strings.TrimPrefix(key, "env:")
+		passEnv = strings.TrimPrefix(passEnv, "${")
+		passEnv = strings.TrimSuffix(passEnv, "}")
+		passEnv = strings.TrimPrefix(passEnv, "$")
+		password = os.Getenv(passEnv)
+	} else {
+		password = key
 	}
-	return sshClient, connectErr
+	return password, nil
 }
diff --git a/pkg/backy/types.go b/pkg/backy/types.go
index 3eba0b7..d206fa2 100644
--- a/pkg/backy/types.go
+++ b/pkg/backy/types.go
@@ -4,22 +4,59 @@
 package backy
 
 import (
+	"bytes"
+
+	"github.com/kevinburke/ssh_config"
+	"github.com/nikoksr/notify"
 	"github.com/rs/zerolog"
 	"github.com/spf13/viper"
+	"go.mongodb.org/mongo-driver/bson/primitive"
+	"go.mongodb.org/mongo-driver/mongo"
+	"golang.org/x/crypto/ssh"
 )
 
+type CmdConfigSchema struct {
+	ID      primitive.ObjectID `bson:"_id,omitempty"`
+	CmdList []string           `bson:"command-list,omitempty"`
+	Name    string             `bson:"name,omitempty"`
+}
+type CmdSchema struct {
+	ID   primitive.ObjectID `bson:"_id,omitempty"`
+	Cmd  string             `bson:"cmd,omitempty"`
+	Args []string           `bson:"args,omitempty"`
+	Host string             `bson:"host,omitempty"`
+	Dir  string             `bson:"dir,omitempty"`
+}
+
+type Schemas struct {
+	CmdConfigSchema
+	CmdSchema
+}
+
 // Host defines a host to which to connect.
 // If not provided, the values will be looked up in the default ssh config files
 type Host struct {
-	ConfigFilePath     string `yaml:"config-file-path,omitempty"`
-	UseConfigFile      bool
-	Empty              bool
-	Host               string
-	HostName           string
-	Port               uint16
-	PrivateKeyPath     string
-	PrivateKeyPassword string
-	User               string
+	ConfigFilePath     string `yaml:"configfilepath,omitempty"`
+	Host               string `yaml:"host,omitempty"`
+	HostName           string `yaml:"hostname,omitempty"`
+	KnownHostsFile     string `yaml:"knownhostsfile,omitempty"`
+	ClientConfig       *ssh.ClientConfig
+	SSHConfigFile      sshConfigFile
+	Port               uint16 `yaml:"port,omitempty"`
+	JumpHost           string `yaml:"jumphost,omitempty"`
+	Password           string `yaml:"password,omitempty"`
+	PrivateKeyPath     string `yaml:"privatekeypath,omitempty"`
+	PrivateKeyPassword string `yaml:"privatekeypassword,omitempty"`
+	UseConfigFiles     bool   `yaml:"use_config_files,omitempty"`
+	useDefaultConfig   bool
+	User               string `yaml:"user,omitempty"`
+	// ProxyHost holds the configuration for a JumpHost host
+	ProxyHost *Host
+}
+
+type sshConfigFile struct {
+	SshConfigFile       *ssh_config.Config
+	DefaultUserSettings *ssh_config.UserSettings
 }
 
 type Command struct {
@@ -39,10 +76,10 @@ type Command struct {
 	*/
 	Shell string `yaml:"shell,omitempty"`
 
-	RemoteHost Host `yaml:"-"`
+	RemoteHost *Host `yaml:"-"`
 
-	// cmdArgs is an array that holds the arguments to cmd
-	CmdArgs []string `yaml:"cmdArgs,omitempty"`
+	// Args is an array that holds the arguments to cmd
+	Args []string `yaml:"Args,omitempty"`
 
 	/*
 		Dir specifies a directory in which to run the command.
@@ -59,10 +96,14 @@ type Command struct {
 
 type BackyOptionFunc func(*BackyConfigOpts)
 
-type CmdConfig struct {
-	Order               []string `yaml:"order,omitempty"`
-	Notifications       []string `yaml:"notifications,omitempty"`
-	NotificationsConfig map[string]*NotificationsConfig
+type CmdList struct {
+	Name          string   `yaml:"name,omitempty"`
+	Cron          string   `yaml:"cron,omitempty"`
+	Order         []string `yaml:"order,omitempty"`
+	Notifications []string `yaml:"notifications,omitempty"`
+	NotifyConfig  *notify.Notify
+	// NotificationsConfig map[string]*NotificationsConfig
+	// NotifyConfig        map[string]*notify.Notify
 }
 
 type BackyConfigFile struct {
@@ -73,11 +114,11 @@ type BackyConfigFile struct {
 
 	// CmdConfigLists holds the lists of commands to be run in order.
 	// Key is the command list name.
-	CmdConfigLists map[string]*CmdConfig `yaml:"cmd-configs"`
+	CmdConfigLists map[string]*CmdList `yaml:"cmd-configs"`
 
 	// Hosts holds the Host config.
 	// key is the host.
-	Hosts map[string]Host `yaml:"hosts"`
+	Hosts map[string]*Host `yaml:"hosts"`
 
 	// Notifications holds the config for different notifications.
 	Notifications map[string]*NotificationsConfig
@@ -86,14 +127,24 @@ type BackyConfigFile struct {
 }
 
 type BackyConfigOpts struct {
+	// Global log level
+	BackyLogLvl *string
 	// Holds config file
 	ConfigFile *BackyConfigFile
 	// Holds config file
 	ConfigFilePath string
+
+	Schemas
+
+	DB *mongo.Database
+	// use command lists using cron
+	useCron bool
 	// Holds commands to execute for the exec command
 	executeCmds []string
-	// Global log level
-	BackyLogLvl *string
+	// Holds commands to execute for the exec command
+	executeLists []string
+
+	viper *viper.Viper
 }
 
 type NotificationsConfig struct {
@@ -102,11 +153,16 @@ type NotificationsConfig struct {
 }
 
 type CmdOutput struct {
-	StdErr []byte
-	StdOut []byte
+	Err    error
+	Output bytes.Buffer
 }
 
 type BackyCommandOutput interface {
 	Error() error
 	GetOutput() CmdOutput
 }
+
+type environmentVars struct {
+	file string
+	env  []string
+}
diff --git a/pkg/backy/utils.go b/pkg/backy/utils.go
new file mode 100644
index 0000000..c094050
--- /dev/null
+++ b/pkg/backy/utils.go
@@ -0,0 +1,209 @@
+// utils.go
+// Copyright (C) Andrew Woodlee 2023
+// License: Apache-2.0
+
+package backy
+
+import (
+	"errors"
+	"fmt"
+	"os"
+	"os/exec"
+	"path/filepath"
+	"strings"
+
+	"git.andrewnw.xyz/CyberShell/backy/pkg/logging"
+	"github.com/joho/godotenv"
+	"github.com/rs/zerolog"
+	"github.com/spf13/viper"
+	"golang.org/x/crypto/ssh"
+)
+
+func injectEnvIntoSSH(envVarsToInject environmentVars, process *ssh.Session, log *zerolog.Logger) {
+	if envVarsToInject.file != "" {
+		envPath, envPathErr := resolveDir(envVarsToInject.file)
+		if envPathErr != nil {
+			log.Fatal().Str("envFile", envPath).Err(envPathErr).Send()
+		}
+		file, err := os.Open(envPath)
+		if err != nil {
+			log.Fatal().Str("envFile", envPath).Err(err).Send()
+		}
+		defer file.Close()
+
+		envMap, err := godotenv.Parse(file)
+		if err != nil {
+			log.Error().Str("envFile", envPath).Err(err).Send()
+			goto errEnvFile
+		}
+		for key, val := range envMap {
+			process.Setenv(key, val)
+		}
+	}
+
+errEnvFile:
+	if len(envVarsToInject.env) > 0 {
+		for _, envVal := range envVarsToInject.env {
+			// don't append env Vars for Backy
+			if strings.Contains(envVal, "=") && !strings.HasPrefix(envVal, "BACKY_") {
+				envVarArr := strings.Split(envVal, "=")
+				process.Setenv(envVarArr[0], envVarArr[1])
+			}
+		}
+	}
+}
+
+func injectEnvIntoLocalCMD(envVarsToInject environmentVars, process *exec.Cmd, log *zerolog.Logger) {
+	if envVarsToInject.file != "" {
+		envPath, _ := resolveDir(envVarsToInject.file)
+
+		file, _ := os.Open(envPath)
+		// if err != nil {
+		// 	log.Fatal().Str("envFile", envPath).Err(err).Send()
+		// }
+		defer file.Close()
+		envMap, err := godotenv.Parse(file)
+		if err != nil {
+			log.Error().Str("envFile", envPath).Err(err).Send()
+			goto errEnvFile
+		}
+		for key, val := range envMap {
+			process.Env = append(process.Env, fmt.Sprintf("%s=%s", key, val))
+		}
+
+	}
+errEnvFile:
+	if len(envVarsToInject.env) > 0 {
+		for _, envVal := range envVarsToInject.env {
+			if strings.Contains(envVal, "=") {
+				process.Env = append(process.Env, envVal)
+			}
+		}
+	}
+	envVarsToInject.env = append(envVarsToInject.env, os.Environ()...)
+}
+
+func (cmd *Command) checkCmdExists() bool {
+	_, err := exec.LookPath(cmd.Cmd)
+	return err == nil
+}
+
+func contains(s []string, e string) bool {
+	for _, a := range s {
+		if a == e {
+			return true
+		}
+	}
+	return false
+}
+
+func CheckConfigValues(config *viper.Viper) {
+
+	for _, key := range requiredKeys {
+		isKeySet := config.IsSet(key)
+		if !isKeySet {
+			logging.ExitWithMSG(Sprintf("Config key %s is not defined in %s", key, config.ConfigFileUsed()), 1, nil)
+		}
+
+	}
+}
+
+func testFile(c string) error {
+	if strings.TrimSpace(c) != "" {
+		file, fileOpenErr := os.Open(c)
+		file.Close()
+		if errors.Is(fileOpenErr, os.ErrNotExist) {
+			return fileOpenErr
+		}
+
+		fmt.Printf("%s\t\t%v", c, fileOpenErr)
+	}
+
+	return nil
+}
+
+func (c *BackyConfigOpts) LogLvl(level string) BackyOptionFunc {
+
+	return func(bco *BackyConfigOpts) {
+		c.BackyLogLvl = &level
+	}
+}
+
+// AddCommands adds commands to BackyConfigOpts
+func AddCommands(commands []string) BackyOptionFunc {
+	return func(bco *BackyConfigOpts) {
+		bco.executeCmds = append(bco.executeCmds, commands...)
+	}
+}
+
+// AddCommandLists adds lists to BackyConfigOpts
+func AddCommandLists(lists []string) BackyOptionFunc {
+	return func(bco *BackyConfigOpts) {
+		bco.executeLists = append(bco.executeLists, lists...)
+	}
+}
+
+// UseCron enables the execution of command lists at specified times
+func UseCron() BackyOptionFunc {
+	return func(bco *BackyConfigOpts) {
+		bco.useCron = true
+	}
+}
+
+// UseCron enables the execution of command lists at specified times
+func (c *BackyConfigOpts) AddViper(v *viper.Viper) BackyOptionFunc {
+	return func(bco *BackyConfigOpts) {
+		c.viper = v
+	}
+}
+
+func NewOpts(configFilePath string, opts ...BackyOptionFunc) *BackyConfigOpts {
+	b := &BackyConfigOpts{}
+	b.ConfigFilePath = configFilePath
+	for _, opt := range opts {
+		if opt != nil {
+			opt(b)
+		}
+	}
+	return b
+}
+
+/*
+NewConfig initializes new config that holds information	from the config file
+*/
+func NewConfig() *BackyConfigFile {
+	return &BackyConfigFile{
+		Cmds:           make(map[string]*Command),
+		CmdConfigLists: make(map[string]*CmdList),
+		Hosts:          make(map[string]*Host),
+		Notifications:  make(map[string]*NotificationsConfig),
+	}
+}
+
+func IsTerminalActive() bool {
+	return os.Getenv("BACKY_TERM") == "enabled"
+}
+
+func IsCmdStdOutEnabled() bool {
+	return os.Getenv("BACKY_STDOUT") == "enabled"
+}
+
+func resolveDir(path string) (string, error) {
+	if path == "~" {
+		homeDir, err := os.UserHomeDir()
+		if err != nil {
+			return path, err
+		}
+		// In case of "~", which won't be caught by the "else if"
+		path = homeDir
+	} else if strings.HasPrefix(path, "~/") {
+		homeDir, err := os.UserHomeDir()
+		if err != nil {
+			return path, err
+		}
+		// Use strings.HasPrefix so we don't match paths like
+		// "/something/~/something/"
+		path = filepath.Join(homeDir, path[2:])
+	}
+	return path, nil
+}
diff --git a/pkg/logging/logging.go b/pkg/logging/logging.go
index f25b119..7e20881 100644
--- a/pkg/logging/logging.go
+++ b/pkg/logging/logging.go
@@ -3,8 +3,12 @@ package logging
 import (
 	"fmt"
 	"os"
+	"strings"
+	"time"
 
 	"github.com/rs/zerolog"
+	"github.com/spf13/viper"
+	"gopkg.in/natefinch/lumberjack.v2"
 )
 
 type Logging struct {
@@ -20,3 +24,54 @@ func ExitWithMSG(msg string, code int, log *zerolog.Logger) {
 	fmt.Printf("%s\n", msg)
 	os.Exit(code)
 }
+
+func SetLoggingWriters(v *viper.Viper, logFile string) (writers zerolog.LevelWriter) {
+
+	console := zerolog.ConsoleWriter{}
+	if IsConsoleLoggingEnabled() {
+
+		console = zerolog.ConsoleWriter{Out: os.Stdout, TimeFormat: time.RFC1123}
+		console.FormatLevel = func(i interface{}) string {
+			return strings.ToUpper(fmt.Sprintf("| %-6s|", i))
+		}
+		console.FormatMessage = func(i any) string {
+			if i == nil {
+				return ""
+			}
+			return fmt.Sprintf("MSG: %s", i)
+		}
+		console.FormatFieldName = func(i interface{}) string {
+			return fmt.Sprintf("%s: ", i)
+		}
+		console.FormatFieldValue = func(i interface{}) string {
+			return fmt.Sprintf("%s", i)
+			// return strings.ToUpper(fmt.Sprintf("%s", i))
+		}
+	}
+
+	fileLogger := &lumberjack.Logger{
+		MaxSize:    500, // megabytes
+		MaxBackups: 3,
+		MaxAge:     28,   //days
+		Compress:   true, // disabled by default
+	}
+	if strings.TrimSpace(logFile) != "" {
+		fileLogger.Filename = logFile
+	} else {
+		fileLogger.Filename = "./backy.log"
+	}
+
+	// UNIX Time is faster and smaller than most timestamps
+	zerolog.TimeFieldFormat = zerolog.TimeFormatUnix
+	// zerolog.TimeFieldFormat = time.RFC1123
+	writers = zerolog.MultiLevelWriter(fileLogger)
+
+	if IsConsoleLoggingEnabled() {
+		writers = zerolog.MultiLevelWriter(console, fileLogger)
+	}
+	return
+}
+
+func IsConsoleLoggingEnabled() bool {
+	return os.Getenv("BACKY_CONSOLE_LOGGING") == "enabled"
+}
diff --git a/pkg/notification/notification.go b/pkg/notification/notification.go
deleted file mode 100644
index 3a2437c..0000000
--- a/pkg/notification/notification.go
+++ /dev/null
@@ -1,101 +0,0 @@
-// notification.go
-// Copyright (C) Andrew Woodlee 2023
-// License: Apache-2.0
-package notification
-
-import (
-	"fmt"
-
-	"git.andrewnw.xyz/CyberShell/backy/pkg/backy"
-	"github.com/nikoksr/notify"
-	"github.com/nikoksr/notify/service/mail"
-	"github.com/nikoksr/notify/service/matrix"
-	"maunium.net/go/mautrix/id"
-)
-
-type matrixStruct struct {
-	homeserver  string
-	roomid      id.RoomID
-	accessToken string
-	userId      id.UserID
-}
-
-type mailConfig struct {
-	senderaddress string
-	host          string
-	to            []string
-	username      string
-	password      string
-	port          string
-}
-
-var services []notify.Notifier
-
-func SetupCommandsNotifiers(backyConfig backy.BackyConfigFile, ids ...string) {
-
-}
-
-// SetupNotify sets up notify instances for each command list.
-
-func SetupNotify(backyConfig backy.BackyConfigFile) {
-
-	for _, cmdConfig := range backyConfig.CmdConfigLists {
-		for notifyID, notifConfig := range cmdConfig.NotificationsConfig {
-			if cmdConfig.NotificationsConfig[notifyID].Enabled {
-				config := notifConfig.Config
-				switch notifConfig.Config.GetString("type") {
-				case "matrix":
-					// println(config.GetString("access-token"))
-					mtrx := matrixStruct{
-						userId:      id.UserID(config.GetString("user-id")),
-						roomid:      id.RoomID(config.GetString("room-id")),
-						accessToken: config.GetString("access-token"),
-						homeserver:  config.GetString("homeserver"),
-					}
-					mtrxClient, _ := setupMatrix(mtrx)
-					services = append(services, mtrxClient)
-				case "mail":
-					mailCfg := mailConfig{
-						senderaddress: config.GetString("senderaddress"),
-						password:      config.GetString("password"),
-						username:      config.GetString("username"),
-						to:            config.GetStringSlice("to"),
-						host:          config.GetString("host"),
-						port:          fmt.Sprint(config.GetUint16("port")),
-					}
-					mailClient := setupMail(mailCfg)
-					services = append(services, mailClient)
-				}
-			}
-		}
-	}
-	backyNotify := notify.New()
-
-	backyNotify.UseServices(services...)
-
-	// err := backyNotify.Send(
-	// 	context.Background(),
-	// 	"Subject/Title",
-	// 	"The actual message - Hello, you awesome gophers! :)",
-	// )
-	// if err != nil {
-	// 	panic(err)
-	// }
-	// logging.ExitWithMSG("This was a test of notifications", 0, nil)
-}
-
-func setupMatrix(config matrixStruct) (*matrix.Matrix, error) {
-	matrixClient, matrixErr := matrix.New(config.userId, config.roomid, config.homeserver, config.accessToken)
-	if matrixErr != nil {
-		panic(matrixErr)
-	}
-	return matrixClient, nil
-
-}
-
-func setupMail(config mailConfig) *mail.Mail {
-	mailClient := mail.New(config.senderaddress, config.host+":"+config.port)
-	mailClient.AuthenticateSMTP("", config.username, config.password, config.host)
-	mailClient.AddReceivers(config.to...)
-	return mailClient
-}