diff --git a/README.md b/README.md
index 1851f36..5d45ef3 100644
--- a/README.md
+++ b/README.md
@@ -217,4 +217,12 @@ This command wraps atoms back into the simulation cell as though periodic bounda
 remesh esize 
 ```
 
-This command remeshes the atoms/elements within the group to the new element size `esize`. Currently only accepts an `esize` of 2 which refines it to full atomistics.
\ No newline at end of file
+This command remeshes the atoms/elements within the group to the new element size `esize`. Currently only accepts an `esize` of 2 which refines it to full atomistics.
+
+### Option overwrite 
+
+```
+-ow
+```
+
+If this option is passed then all files are automatically overwritten without asking the user.
\ No newline at end of file
diff --git a/src/call_option.f90 b/src/call_option.f90
index befb46c..60551af 100644
--- a/src/call_option.f90
+++ b/src/call_option.f90
@@ -12,7 +12,11 @@ subroutine call_option(option, arg_pos)
         call dislocation(option, arg_pos)
     case('-group')
         call group(arg_pos)
+    case('-ow')
+        arg_pos = arg_pos + 1
+        continue
     case default
-        print *, 'Option ', trim(adjustl(option)), ' is not currently accepted.'
+        print *, 'Option ', trim(adjustl(option)), ' is not currently accepted. Skipping to next argument'
+        arg_pos = arg_pos + 1
     end select
 end subroutine call_option
\ No newline at end of file
diff --git a/src/io.f90 b/src/io.f90
index 8fd139b..26d4250 100644
--- a/src/io.f90
+++ b/src/io.f90
@@ -9,7 +9,7 @@ module io
 
     integer :: outfilenum = 0, infilenum = 0
     character(len=100) :: outfiles(10), infiles(10)
-    
+    logical :: force_overwrite
 
    public 
    contains
@@ -38,7 +38,7 @@ module io
 
             !Check to see if file exists, if it does then ask user if they would like to overwrite the file
             inquire(file=trim(temp_outfile), exist=file_exists)
-            if (file_exists) then 
+            if (file_exists.and.(.not.(force_overwrite))) then 
                 if (overwrite == 'r') print *, "File ", trim(temp_outfile), " already exists. Would you like to overwrite? (Y/N)"
                 read(*,*) overwrite
                 if((scan(overwrite, "n") > 0).or.(scan(overwrite, "N") > 0)) then 
diff --git a/src/main.f90 b/src/main.f90
index 7d24d6d..31f5f58 100644
--- a/src/main.f90
+++ b/src/main.f90
@@ -37,11 +37,23 @@ program main
     !Call initialization functions
     call lattice_init
     call box_init
+    force_overwrite=.false.
+
     end_mode_arg = 0
     
     ! Command line parsing
     arg_num = command_argument_count()
 
+    !Check to see if overwrite flag is passed
+    do i = 1, arg_num
+        call get_command_argument(i,argument)
+        select case(trim(adjustl(argument)))
+
+        case('-ow')
+            force_overwrite = .true.
+            print *, "Overwrite flag passed, output files will be overwritten"
+        end select 
+    end do 
     !Determine if a mode is being used and what it is. The first argument has to be the mode
     !if a mode is being used
     call get_command_argument(1, argument)