diff --git a/ale_linters/ansible/ansible_lint.vim b/ale_linters/ansible/ansible_lint.vim
index 3efd95f..192e65b 100644
--- a/ale_linters/ansible/ansible_lint.vim
+++ b/ale_linters/ansible/ansible_lint.vim
@@ -15,11 +15,11 @@ function! ale_linters#ansible#ansible_lint#Handle(buffer, lines) abort
     " Matches patterns line the following:
     "
     " test.yml:35: [EANSIBLE0002] Trailing whitespace
-    let l:pattern = '\v^[a-zA-Z]?:?[^:]+:(\d+):?(\d+)?: \[?([[:alnum:]]+)\]? (.*)$'
+    let l:pattern = '\v^([a-zA-Z]?:?[^:]+):(\d+):?(\d+)?: \[?([[:alnum:]]+)\]? (.*)$'
     let l:output = []
 
     for l:match in ale#util#GetMatches(a:lines, l:pattern)
-        let l:code = l:match[3]
+        let l:code = l:match[4]
 
         if (l:code ==# 'EANSIBLE002')
         \ && !ale#Var(a:buffer, 'warn_about_trailing_whitespace')
@@ -27,14 +27,14 @@ function! ale_linters#ansible#ansible_lint#Handle(buffer, lines) abort
             continue
         endif
 
-        let l:item = {
-        \   'lnum': l:match[1] + 0,
-        \   'col': l:match[2] + 0,
-        \   'text': l:code . ': ' . l:match[4],
-        \   'type': l:code[:0] ==# 'E' ? 'E' : 'W',
-        \}
-
-        call add(l:output, l:item)
+        if ale#path#IsBufferPath(a:buffer, l:match[1])
+            call add(l:output, {
+            \   'lnum': l:match[2] + 0,
+            \   'col': l:match[3] + 0,
+            \   'text': l:code . ': ' . l:match[5],
+            \   'type': l:code[:0] ==# 'E' ? 'E' : 'W',
+            \})
+        endif
     endfor
 
     return l:output
diff --git a/ale_linters/javascript/flow.vim b/ale_linters/javascript/flow.vim
index 1b13e5d..416a1ed 100644
--- a/ale_linters/javascript/flow.vim
+++ b/ale_linters/javascript/flow.vim
@@ -10,7 +10,12 @@ function! ale_linters#javascript#flow#GetExecutable(buffer) abort
     \])
 endfunction
 
-function! ale_linters#javascript#flow#GetCommand(buffer) abort
+function! ale_linters#javascript#flow#VersionCheck(buffer) abort
+    return ale#Escape(ale_linters#javascript#flow#GetExecutable(a:buffer))
+    \   . ' --version'
+endfunction
+
+function! ale_linters#javascript#flow#GetCommand(buffer, version_lines) abort
     let l:flow_config = ale#path#FindNearestFile(a:buffer, '.flowconfig')
 
     if empty(l:flow_config)
@@ -18,8 +23,21 @@ function! ale_linters#javascript#flow#GetCommand(buffer) abort
         return ''
     endif
 
+    let l:use_respect_pragma = 1
+
+    " If we can parse the version number, then only use --respect-pragma
+    " if the version is >= 0.36.0, which added the argument.
+    for l:match in ale#util#GetMatches(a:version_lines, '\v\d+\.\d+\.\d+$')
+        let l:use_respect_pragma = ale#semver#GreaterOrEqual(
+        \   ale#semver#Parse(l:match[0]),
+        \   [0, 36, 0]
+        \)
+    endfor
+
     return ale#Escape(ale_linters#javascript#flow#GetExecutable(a:buffer))
-    \   . ' check-contents --respect-pragma --json --from ale %s'
+    \   . ' check-contents'
+    \   . (l:use_respect_pragma ? ' --respect-pragma': '')
+    \   . ' --json --from ale %s'
 endfunction
 
 function! ale_linters#javascript#flow#Handle(buffer, lines) abort
@@ -74,6 +92,10 @@ endfunction
 call ale#linter#Define('javascript', {
 \   'name': 'flow',
 \   'executable_callback': 'ale_linters#javascript#flow#GetExecutable',
-\   'command_callback': 'ale_linters#javascript#flow#GetCommand',
+\   'command_chain': [
+\       {'callback': 'ale_linters#javascript#flow#VersionCheck'},
+\       {'callback': 'ale_linters#javascript#flow#GetCommand'},
+\   ],
 \   'callback': 'ale_linters#javascript#flow#Handle',
+\   'add_newline': 1,
 \})
diff --git a/ale_linters/ruby/brakeman.vim b/ale_linters/ruby/brakeman.vim
index fa5617d..5ea531f 100644
--- a/ale_linters/ruby/brakeman.vim
+++ b/ale_linters/ruby/brakeman.vim
@@ -5,6 +5,10 @@ let g:ale_ruby_brakeman_options =
 \   get(g:, 'ale_ruby_brakeman_options', '')
 
 function! ale_linters#ruby#brakeman#Handle(buffer, lines) abort
+    if len(a:lines) == 0
+        return []
+    endif
+
     let l:result = json_decode(join(a:lines, ''))
 
     let l:output = []
diff --git a/ale_linters/ruby/rubocop.vim b/ale_linters/ruby/rubocop.vim
index f8b0725..9b77f89 100644
--- a/ale_linters/ruby/rubocop.vim
+++ b/ale_linters/ruby/rubocop.vim
@@ -1,22 +1,8 @@
 " Author: ynonp - https://github.com/ynonp
 " Description: rubocop for Ruby files
 
-" Set this option to change Rubocop options.
-if !exists('g:ale_ruby_rubocop_options')
-    " let g:ale_ruby_rubocop_options = '--lint'
-    let g:ale_ruby_rubocop_options = ''
-endif
-
-if !exists('g:ale_ruby_rubocop_executable')
-    let g:ale_ruby_rubocop_executable = 'rubocop'
-endif
-
-function! ale_linters#ruby#rubocop#GetExecutable(buffer) abort
-    return ale#Var(a:buffer, 'ruby_rubocop_executable')
-endfunction
-
 function! ale_linters#ruby#rubocop#GetCommand(buffer) abort
-    let l:executable = ale#Var(a:buffer, 'ruby_rubocop_executable')
+    let l:executable = ale#handlers#rubocop#GetExecutable(a:buffer)
     let l:exec_args = l:executable =~? 'bundle$'
     \   ? ' exec rubocop'
     \   : ''
@@ -52,7 +38,7 @@ endfunction
 
 call ale#linter#Define('ruby', {
 \   'name': 'rubocop',
-\   'executable_callback': 'ale_linters#ruby#rubocop#GetExecutable',
+\   'executable_callback': 'ale#handlers#rubocop#GetExecutable',
 \   'command_callback': 'ale_linters#ruby#rubocop#GetCommand',
 \   'callback': 'ale_linters#ruby#rubocop#Handle',
 \})
diff --git a/autoload/ale/engine.vim b/autoload/ale/engine.vim
index f7c25b0..5d9c541 100644
--- a/autoload/ale/engine.vim
+++ b/autoload/ale/engine.vim
@@ -388,6 +388,16 @@ function! s:RunJob(options) abort
         let l:read_buffer = 0
     endif
 
+    " Add a newline to commands which need it.
+    " This is only used for Flow for now, and is not documented.
+    if l:linter.add_newline
+        if has('win32')
+            let l:command = l:command . '; echo.'
+        else
+            let l:command = l:command . '; echo'
+        endif
+    endif
+
     let l:command = ale#job#PrepareCommand(l:command)
     let l:job_options = {
     \   'mode': 'nl',
diff --git a/autoload/ale/fix.vim b/autoload/ale/fix.vim
index b4fd3e1..45855a5 100644
--- a/autoload/ale/fix.vim
+++ b/autoload/ale/fix.vim
@@ -77,8 +77,6 @@ function! ale#fix#ApplyFixes(buffer, output) abort
             echoerr 'The file was changed before fixing finished'
             return
         endif
-
-        let l:data.done = 1
     endif
 
     if !bufexists(a:buffer)
@@ -86,6 +84,8 @@ function! ale#fix#ApplyFixes(buffer, output) abort
         call remove(g:ale_fix_buffer_data, a:buffer)
     endif
 
+    let l:data.done = 1
+
     " We can only change the lines of a buffer which is currently open,
     " so try and apply the fixes to the current buffer.
     call ale#fix#ApplyQueuedFixes()
@@ -102,9 +102,15 @@ function! s:HandleExit(job_id, exit_code) abort
         let l:job_info.output = readfile(l:job_info.file_to_read)
     endif
 
+    " Use the output of the job for changing the file if it isn't empty,
+    " otherwise skip this job and use the input from before.
+    let l:input = !empty(l:job_info.output)
+    \   ? l:job_info.output
+    \   : l:job_info.input
+
     call s:RunFixer({
     \   'buffer': l:job_info.buffer,
-    \   'input': l:job_info.output,
+    \   'input': l:input,
     \   'callback_list': l:job_info.callback_list,
     \   'callback_index': l:job_info.callback_index + 1,
     \})
@@ -172,6 +178,7 @@ function! s:RunJob(options) abort
 
     let l:job_info = {
     \   'buffer': l:buffer,
+    \   'input': l:input,
     \   'output': [],
     \   'callback_list': a:options.callback_list,
     \   'callback_index': a:options.callback_index,
diff --git a/autoload/ale/fixers/rubocop.vim b/autoload/ale/fixers/rubocop.vim
index 7bc6c9e..88dc1c4 100644
--- a/autoload/ale/fixers/rubocop.vim
+++ b/autoload/ale/fixers/rubocop.vim
@@ -1,24 +1,12 @@
-" Set this option to change Rubocop options.
-if !exists('g:ale_ruby_rubocop_options')
-    " let g:ale_ruby_rubocop_options = '--lint'
-    let g:ale_ruby_rubocop_options = ''
-endif
-
-if !exists('g:ale_ruby_rubocop_executable')
-    let g:ale_ruby_rubocop_executable = 'rubocop'
-endif
-
-function! ale#fixers#rubocop#GetExecutable(buffer) abort
-    return ale#Var(a:buffer, 'ruby_rubocop_executable')
-endfunction
-
 function! ale#fixers#rubocop#GetCommand(buffer) abort
-    let l:executable = ale#Var(a:buffer, 'ruby_rubocop_executable')
+    let l:executable = ale#handlers#rubocop#GetExecutable(a:buffer)
     let l:exec_args = l:executable =~? 'bundle$'
     \   ? ' exec rubocop'
     \   : ''
+    let l:config = ale#path#FindNearestFile(a:buffer, '.rubocop.yml')
 
     return ale#Escape(l:executable) . l:exec_args
+    \   . (!empty(l:config) ? ' --config ' . ale#Escape(l:config) : '')
     \   . ' --auto-correct %t'
 
 endfunction
diff --git a/autoload/ale/handlers/haskell.vim b/autoload/ale/handlers/haskell.vim
index 17d9d24..5d417c8 100644
--- a/autoload/ale/handlers/haskell.vim
+++ b/autoload/ale/handlers/haskell.vim
@@ -35,17 +35,21 @@ function! ale#handlers#haskell#HandleGHCFormat(buffer, lines) abort
             continue
         endif
 
-        let l:errors = matchlist(l:match[4], '\(warning:\|error:\)\(.*\)')
+        let l:errors = matchlist(l:match[4], '\v([wW]arning|[eE]rror): ?(.*)')
 
         if len(l:errors) > 0
-          let l:type = l:errors[1]
+          let l:ghc_type = l:errors[1]
           let l:text = l:errors[2]
         else
-          let l:type = ''
-          let l:text = l:match[4]
+          let l:ghc_type = ''
+          let l:text = l:match[4][:0] ==# ' ' ? l:match[4][1:] : l:match[4]
         endif
 
-        let l:type = l:type ==# '' ? 'E' : toupper(l:type[0])
+        if l:ghc_type ==? 'Warning'
+            let l:type = 'W'
+        else
+            let l:type = 'E'
+        endif
 
         call add(l:output, {
         \   'lnum': l:match[2] + 0,
diff --git a/autoload/ale/handlers/rubocop.vim b/autoload/ale/handlers/rubocop.vim
new file mode 100644
index 0000000..f6367cf
--- /dev/null
+++ b/autoload/ale/handlers/rubocop.vim
@@ -0,0 +1,6 @@
+call ale#Set('ruby_rubocop_options', '')
+call ale#Set('ruby_rubocop_executable', 'rubocop')
+
+function! ale#handlers#rubocop#GetExecutable(buffer) abort
+    return ale#Var(a:buffer, 'ruby_rubocop_executable')
+endfunction
diff --git a/autoload/ale/handlers/rust.vim b/autoload/ale/handlers/rust.vim
index 47b3c7f..3f9083a 100644
--- a/autoload/ale/handlers/rust.vim
+++ b/autoload/ale/handlers/rust.vim
@@ -8,13 +8,13 @@ if !exists('g:ale_rust_ignore_error_codes')
 endif
 
 " returns: a list [lnum, col] with the location of the error or []
-function! s:FindErrorInExpansion(span, file_name) abort
-    if a:span.file_name ==# a:file_name
+function! s:FindErrorInExpansion(span, buffer) abort
+    if ale#path#IsBufferPath(a:buffer, a:span.file_name)
         return [a:span.line_start, a:span.line_end, a:span.byte_start, a:span.byte_end]
     endif
 
     if !empty(a:span.expansion)
-        return s:FindErrorInExpansion(a:span.expansion.span, a:file_name)
+        return s:FindErrorInExpansion(a:span.expansion.span, a:buffer)
     endif
 
     return []
@@ -22,7 +22,6 @@ endfunction
 
 " A handler function which accepts a file name, to make unit testing easier.
 function! ale#handlers#rust#HandleRustErrorsForFile(buffer, full_filename, lines) abort
-    let l:filename = fnamemodify(a:full_filename, ':t')
     let l:output = []
 
     for l:errorline in a:lines
@@ -48,7 +47,7 @@ function! ale#handlers#rust#HandleRustErrorsForFile(buffer, full_filename, lines
         for l:span in l:error.spans
             if (
             \   l:span.is_primary
-            \   && (a:full_filename =~ (l:span.file_name . '$') || l:span.file_name ==# '<anon>')
+            \   && (ale#path#IsBufferPath(a:buffer, l:span.file_name) || l:span.file_name ==# '<anon>')
             \)
                 call add(l:output, {
                 \   'lnum': l:span.line_start,
@@ -61,7 +60,7 @@ function! ale#handlers#rust#HandleRustErrorsForFile(buffer, full_filename, lines
             else
                 " when the error is caused in the expansion of a macro, we have
                 " to bury deeper
-                let l:root_cause = s:FindErrorInExpansion(l:span, l:filename)
+                let l:root_cause = s:FindErrorInExpansion(l:span, a:buffer)
 
                 if !empty(l:root_cause)
                     call add(l:output, {
diff --git a/autoload/ale/job.vim b/autoload/ale/job.vim
index b9ab86b..93f2882 100644
--- a/autoload/ale/job.vim
+++ b/autoload/ale/job.vim
@@ -174,9 +174,15 @@ function! ale#job#PrepareCommand(command) abort
     " NeoVim handles this issue automatically if the command is a String,
     " but we'll do this explicitly, so we use thes same exact command for both
     " versions.
-    return has('win32')
-    \   ?  'cmd /c ' . a:command
-    \   : split(&shell) + split(&shellcmdflag) + [a:command]
+    if ale#Has('win32')
+        return 'cmd /c ' . a:command
+    endif
+
+    if &shell =~? 'fish$'
+        return ['/bin/sh', '-c', a:command]
+    endif
+
+    return split(&shell) + split(&shellcmdflag) + [a:command]
 endfunction
 
 " Start a job with options which are agnostic to Vim and NeoVim.
diff --git a/autoload/ale/linter.vim b/autoload/ale/linter.vim
index 3c2ddd3..c732ec5 100644
--- a/autoload/ale/linter.vim
+++ b/autoload/ale/linter.vim
@@ -50,6 +50,7 @@ function! ale#linter#PreProcess(linter) abort
     endif
 
     let l:obj = {
+    \   'add_newline': get(a:linter, 'add_newline', 0),
     \   'name': get(a:linter, 'name'),
     \   'lsp': get(a:linter, 'lsp', ''),
     \   'callback': get(a:linter, 'callback'),
diff --git a/autoload/ale/sign.vim b/autoload/ale/sign.vim
index eee1027..37105f9 100644
--- a/autoload/ale/sign.vim
+++ b/autoload/ale/sign.vim
@@ -65,7 +65,7 @@ sign define ALEDummySign
 " Read sign data for a buffer to a list of lines.
 function! ale#sign#ReadSigns(buffer) abort
     redir => l:output
-       silent exec 'sign place buffer=' . a:buffer
+       silent execute 'sign place buffer=' . a:buffer
     redir end
 
     return split(l:output, "\n")
@@ -154,7 +154,7 @@ function! s:SetDummySignIfNeeded(buffer, current_sign_list, new_signs) abort
     " If we haven't already set a dummy sign, and we have some previous signs
     " or always want a dummy sign, then set one, to keep the sign column open.
     if !l:is_dummy_sign_set && (a:new_signs || g:ale_sign_column_always)
-        execute 'sign place ' .  g:ale_sign_offset
+        silent! execute 'sign place ' .  g:ale_sign_offset
         \   . ' line=1 name=ALEDummySign buffer='
         \   . a:buffer
 
@@ -223,7 +223,7 @@ function! s:PlaceNewSigns(buffer, grouped_items, current_sign_offset) abort
             let l:obj.sign_id = l:sign_id
         endfor
 
-        execute 'sign place ' . l:sign_id
+        silent! execute 'sign place ' . l:sign_id
         \   . ' line=' . l:sublist[0].lnum
         \   . ' name=' . l:type
         \   . ' buffer=' . a:buffer
@@ -295,7 +295,7 @@ function! ale#sign#SetSigns(buffer, loclist) abort
     for [l:line, l:sign_id, l:name] in l:current_sign_list
         if l:sign_id != g:ale_sign_offset
         \&& !has_key(l:items_by_sign_id, l:sign_id)
-            exec 'sign unplace ' . l:sign_id . ' buffer=' . a:buffer
+            execute 'sign unplace ' . l:sign_id . ' buffer=' . a:buffer
         endif
     endfor
 
diff --git a/doc/ale.txt b/doc/ale.txt
index 8804622..8054747 100644
--- a/doc/ale.txt
+++ b/doc/ale.txt
@@ -354,7 +354,7 @@ g:ale_history_enabled                                   *g:ale_history_enabled*
 g:ale_history_log_output                             *g:ale_history_log_output*
 
   Type: |Number|
-  Default: `0`
+  Default: `1`
 
   When set to `1`, ALE will store the output of commands which have completed
   successfully in the command history, and the output will be displayed when
@@ -363,8 +363,9 @@ g:ale_history_log_output                             *g:ale_history_log_output*
   |g:ale_history_enabled| must be set to `1` for this output to be stored or
   printed.
 
-  ALE will likely consume a lot of memory if this option is on, so it should
-  only be used for debugging problems with linters.
+  Some memory will be consumed by this option. It is very useful for figuring
+  out what went wrong with linters, and for bug reports. Turn this option off
+  if you want to save on some memory usage.
 
 
 g:ale_keep_list_window_open                       *g:ale_keep_list_window_open*
diff --git a/plugin/ale.vim b/plugin/ale.vim
index a42eb50..f36da0a 100644
--- a/plugin/ale.vim
+++ b/plugin/ale.vim
@@ -55,7 +55,13 @@ let g:ale_buffer_info = {}
 
 " This option prevents ALE autocmd commands from being run for particular
 " filetypes which can cause issues.
-let g:ale_filetype_blacklist = ['nerdtree', 'unite', 'tags']
+let g:ale_filetype_blacklist = [
+\   'dirvish',
+\   'nerdtree',
+\   'qf',
+\   'tags',
+\   'unite',
+\]
 
 " This Dictionary configures which linters are enabled for which languages.
 let g:ale_linters = get(g:, 'ale_linters', {})
@@ -167,7 +173,7 @@ let g:ale_max_buffer_history_size = get(g:, 'ale_max_buffer_history_size', 20)
 let g:ale_history_enabled = get(g:, 'ale_history_enabled', 1)
 
 " A flag for storing the full output of commands in the history.
-let g:ale_history_log_output = get(g:, 'ale_history_log_output', 0)
+let g:ale_history_log_output = get(g:, 'ale_history_log_output', 1)
 
 " A dictionary mapping regular expression patterns to arbitrary buffer
 " variables to be set. Useful for configuration ALE based on filename
diff --git a/test/command_callback/ruby_paths/with_config/.rubocop.yml b/test/command_callback/ruby_paths/with_config/.rubocop.yml
new file mode 100644
index 0000000..e69de29
diff --git a/test/fixers/test_rubocop_fixer_callback.vader b/test/fixers/test_rubocop_fixer_callback.vader
index e9352e7..74160c7 100644
--- a/test/fixers/test_rubocop_fixer_callback.vader
+++ b/test/fixers/test_rubocop_fixer_callback.vader
@@ -19,10 +19,24 @@ After:
   unlet! g:dir
 
 Execute(The rubocop callback should return the correct default values):
-  silent execute 'file ' . fnameescape(g:dir . '/ruby_paths/dummy.rb')
+  call ale#test#SetFilename('ruby_paths/dummy.rb')
 
   AssertEqual
-  \ {'read_temporary_file': 1,
-  \  'command': "'" . g:ale_ruby_rubocop_executable . "' "
-  \      . '--auto-correct %t' },
+  \ {
+  \   'read_temporary_file': 1,
+  \   'command': ale#Escape(g:ale_ruby_rubocop_executable)
+  \     . ' --auto-correct %t',
+  \ },
+  \ ale#fixers#rubocop#Fix(bufnr(''))
+
+Execute(The rubocop callback should include configuration files):
+  call ale#test#SetFilename('ruby_paths/with_config/dummy.rb')
+
+  AssertEqual
+  \ {
+  \   'read_temporary_file': 1,
+  \   'command': ale#Escape(g:ale_ruby_rubocop_executable)
+  \     . ' --config ' . ale#Escape(g:dir . '/ruby_paths/with_config/.rubocop.yml')
+  \     . ' --auto-correct %t',
+  \ },
   \ ale#fixers#rubocop#Fix(bufnr(''))
diff --git a/test/handler/test_ansible_lint_handler.vader b/test/handler/test_ansible_lint_handler.vader
index cffe29f..b14b1f6 100644
--- a/test/handler/test_ansible_lint_handler.vader
+++ b/test/handler/test_ansible_lint_handler.vader
@@ -1,5 +1,6 @@
 Before:
     runtime ale_linters/ansible/ansible_lint.vim
+    call ale#test#SetFilename('main.yml')
 
 After:
     call ale#linter#Reset()
@@ -11,11 +12,11 @@ Execute(The ansible-lint handler should handle basic errors):
   \    'lnum': 35,
   \    'col': 0,
   \    'type': 'E',
-  \    'text': "EANSIBLE0002: Trailing whitespace",
+  \    'text': 'EANSIBLE0002: Trailing whitespace',
   \   },
   \ ],
-  \ ale_linters#ansible#ansible_lint#Handle(42, [
-  \   "test.yml:35: [EANSIBLE0002] Trailing whitespace",
+  \ ale_linters#ansible#ansible_lint#Handle(bufnr(''), [
+  \   '/tmp/vxepmGL/1/main.yml:35: [EANSIBLE0002] Trailing whitespace',
   \ ])
 
 Execute (The ansible-lint handler should handle names with spaces):
@@ -28,6 +29,14 @@ Execute (The ansible-lint handler should handle names with spaces):
   \     'text': 'E111: indentation is not a multiple of four',
   \   },
   \ ],
-  \ ale_linters#ansible#ansible_lint#Handle(42, [
-  \   'C:\something\with spaces.yml:6:6: E111 indentation is not a multiple of four',
+  \ ale_linters#ansible#ansible_lint#Handle(bufnr(''), [
+  \   '/tmp/vxepm GL/1/main.yml:6:6: E111 indentation is not a multiple of four',
+  \ ])
+
+Execute (The ansible-lint handler should ignore errors from other files):
+  AssertEqual
+  \ [
+  \ ],
+  \ ale_linters#ansible#ansible_lint#Handle(bufnr(''), [
+  \   '/foo/bar/roles/main.yml:6:6: E111 indentation is not a multiple of four',
   \ ])
diff --git a/test/handler/test_brakeman_handler.vader b/test/handler/test_brakeman_handler.vader
index bc7182e..6a577be 100644
--- a/test/handler/test_brakeman_handler.vader
+++ b/test/handler/test_brakeman_handler.vader
@@ -73,3 +73,9 @@ Execute(The brakeman handler should parse JSON correctly):
   \    ']',
   \  '}'
   \  ])
+
+Execute(The brakeman handler should parse JSON correctly when there is no output from brakeman):
+  AssertEqual
+  \ [],
+  \ ale_linters#ruby#brakeman#Handle(347, [
+  \ ])
diff --git a/test/handler/test_ghc_handler.vader b/test/handler/test_ghc_handler.vader
index 524f08b..bf54386 100644
--- a/test/handler/test_ghc_handler.vader
+++ b/test/handler/test_ghc_handler.vader
@@ -25,13 +25,13 @@ Execute(The ghc handler should handle ghc 8 output):
   \     'lnum': 6,
   \     'type': 'E',
   \     'col': 1,
-  \     'text': ' Failed to load interface for ‘GitHub.Data’ Use -v to see a list of the files searched for.',
+  \     'text': 'Failed to load interface for ‘GitHub.Data’ Use -v to see a list of the files searched for.',
   \   },
   \   {
   \     'lnum': 7,
   \     'type': 'W',
   \     'col': 1,
-  \     'text': ' Failed to load interface for ‘GitHub.Endpoints.PullRequests’ Use -v to see a list of the files searched for.',
+  \     'text': 'Failed to load interface for ‘GitHub.Endpoints.PullRequests’ Use -v to see a list of the files searched for.',
   \   },
   \ ],
   \ ale#handlers#haskell#HandleGHCFormat(bufnr(''), [
@@ -54,10 +54,25 @@ Execute(The ghc handler should handle ghc 7 output):
   \     'lnum': 168,
   \     'type': 'E',
   \     'col': 1,
-  \     'text': ' parse error (possibly incorrect indentation or mismatched brackets)',
+  \     'text': 'parse error (possibly incorrect indentation or mismatched brackets)',
+  \   },
+  \   {
+  \     'lnum': 84,
+  \     'col': 1,
+  \     'type': 'W',
+  \     'text': 'Top-level binding with no type signature:^@  myLayout :: Choose Tall (Choose (Mirror Tall) Full) a',
+  \   },
+  \   {
+  \     'lnum': 94,
+  \     'col': 5,
+  \     'type': 'E',
+  \     'text': 'Some other error',
   \   },
   \ ],
   \ ale#handlers#haskell#HandleGHCFormat(bufnr(''), [
   \ 'src/Main.hs:168:1:',
   \ '    parse error (possibly incorrect indentation or mismatched brackets)',
+  \ 'src/Main.hs:84:1:Warning: Top-level binding with no type signature:^@  myLayout :: Choose Tall (Choose (Mirror Tall) Full) a',
+  \ 'src/Main.hs:94:5:Error:',
+  \ '  Some other error',
   \ ])
diff --git a/test/handler/test_ghc_mod_handler.vader b/test/handler/test_ghc_mod_handler.vader
index 53991bb..b8d09a5 100644
--- a/test/handler/test_ghc_mod_handler.vader
+++ b/test/handler/test_ghc_mod_handler.vader
@@ -13,13 +13,13 @@ Execute(HandleGhcFormat should handle ghc-mod problems):
   \     'lnum': 2,
   \     'col': 1,
   \     'type': 'E',
-  \     'text': ' Suggestion: Use camelCaseFound:  my_variable = ...Why not:  myVariable = ...',
+  \     'text': 'Suggestion: Use camelCaseFound:  my_variable = ...Why not:  myVariable = ...',
   \   },
   \   {
   \     'lnum': 6,
   \     'col': 1,
-  \     'type': 'E',
-  \     'text': ' Warning: Eta reduceFound:  myFunc x = succ xWhy not:  myFunc = succ',
+  \     'type': 'W',
+  \     'text': 'Eta reduceFound:  myFunc x = succ xWhy not:  myFunc = succ',
   \   },
   \ ],
   \ ale#handlers#haskell#HandleGHCFormat(bufnr(''), [
diff --git a/test/handler/test_rust_handler.vader b/test/handler/test_rust_handler.vader
index 11dcf17..510ae69 100644
--- a/test/handler/test_rust_handler.vader
+++ b/test/handler/test_rust_handler.vader
@@ -1,4 +1,6 @@
 Execute(The Rust handler should handle rustc output):
+  call ale#test#SetFilename('src/playpen.rs')
+
   AssertEqual
   \ [
   \   {
@@ -18,7 +20,7 @@ Execute(The Rust handler should handle rustc output):
   \      'text': 'no method named `wat` found for type `std::string::String` in the current scope',
   \   },
   \ ],
-  \ ale#handlers#rust#HandleRustErrorsForFile(347, 'src/playpen.rs', [
+  \ ale#handlers#rust#HandleRustErrorsForFile(bufnr(''), 'src/playpen.rs', [
   \   '',
   \   'ignore this',
   \   '{"message":"expected one of `.`, `;`, `?`, `}`, or an operator, found `for`","code":null,"level":"error","spans":[{"file_name":"<anon>","byte_start":418,"byte_end":421,"line_start":15,"line_end":15,"column_start":5,"column_end":8,"is_primary":true,"text":[{"text":"    for chr in source.trim().chars() {","highlight_start":5,"highlight_end":8}],"label":null,"suggested_replacement":null,"expansion":null}],"children":[],"rendered":null}',
@@ -28,6 +30,8 @@ Execute(The Rust handler should handle rustc output):
   \ ])
 
 Execute(The Rust handler should handle cargo output):
+  call ale#test#SetFilename('src/playpen.rs')
+
   AssertEqual
   \ [
   \   {
@@ -47,7 +51,7 @@ Execute(The Rust handler should handle cargo output):
   \     'text': 'no method named `wat` found for type `std::string::String` in the current scope',
   \   },
   \ ],
-  \ ale#handlers#rust#HandleRustErrorsForFile(347, 'src/playpen.rs', [
+  \ ale#handlers#rust#HandleRustErrorsForFile(bufnr(''), 'src/playpen.rs', [
   \   '',
   \   'ignore this',
   \   '{"message":{"children":[],"code":null,"level":"error","message":"expected one of `.`, `;`, `?`, `}`, or an operator, found `for`","rendered":null,"spans":[{"byte_end":11508,"byte_start":11505,"column_end":8,"column_start":5,"expansion":null,"file_name":"src/playpen.rs","is_primary":true,"label":null,"line_end":15,"line_start":15,"suggested_replacement":null,"text":[{"highlight_end":8,"highlight_start":5,"text":"    for chr in source.trim().chars() {"}]}]},"package_id":"update 0.0.1 (path+file:///home/w0rp/Downloads/rust-by-example)","reason":"compiler-message","target":{"kind":["bin"],"name":"update","src_path":"/home/w0rp/Downloads/rust-by-example/src/main.rs"}}',
@@ -55,7 +59,27 @@ Execute(The Rust handler should handle cargo output):
   \   '{"message":{"children":[],"code":null,"level":"error","message":"aborting due to previous error","rendered":null,"spans":[]},"package_id":"update 0.0.1 (path+file:///home/w0rp/Downloads/rust-by-example)","reason":"compiler-message","target":{"kind":["bin"],"name":"update","src_path":"/home/w0rp/Downloads/rust-by-example/src/main.rs"}}',
   \ ])
 
+" Execute(The Rust handler should handle cargo output on Windows):
+"   call ale#test#SetFilename('src\nvim.rs')
+" 
+"   AssertEqual
+"   \ [
+"   \   {
+"   \     'lnum': 467,
+"   \     'end_lnum': 467,
+"   \     'type': 'E',
+"   \     'col': 43198,
+"   \     'end_col': 43199,
+"   \     'text': 'expected one of `!` or `::`, found `#`: unexpected token',
+"   \   },
+"   \ ],
+"   \ ale#handlers#rust#HandleRustErrorsForFile(bufnr(''), 'src\nvim.rs', [
+"   \   '{"message":{"children":[],"code":null,"level":"error","message":"expected one of `!` or `::`, found `#`","rendered":null,"spans":[{"byte_end":43199,"byte_start":43198,"column_end":2,"column_start":1,"expansion":null,"file_name":"src\\nvim.rs","is_primary":true,"label":"unexpected token","line_end":467,"line_start":467,"suggested_replacement":null,"text":[{"highlight_end":2,"highlight_start":1,"text":"#[cfg(test)]\r"}]}]},"package_id":"nvim-gtk 0.1.2 (path+file:///E:/daa/local/neovim-gtk)","reason":"compiler-message","target":{"crate_types":["bin"],"kind":["bin"],"name":"nvim-gtk","src_path":"E:\\daa\\local\\neovim-gtk\\src\\main.rs"}}',
+"   \ ])
+
 Execute(The Rust handler should show detailed errors):
+  call ale#test#SetFilename('src/playpen.rs')
+
   AssertEqual
   \ [
   \   {
@@ -67,7 +91,7 @@ Execute(The Rust handler should show detailed errors):
   \     'text': 'mismatched types: expected bool, found integral variable',
   \   },
   \ ],
-  \ ale#handlers#rust#HandleRustErrorsForFile(347, 'src/playpen.rs', [
+  \ ale#handlers#rust#HandleRustErrorsForFile(bufnr(''), 'src/playpen.rs', [
   \   '',
   \   'ignore this',
   \   '{"message":{"children":[],"code":null,"level":"error","message":"mismatched types","rendered":null,"spans":[{"byte_end":54,"byte_start":52,"column_end":23,"column_start":21,"expansion":null,"file_name":"src/playpen.rs","is_primary":true,"label":"expected bool, found integral variable","line_end":4,"line_start":4,"suggested_replacement":null,"text":[{"highlight_end":23,"highlight_start":21,"text":"    let foo: bool = 42;"}]}]},"package_id":"ale-rust-details 0.1.1 (path+file:///home/jon/tmp/ale-rust-details)","reason":"compiler-message","target":{"crate_types":["bin"],"kind":["bin"],"name":"ale-rust-details","src_path":"/home/jon/tmp/ale-rust-details/src/main.rs"}}',
@@ -75,9 +99,11 @@ Execute(The Rust handler should show detailed errors):
   \ ])
 
 Execute(The Rust handler should find correct files):
+  call ale#test#SetFilename('src/noerrors/mod.rs')
+
   AssertEqual
   \ [],
-  \ ale#handlers#rust#HandleRustErrorsForFile(347, 'src/noerrors/mod.rs', [
+  \ ale#handlers#rust#HandleRustErrorsForFile(bufnr(''), 'src/noerrors/mod.rs', [
   \   '',
   \   'ignore this',
   \   '{"message":{"children":[],"code":null,"level":"error","message":"unresolved import `Undefined`","rendered":null,"spans":[{"byte_end":103,"byte_start":94,"column_end":14,"column_start":5,"expansion":null,"file_name":"src/haserrors/mod.rs","is_primary":true,"label":"no `Undefined` in the root","line_end":1,"line_start":1,"suggested_replacement":null,"text":[{"highlight_end":14,"highlight_start":5,"text":"use Undefined;"}]}]},"package_id":"sample 0.1.0 (path+file:///private/tmp/sample)","reason":"compiler-message","target":{"crate_types":["lib"],"kind":["lib"],"name":"sample","src_path":"/private/tmp/sample/src/lib.rs"}}',
diff --git a/test/test_ale_fix.vader b/test/test_ale_fix.vader
index f7c6d69..d7c3fb3 100644
--- a/test/test_ale_fix.vader
+++ b/test/test_ale_fix.vader
@@ -86,6 +86,8 @@ After:
     call delete('fix_test_file')
   endif
 
+  call setloclist(0, [])
+
   let g:ale_fix_buffer_data = {}
 
 Given testft (A file with three lines):
@@ -305,6 +307,38 @@ Expect(The buffer should be the same):
   b
   c
 
+Execute(ALEFix should still lint when nothing was fixed on save):
+  let g:ale_fix_on_save = 1
+  let g:ale_lint_on_save = 1
+  let g:ale_enabled = 1
+
+  noautocmd silent file fix_test_file
+
+  let g:ale_fixers.testft = ['DoNothing']
+
+  call SetUpLinters()
+  call ale#events#SaveEvent()
+
+  Assert !filereadable('fix_test_file'), 'The file should not have been saved'
+
+  " We have run the linter.
+  AssertEqual [{
+  \   'bufnr': bufnr('%'),
+  \   'lnum': 1,
+  \   'vcol': 0,
+  \   'col': 1,
+  \   'text': 'xxx',
+  \   'type': 'E',
+  \   'nr': -1,
+  \   'pattern': '',
+  \   'valid': 1,
+  \}], getloclist(0)
+
+Expect(The buffer should be the same):
+  a
+  b
+  c
+
 Given testft (A file with three lines):
   a
   b
diff --git a/test/test_flow_command.vader b/test/test_flow_command.vader
index f7754f6..f45c93c 100644
--- a/test/test_flow_command.vader
+++ b/test/test_flow_command.vader
@@ -8,10 +8,21 @@ Execute(flow should return a command to run if a .flowconfig file exists):
   silent! cd /testplugin/test
   :e! flow/a/sub/dummy
 
-  AssertEqual '''flow'' check-contents --respect-pragma --json --from ale %s', ale_linters#javascript#flow#GetCommand(bufnr('%'))
+  AssertEqual '''flow'' check-contents --respect-pragma --json --from ale %s', ale_linters#javascript#flow#GetCommand(bufnr('%'), [])
+
+Execute(flow should should not use --respect-pragma for old versions):
+  silent! cd /testplugin/test
+  :e! flow/a/sub/dummy
+
+  AssertEqual
+  \ '''flow'' check-contents --json --from ale %s',
+  \ ale_linters#javascript#flow#GetCommand(bufnr('%'), [
+  \   'Warning: `flow --version` is deprecated in favor of `flow version`',
+  \   'Flow, a static type checker for JavaScript, version 0.27.0',
+  \ ])
 
 Execute(flow should not return a command to run if no .flowconfig file exists):
   silent! cd /testplugin/test
   :e! flow/b/sub/dummy
 
-  AssertEqual '', ale_linters#javascript#flow#GetCommand(bufnr('%'))
+  AssertEqual '', ale_linters#javascript#flow#GetCommand(bufnr('%'), [])
diff --git a/test/test_linter_retrieval.vader b/test/test_linter_retrieval.vader
index d701234..afb540d 100644
--- a/test/test_linter_retrieval.vader
+++ b/test/test_linter_retrieval.vader
@@ -1,8 +1,8 @@
 Before:
   Save g:ale_linters, g:ale_linter_aliases
 
-  let g:testlinter1 = {'name': 'testlinter1', 'executable': 'testlinter1', 'command': 'testlinter1', 'callback': 'testCB1', 'output_stream': 'stdout', 'read_buffer': 1, 'lint_file': 0, 'aliases': [], 'lsp': ''}
-  let g:testlinter2 = {'name': 'testlinter2', 'executable': 'testlinter2', 'command': 'testlinter2', 'callback': 'testCB2', 'output_stream': 'stdout', 'read_buffer': 0, 'lint_file': 1, 'aliases': [], 'lsp': ''}
+  let g:testlinter1 = {'name': 'testlinter1', 'executable': 'testlinter1', 'command': 'testlinter1', 'callback': 'testCB1', 'output_stream': 'stdout', 'read_buffer': 1, 'lint_file': 0, 'aliases': [], 'lsp': '', 'add_newline': 0}
+  let g:testlinter2 = {'name': 'testlinter2', 'executable': 'testlinter2', 'command': 'testlinter2', 'callback': 'testCB2', 'output_stream': 'stdout', 'read_buffer': 0, 'lint_file': 1, 'aliases': [], 'lsp': '', 'add_newline': 0}
   call ale#linter#Reset()
 
 After:
@@ -105,7 +105,7 @@ Execute (The local alias option shouldn't completely replace the global one):
   AssertEqual [g:testlinter1, g:testlinter2], ale#linter#Get('testft1')
 
 Execute (Linters should be loaded from disk appropriately):
-  AssertEqual [{'name': 'testlinter', 'output_stream': 'stdout', 'executable': 'testlinter', 'command': 'testlinter', 'callback': 'testCB', 'read_buffer': 1, 'lint_file': 0, 'aliases': [], 'lsp': ''}], ale#linter#Get('testft')
+  AssertEqual [{'name': 'testlinter', 'output_stream': 'stdout', 'executable': 'testlinter', 'command': 'testlinter', 'callback': 'testCB', 'read_buffer': 1, 'lint_file': 0, 'aliases': [], 'lsp': '', 'add_newline': 0}], ale#linter#Get('testft')
 
 
 Execute (Linters for later filetypes should replace the former ones):
@@ -123,5 +123,5 @@ Execute (Linters for later filetypes should replace the former ones):
   \})
 
   AssertEqual [
-  \ {'output_stream': 'stdout', 'lint_file': 0, 'read_buffer': 1, 'name': 'eslint', 'executable': 'x', 'lsp': '', 'aliases': [], 'command': 'x', 'callback': 'x'}
+  \ {'output_stream': 'stdout', 'lint_file': 0, 'read_buffer': 1, 'name': 'eslint', 'executable': 'x', 'lsp': '', 'aliases': [], 'command': 'x', 'callback': 'x', 'add_newline': 0}
   \], ale#linter#Get('javascript.typescript')
diff --git a/test/test_prepare_command.vader b/test/test_prepare_command.vader
new file mode 100644
index 0000000..5707be7
--- /dev/null
+++ b/test/test_prepare_command.vader
@@ -0,0 +1,37 @@
+Before:
+  Save &shell
+  Save &shellcmdflag
+
+After:
+  Restore
+  let g:ale_has_override = {}
+
+Execute(sh should be used when the shell is fish):
+  " Set something else, so we will replace that too.
+  let &shellcmdflag = '-f'
+
+  let &shell = 'fish'
+
+  AssertEqual ['/bin/sh', '-c', 'foobar'], ale#job#PrepareCommand('foobar')
+
+  let &shell = '/usr/bin/fish'
+
+  AssertEqual ['/bin/sh', '-c', 'foobar'], ale#job#PrepareCommand('foobar')
+
+  let &shell = '/usr/local/bin/fish'
+
+  AssertEqual ['/bin/sh', '-c', 'foobar'], ale#job#PrepareCommand('foobar')
+
+Execute(Other shells should be used when set):
+  let &shell = '/bin/bash'
+  let &shellcmdflag = '-c'
+
+  AssertEqual ['/bin/bash', '-c', 'foobar'], ale#job#PrepareCommand('foobar')
+
+Execute(cmd /c as a string should be used on Windows):
+  let &shell = 'who cares'
+  let &shellcmdflag = 'whatever'
+
+  let g:ale_has_override = {'win32': 1}
+
+  AssertEqual 'cmd /c foobar', ale#job#PrepareCommand('foobar')