:Format differs from clang-format

[r2p2]

I have the following example code file named source.cc.

#include "source.h"

#include "other_files.h"
#include "another_file.h"

#include <libb.h>
#include <liba.h>

void fun() {}

If I open it in neovim and call :Format, then the result looks like this: (note that "source.h" not not at the top anymore)

#include "another_file.h"
#include "other_files.h"
#include "source.h"

#include <liba.h>
#include <libb.h>

void fun()
{}

But if I run clang-format source.cc in the terminal, I get this, result, which is what I would expect:

#include "source.h"

#include "another_file.h"
#include "other_files.h"

#include <liba.h>
#include <libb.h>

void fun()
{}

The .clang-format file looks like this:

---
Language:        Cpp
# BasedOnStyle:  WebKit
AccessModifierOffset: -4
AlignAfterOpenBracket: AlwaysBreak
AlignConsecutiveAssignments: true
AlignConsecutiveDeclarations: true
AlignEscapedNewlines: Left
AlignOperands:   true
AlignTrailingComments: true
AllowAllParametersOfDeclarationOnNextLine: true
AllowShortBlocksOnASingleLine: false
AllowShortCaseLabelsOnASingleLine: false
AllowShortFunctionsOnASingleLine: false
AllowShortIfStatementsOnASingleLine: false
AllowShortLoopsOnASingleLine: false
AlwaysBreakAfterDefinitionReturnType: None
AlwaysBreakAfterReturnType: None
AlwaysBreakBeforeMultilineStrings: false
AlwaysBreakTemplateDeclarations: false
BinPackArguments: false
BinPackParameters: false
BraceWrapping:
  AfterClass:      true
  AfterControlStatement: false
  AfterEnum:       true
  AfterFunction:   true
  AfterNamespace:  true
  AfterObjCDeclaration: false
  AfterStruct:     true
  AfterUnion:      true
  AfterExternBlock: true
  BeforeCatch:     false
  BeforeElse:      false
  IndentBraces:    false
  SplitEmptyFunction: false
  SplitEmptyRecord: false
  SplitEmptyNamespace: false
BreakBeforeBinaryOperators: None
BreakBeforeBraces: Custom
BreakBeforeInheritanceComma: true
BreakBeforeTernaryOperators: true
BreakConstructorInitializersBeforeComma: true
BreakConstructorInitializers: BeforeComma
BreakAfterJavaFieldAnnotations: false
BreakStringLiterals: true
ColumnLimit:     80
CommentPragmas:  '^ IWYU pragma:'
CompactNamespaces: false
ConstructorInitializerAllOnOneLineOrOnePerLine: false
ConstructorInitializerIndentWidth: 4
ContinuationIndentWidth: 4
Cpp11BracedListStyle: false
DerivePointerAlignment: false
DisableFormat:   false
ExperimentalAutoDetectBinPacking: false
FixNamespaceComments: true
ForEachMacros:   
  - foreach
  - Q_FOREACH
  - BOOST_FOREACH
IncludeBlocks:   Regroup
IncludeCategories: 
  - Regex:           '^"(llvm|llvm-c|clang|clang-c)/'
    Priority:        2
  - Regex:           '^(<|"(gtest|gmock|isl|json)/)'
    Priority:        3
  - Regex:           '.*'
    Priority:        1
IncludeIsMainRegex: '(Test)?$'
IndentCaseLabels: false
IndentPPDirectives: AfterHash
IndentWidth:     4
IndentWrappedFunctionNames: true
JavaScriptQuotes: Leave
JavaScriptWrapImports: true
KeepEmptyLinesAtTheStartOfBlocks: false
MacroBlockBegin: ''
MacroBlockEnd:   ''
MaxEmptyLinesToKeep: 1
NamespaceIndentation: None
ObjCBlockIndentWidth: 4
ObjCSpaceAfterProperty: true
ObjCSpaceBeforeProtocolList: true
PenaltyBreakAssignment: 2
PenaltyBreakBeforeFirstCallParameter: 19
PenaltyBreakComment: 300
PenaltyBreakFirstLessLess: 120
PenaltyBreakString: 1000
PenaltyExcessCharacter: 1000000
PenaltyReturnTypeOnItsOwnLine: 60
PointerAlignment: Left
ReflowComments:  true
SortIncludes:    true
SortUsingDeclarations: true
SpaceAfterCStyleCast: false
SpaceAfterTemplateKeyword: true
SpaceBeforeAssignmentOperators: true
SpaceBeforeParens: ControlStatements
SpaceInEmptyParentheses: false
SpacesBeforeTrailingComments: 1
SpacesInAngles:  false
SpacesInContainerLiterals: true
SpacesInCStyleCastParentheses: false
SpacesInParentheses: false
SpacesInSquareBrackets: false
Standard:        Cpp11
TabWidth:        4
UseTab:          ForContinuationAndIndentation
...

The lua setup looks like this:

local formatter = require('formatter')
formatter.setup({
    logging = true,
    filetype = {
        cpp = {
            function()
                return {
                    exe = "clang-format",
                    args = {},
                    stdin = true,
                    cwd = vim.fn.expand("%:p:h")
                    }
            end
            }
        }
    })

I've compared the clang-format calls with strace and it looked the same to me in the sense that the .clang-format file is found. Is it possible that :Formatitself removes some empty lines before it passes the buffer contents to clang-format?

[r2p2]

Wrong project, sorry. I should not write issues in the middle of the night.