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common.inc
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common.inc
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const
kVers = 'Bruker2NIfTI v1.0.20180909 : by Matthew Brett, Andrew Janke, Mikaël Naveau, Chris Rorden.'
{$IFDEF LCLcocoa} + ' Cocoa' {$ENDIF}
{$IFDEF LCLcarbon} + ' Carbon' {$ENDIF}
{$IFDEF LCLGTK2} + ' GTK2' {$ENDIF}
{$IFDEF Darwin} + ' macOS' {$ENDIF}
{$IFDEF Linux} + ' Linux' {$ENDIF}
{$IFDEF WINDOWS}+ ' Windows' {$ENDIF}
{$IFDEF CPU64} + ' 64-bit';
{$ELSE} + ' 32-bit'; {$ENDIF}
kNIFTI_XFORM_UNKNOWN = 0;
kNIFTI_XFORM_SCANNER_ANAT = 1;//Scanner-based anatomical coordinates
{$IFDEF ENDIAN_BIG}
kNIFTI_MAGIC_EMBEDDED_HDR = $6E2B3100;
{$ELSE}
kNIFTI_MAGIC_EMBEDDED_HDR = $00312B6E;
{$ENDIF}
type
TVec = Record
v: array [1..9] of single;
end;
TVecN = array of single;
TMat = array[1..4, 1..4] of double;
TBrukerHdr = Record
RECO_reco_exists, RECO_byte_order_little, RECO_transposition_varies, VISU_IsBiped, VISU_IsDerived, VISU_visu_exists: boolean;
RECO_transposition, RECO_wordtype_bits, ACQ_ns_list_size, ACQ_nr_completed,
ACQ_NR, ACQ_NI, ACQ_NSLICES, METHOD_NSegments, METHOD_PVM_ObjOrderScheme, ACQ_n_echo_images,
VISU_Slice_Order, VISU_ExperimentNumber, VISU_ProcessingNumber: integer;
RECO_map_offset, RECO_map_slope, ACQ_RG, ACQ_slice_thick,ACQ_read_offset,
ACQ_phase1_offset, METHOD_slice_offset, METHOD_slice_distance: single;
METHOD_PVM_SpatResol,RECO_offset, RECO_size, RECO_fov, ACQ_grad_matrix, VISU_orientation,
ACQ_slice_sepn, ACQ_repetition_time, VISU_CorePosition, VISU_FGOrder : TVec;
METHOD_SPackArrSliceOrient, ACQ_protocol_name, ACQ_method, VISU_SeriesTypeId, VISU_SubjectPosition : string[79];
VISU_Scaling, VISU_Intercept: TVecN;
end;
TNiHdr= packed record //Next: analyze Format Header structure
HdrSz : longint; //MUST BE 348
Data_Type: array [1..10] of ansichar; //unused
db_name: array [1..18] of ansichar; //unused
extents: longint; //unused
session_error: smallint; //unused
regular: ansichar; ////unused: in Analyze 7.5 this must be 114
dim_info: byte; //MRI slice order
dim: array[0..7] of smallint; //Data array dimensions
intent_p1, intent_p2, intent_p3: single;
intent_code: smallint;
datatype: smallint;
bitpix: smallint;
slice_start: smallint;
pixdim: array[0..7]of single;
vox_offset: single;
scl_slope: single;//scaling slope
scl_inter: single;//scaling intercept
slice_end: smallint;
slice_code: byte; //e.g. ascending
xyzt_units: byte; //e.g. mm and sec
cal_max,cal_min: single; //unused
slice_duration: single; //time for one slice
toffset: single; //time axis to shift
glmax, glmin: longint; //UNUSED
descrip: array[1..80] of ansichar;
aux_file: array[1..24] of ansichar;
qform_code, sform_code: smallint;
quatern_b,quatern_c,quatern_d,
qoffset_x,qoffset_y,qoffset_z: single;
srow_x: array[0..3]of single;
srow_y: array[0..3]of single;
srow_z: array[0..3]of single;
intent_name: array[1..16] of ansichar;
magic: longint;
unused: longint; //WARNING: this is not actually part of the NIfTI header, but pads 348-byte header to be 352 bytes (evenly divisible by 8, required for NII files)
end; //TNiHdr Header Structure
function MtZero: TMat;
//4x4 zero matrix, in matlab "zeros(4,4)"
var
r,c: integer;
begin
for r := 1 to 4 do
for c := 1 to 4 do
result[r,c] := 0;
end;
function MtEye: TMat;
//4x4 identity matrix, in matlab "eye(4)"
var
i: integer;
begin
result := MtZero;
for i := 1 to 4 do
result[i,i] := 1;
end;
function MtMult (a,b: TMat): TMat;
//multiply two 4x4 matrices (not commutative: order matters), in matlab "a * b"
var
i,j,k: integer;
begin
result := MtZero;
for i := 1 to 4 do
for j := 1 to 4 do
for k := 1 to 4 do
result[i,j] := result[i,j]+ a[i,k]*b[k,j];
end;
function MtSet (a,b,c,d, e,f,g,h, i,j,k,l: single): TMat;
//define a 4x4 matrix, in Matlab [a,b,c,d; e,f,g,h; i,j,k,l; 0 0 0 1]
begin
result := MtEye; //set final row to 0,0,0,1
result[1,1] := a;
result[1,2] := b;
result[1,3] := c;
result[1,4] := d;
result[2,1] := e;
result[2,2] := f;
result[2,3] := g;
result[2,4] := h;
result[3,1] := i;
result[3,2] := j;
result[3,3] := k;
result[3,4] := l;
end;
procedure ClearHdr (var lHdr: TNiHdr);
//create empty NIfTI header
var
lInc: integer;
begin
with lHdr do begin
HdrSz := 348;//sizeof(AHdr);
for lInc := 1 to 10 do
Data_Type[lInc] := chr(0);
for lInc := 1 to 18 do
db_name[lInc] := chr(0);
extents:=0;
session_error:= 0;
regular:='r';
dim_info:=(0);
dim[0] := 4;
for lInc := 1 to 7 do
dim[lInc] := 0;
intent_p1 := 0;
intent_p2 := 0;
intent_p3 := 0;
intent_code:=0;
datatype:=0 ;
bitpix:=0;
slice_start:=0;
for lInc := 1 to 7 do
pixdim[linc]:= 1.0;
vox_offset:= 352;
scl_slope := 1.0;
scl_inter:= 0.0;
slice_end:= 0;
slice_code := 0;
xyzt_units := 10;
cal_max:= 0.0;
cal_min:= 0.0;
slice_duration:=0;
toffset:= 0;
glmax:= 0;
glmin:= 0;
for lInc := 1 to 80 do
descrip[lInc] := chr(0);{80 spaces}
for lInc := 1 to 24 do
aux_file[lInc] := chr(0);{24 spaces}
//below are standard settings which are not 0
bitpix := 16;//8bits per pixel, e.g. unsigned char
DataType := 4;//2=unsigned char, 4=16bit
Dim[0] := 3;
Dim[1] := 256;
Dim[2] := 256;
Dim[3] := 128;
Dim[4] := 1; {n vols}
Dim[5] := 1;
Dim[6] := 1;
Dim[7] := 1;
glMin := 0;
glMax := 255;
qform_code := kNIFTI_XFORM_UNKNOWN;
sform_code:= kNIFTI_XFORM_UNKNOWN;
quatern_b := 0;
quatern_c := 0;
quatern_d := 0;
qoffset_x := 0;
qoffset_y := 0;
qoffset_z := 0;
for lInc := 0 to 3 do
srow_x[lInc] := 0;
for lInc := 0 to 3 do
srow_y[lInc] := 0;
for lInc := 0 to 3 do
srow_z[lInc] := 0;
for lInc := 1 to 16 do
intent_name[lInc] := chr(0);
//next: create identity matrix: if code is switched on there will not be a problem
srow_x[0] := 1;
srow_y[1] := 1;
srow_z[2] := 1;
magic := kNIFTI_MAGIC_EMBEDDED_HDR;//kNIFTI_MAGIC_SEPARATE_HDR;
end; //with the NIfTI header...
end;
function FSize (lFName: String): longint;
//report size (in bytes) of a file
var SearchRec: TSearchRec;
begin
FSize := 0;
if not fileexists(lFName) then exit;
FindFirst(lFName, faAnyFile, SearchRec);
FSize := SearchRec.size;
FindClose(SearchRec);
end;
function UniqueFilename(InStr: string): string;
//ensure we do not overwrite existing file
var
i: integer;
begin
result := InStr;
if not fileexists(result) then
exit;
for i := 1 to 9999 do begin
result := ExtractFilePath (InStr)+inttostr(i)+ '_'+ExtractFileName (InStr);
if not fileexists(result) then
exit;
end;
showmsg('Filename already exists '+InStr);
result := '';
end;
function BrFindFile (var lxBaseDir,lxPath: string; lxFileName: string; lPrompt: boolean; ACQPdir1, dir2dseq1: string): boolean;
//start from basedir and search sub-folders for a file named filename.
var
lxSearchDir,lxNewDir, lxTemp : string;
lxSearchRec: TSearchRec;
begin
result := false;
if (dir2dseq1 <> '') and (fileexists(dir2dseq1+lxFileName)) then begin
lxPath := dir2dseq1+lxFileName;
result := true;
exit;
end;
lxSearchDir := lxBaseDir;
lxPath := '';
while (length(lxSearchDir) > 2) and (lxPath = '') do begin
if fileexists (lxSearchDir+lxFileName) then
lxPath := lxSearchDir+ lxFileName
else begin //search in next outer directory
repeat
delete(lxSearchDir,length(lxSearchDir), 1);
until (length(lxSearchDir) < 2) or (lxSearchDir[length(lxSearchDir)] = pathdelim);
end;
end;
//did not find file by going to outer directory: no look into subdirectories...
//if someone started at c:\ this could go on for a long time - so only check first directory.
if lxPath = '' then begin
lxSearchDir := lxBaseDir;
repeat
lxNewDir := '';
if FindFirst(lxSearchDir+'*', $00000010 {directories}, lxSearchRec) = 0 then begin
repeat
if (lxSearchRec.Name <> '.') and (lxSearchRec.Name <> '..') and ((lxSearchRec.Attr and faDirectory) <> 0) then begin
lxNewDir := lxSearchDir +lxSearchRec.Name+pathdelim;
end;
until (FindNext(lxSearchRec) <> 0) or (lxNewDir <> '');
end;
FindClose(lxSearchRec);
lxSearchDir := lxNewDir; //go one directory deeper into search path
if fileexists (lxSearchDir+lxFileName) then
lxPath := lxSearchDir+ lxFileName
until (lxNewDir = '') {exhausted directories} or (lxPath <> '') {found file};
end;
if (lxPath = '') and (ACQPdir1 <> '') then begin //hail mary : e.g. series 2 does not have a reco file, so use series 1. Kludge until Bruker adopts a sensible format
lxTemp := ACQPdir1 + 'pdata' + pathdelim + '1' + pathdelim + lxFileName;
if fileexists (lxTemp) then begin
lxPath := lxTemp;
showmsg('Warning: Unable to find '+lxFileName+' in '+lxBaseDir+' using '+lxPath );
end;
end;
if (lxPath = '') then begin
if lPrompt then
showmsg('BrukerConv error: Unable to find the file named '''+lxFileName+''' in the path '+lxBaseDir)
end else result := true;
end;
function BrVecZero: TVec;
//zero a 4-item vector, Matlab zeros(4,1)
var
i: integer;
begin
for i := 1 to 9 do
result.v[i] := 0;
end;
function BrClear : TBrukerHdr;
//reset Bruker format header
begin
result.RECO_reco_exists := false;
result.RECO_transposition_varies := false;
result.ACQ_protocol_name:='';
result.RECO_byte_order_little := false;
result.RECO_wordtype_bits := 0;
result.RECO_transposition := 0;
result.ACQ_NI := 0;
result.ACQ_NSLICES := 0;
result.ACQ_NR := 0;
result.ACQ_ns_list_size := 0;
result.ACQ_nr_completed := 0;
result.ACQ_slice_thick := 0;
result.ACQ_read_offset := 0;
result.ACQ_phase1_offset := 0;
result.METHOD_slice_offset := 0;
result.METHOD_NSegments := 0;
result.METHOD_PVM_ObjOrderScheme:= 0; //slice order unknown
result.METHOD_slice_distance := 0;
result.RECO_size:= BrVecZero;
result.RECO_offset := BrVecZero;
result.RECO_map_offset:= 0;
result.RECO_map_slope:= 1;
result.ACQ_RG:= 1;
result.RECO_fov := BrVecZero;
result.ACQ_slice_sepn := BrVecZero;
result.ACQ_repetition_time := BrVecZero;
result.ACQ_grad_matrix := BrVecZero;
result.METHOD_PVM_SpatResol := BrVecZero;
result.VISU_orientation := BrVecZero;
result.VISU_CorePosition := BrVecZero;
result.VISU_FGOrder := BrVecZero;
result.METHOD_SPackArrSliceOrient := '';
result.VISU_SeriesTypeId:= '';
result.VISU_SubjectPosition:= '';
result.VISU_ExperimentNumber := 0;
result.VISU_ProcessingNumber := 0;
result.VISU_IsDerived := false;
result.VISU_IsBiped:= false;
result.VISU_visu_exists := false;
result.VISU_Slice_Order:= 1;
setlength(result.VISU_Scaling,0);
setlength(result.VISU_Intercept,0);
end;
function BrArrayVaries(var lFile: TextFile; var lVaries: boolean): single;
//return first value in array - generate error if different elements of array have different values
// This helps detect if a single Bruker image is composed of orthogonal slices (coronal, sagittal, axial)
const
delims = [Chr(9), ' '];
var
str : string;
prev,i,n: integer;
v: single;
begin
lVaries := false;
result := 0;
if Eof(lFile) then exit;
ReadLn(lFile, str);
prev := 0;
n := 0;
for i := 1 to length(str) do begin
if (str[i] in delims) or (i = length(str)) then begin
if (i-prev) > 0 then begin
v := strtofloat(trim(Copy(str, prev + 1, i - prev)));
n := n + 1;
if n = 1 then
result := v
else begin
if v <> result then
lVaries := true;
end;
end;
prev := i;
end;
end;
//if lVaries then
// showmsg('WARNING: RECO_transposition varies: unable to convert to NIfTI (localizer scan?) '+lFName);
end;
function TrimStr(lStr: string): string;
//##$VisuExperimentNumber=2 -> "2"
//##$VisuStation=( 65 ) -> "5"
//##$VisuCoreOrientation=( 5, 9 ) -> "5"
var
i,j: integer;
begin
result := RightStr(lStr, length(lStr)-AnsiPos('=', lStr));
i := LastDelimiter('(',result);
j := LastDelimiter(',',result);
if j < 1 then
j := LastDelimiter(')',result);
if (j < 3) then
j := length(result)+1;
result := Copy(result, i+1,j-i-1);
result := trim(result);
end;
function BrGetProd(s: string): integer;
//'##$VisuCoreOrientation=( 5, 9 ) -> 45
//##$VisuCorePosition=( 1, 3 ) -> 3
//##$PVM_Nucleus1=( 8 ) -> 8
//##$PVM_NAverages=23 -> 23
//##$NSegments=2 -> 2
var
i,j: integer;
begin
result := 0;
i := LastDelimiter('(',s);
if i < 1 then
i := LastDelimiter('=',s);
if i < 1 then
exit;
result := 1;
i := i + 1;
while i <= length(s) do begin
j := PosEx(',',s,i);
if j < 1 then
j := PosEx(')',s,i);
if j < 1 then
j := length(s)+1;
result := result * strtointdef(trim(Copy(s, i,j-i)),1);
i := j + 1;
end;
end;
function BrGetArray(var lFile: TextFile; lStr: string; var lRA: TVec): single;
//read array from Bruker header
var
i,n: integer;
f: single;
begin
result := 0;
if Eof(lFile) then exit;
n := BrGetProd(lStr);
if n < 1 then
exit;
//if n > 9 then
// n := 9; //TVec has only 9 components - for more use BrGetArrayN
for i := 1 to n do begin
if i <= 9 then
Read(lFile, lRA.v[i])
else
Read(lFile, f);
end;
Readln(lFile);
result := lRA.v[1];
end;
procedure BrGetArrayN(var lFile: TextFile; lStr: string; var lRA: TVecN);
var
n, i: integer;
begin
setlength(lRA,0); //empty
if Eof(lFile) then exit;
n := BrGetProd(lStr);
if n < 1 then exit;
setlength(lRA,n);
//profound
for i := 0 to (N-1) do
Read(lFile, lRA[i]);
readln(lFile);
//showmsg(inttostr(N));
end;
function BrGetInt (var lStr: string): integer;
//read integer from Bruker header
begin
result := StrToInt(TrimStr(lStr));
//result := StrToInt(RightStr(lStr, length(lStr)-AnsiPos('=', lStr)));
end;
function BrGetFloat (var lStr: string): single;
//read float from Bruker header
begin
result := StrToFloat(TrimStr(lStr));
//result := StrToFloat(RightStr(lStr, length(lStr)-AnsiPos('=', lStr)));
end;
function BrGetString (var lFile: TextFile): string;
//extract string from Bruker header file, e.g. "<T1 localizer>" becomes "T1_localizer"
const
n = 21;
InvalidChars : array[1..n] of char =
(',','.','/','!','@','#','$','%','^','&','*','''','"',';','_','(',')',':','|','[',']');
var
i: integer;
begin
result := '';
if Eof(lFile) then exit;
ReadLn(lFile, result);
result := StringReplace(result, '<', '', [rfReplaceAll, rfIgnoreCase]);
result := StringReplace(result, '>', '', [rfReplaceAll, rfIgnoreCase]);
//next: remove symbols that are incompatible or confusing with a filename
//for c in InvalidChars do
for i := 1 to n do
result := StringReplace(result, InvalidChars[i], '_', [rfReplaceAll, rfIgnoreCase])
end;
function Slice_Order(lOrderStr: string; var lRA: TVec): integer;
//is "FG_SLICE" 1st (default), 2nd or Nth item:
//(22, <FG_DTI>, <DTI>, 0, 3) (64, <FG_SLICE>, <>, 3, 2) -> 2 [22, 64]
//(6, <FG_MOVIE>, <diffusion>, 0, 1) -> 1 [6]
//(5, <FG_SLICE>, <>, 0, 2) (9, <FG_DIFFUSION>, <diffusion>, 2, 2) (3,<FG_CYCLE>, <repetitions>, 4, 1) // -> 1 [5,9,3]
//(2, <FG_ECHO>, <>, 0, 1) (9, <FG_SLICE>, <>, 1, 2) (2, <FG_CYCLE>, <>, 3, 0) // -> 2 [2,9,2]
const
kDelimiter = ')';
var
n,i,j,offset: integer;
begin
//read array: first number after '('
i := Pos('(',lOrderStr);
n := 0;
while (i > 0) do begin
j := PosEx(',',lOrderStr,i);
if (j > 0) and (n < 10) then begin
inc(n);
//showmsg(trim(Copy(lOrderStr, i+1,j-i-1)));
lRA.v[n] := strtointdef(trim(Copy(lOrderStr, i+1,j-i-1)),1);
end;
i := PosEx('(',lOrderStr,j);
end;
//read position of FG_SLICE
result := 1;
offset := AnsiPos('<FG_SLICE>', lOrderStr);
if offset < 2 then exit; //slice not reported, e.g. "(6, <FG_MOVIE>, <diffusion>, 0, 1)"
lOrderStr := Copy(lOrderStr, 1, offset);
offset := PosEx(kDelimiter, lOrderStr, 1);
while offset <> 0 do begin
inc(result);
offset := PosEx(kDelimiter, lOrderStr, offset + length(kDelimiter));
end;
end;
function BrReadVISU_PARS (fname: string; var BrHdr: TBrukerHdr): boolean;
//read Bruker format visu_pars file
var
unusedVec: TVec;
lFile: TextFile;
lStr :string;
begin
result := false;
if (fname = '') or (not fileexists(fname)) then exit;
assignfile(lFile,fname);
reset(lFile);
BrHdr.VISU_visu_exists := true;
while not Eof(lFile) do begin
ReadLn(lFile, lStr);
//properties also in ACQP file
if AnsiPos('##$VisuAcquisitionProtocol=', lStr) = 1 then
BrHdr.ACQ_protocol_name := BrGetString(lFile);
if AnsiPos('##$VisuAcqSequenceName=', lStr) = 1 then
BrHdr.ACQ_method := BrGetString(lFile);
if AnsiPos('##$VisuCoreOrientation=', lStr) = 1 then begin
BrHdr.ACQ_NI := BrGetInt(lStr); //5 for ##$VisuCoreOrientation=( 5, 9 )
BrHdr.ACQ_NSLICES := BrHdr.ACQ_NI; //not sure how multiple echo images look?
BrGetArray(lFile, '(9)', BrHdr.VISU_orientation);
end;
if AnsiPos('##$VisuCoreFrameThickness=', lStr) = 1 then //= ACQ_slice_thick: slice thickness without gap
BrHdr.ACQ_slice_thick := BrGetArray(lFile, lStr, unusedVec); //See Matthew Brett's Banana example (1.5mm slice + 0.5mm gap = 2mm)
//TO DO : multiple echoes, slice gap
(*if AnsiPos('##$VisuCoreSlicePacksSliceDist', lStr) = 1 then begin //T2 rare lists as 0mm?
BrHdr.METHOD_slice_distance := BrGetArray(lFile, '(1)',unusedVec );
BrHdr.ACQ_slice_thick := BrHdr.METHOD_slice_distance;
end; *)
if AnsiPos('##$VisuAcqRepetitionTime=', lStr) = 1 then
BrGetArray(lFile, lStr, BrHdr.ACQ_repetition_time);
if AnsiPos('##$VisuAcqEchoTime=', lStr) = 1 then
BrHdr.ACQ_n_echo_images := BrGetInt(lStr);
//properties also in RECO file
if AnsiPos('##$VisuCoreByteOrder=littleEndian', lStr) = 1 then
BrHdr.RECO_byte_order_little:= true; //
if AnsiPos('##$VisuCoreWordType=_16BIT_SGN_INT', lStr) = 1 then //
BrHdr.RECO_wordtype_bits := 16;
if AnsiPos('##$VisuCoreWordType=_32BIT_SGN_INT', lStr) = 1 then //
BrHdr.RECO_wordtype_bits := 32;
//for some VISU files VisuCoreSize is XY in others it is YX
// it is unclear when we should choose one or the other representation
// therefore, we will keep the RECO or METHOD (##$PVM_Matrix) if it is available, as it
// does not exhibit this issue.
if (AnsiPos('##$VisuCoreSize=', lStr) = 1) and (BrHdr.RECO_size.v[1] = 0) then begin
//if (AnsiPos('##$VisuCoreSize=', lStr) = 1) then begin
BrGetArray(lFile, lStr, BrHdr.RECO_size);
if (BrHdr.RECO_size.v[1] <> BrHdr.RECO_size.v[2]) then
showmsg('Warning: number of rows/columns may be swapped (relying on visu_pars)');
end;
if AnsiPos('##$VisuCoreExtent=', lStr) = 1 then begin
BrGetArray(lFile, lStr, BrHdr.RECO_fov);
BrHdr.RECO_fov.v[1] := BrHdr.RECO_fov.v[1] * 0.1;
BrHdr.RECO_fov.v[2] := BrHdr.RECO_fov.v[2] * 0.1;
end;
//properties only in VISU
if AnsiPos('##$VisuExperimentNumber=', lStr) = 1 then
BrHdr.VISU_ExperimentNumber := BrGetInt(lStr);
if AnsiPos('##$VisuProcessingNumber=', lStr) = 1 then
BrHdr.VISU_ProcessingNumber := BrGetInt(lStr);
if AnsiPos('##$VisuSubjectPosition=', lStr) = 1 then begin
BrHdr.VISU_SubjectPosition := trim(RightStr(lStr, length(lStr)-AnsiPos('=', lStr)));
end;
if AnsiPos('##$VisuSubjectType=Biped', lStr) = 1 then
BrHdr.VISU_IsBiped:= true;
if AnsiPos('##$VisuSeriesTypeId', lStr) = 1 then begin
BrHdr.VISU_SeriesTypeId := BrGetString(lFile);
//SeriesTypeId begins with "ACQ_" (e.g. "ACQ_BRUKER_PVM") for raw data and "DERIVED_" (e.g. "DERIVED_ISA") for derived data
if AnsiPos('DERIVED_', BrHdr.VISU_SeriesTypeId) = 1 then
BrHdr.VISU_IsDerived := true;
end;
(*if AnsiPos('##$VisuAcqImagePhaseEncDir=', lStr) = 1 then begin
ReadLn(lFile, lStr);
if (lstr = 'row_slice_dir') then BrHdr.VISU_FlipXY:=true;
end;*)
if AnsiPos('##$VisuCorePosition', lStr) = 1 then
BrGetArray(lFile, lStr, BrHdr.VISU_CorePosition); //VISU_CorePosition
if AnsiPos('##$VisuCoreWordType=_32BIT_SGN_INT', lStr) = 1 then
BrHdr.RECO_wordtype_bits := 32; //for derived images, VISU overwrites RECO
if AnsiPos('##$VisuCoreWordType=_16BIT_SGN_INT', lStr) = 1 then
BrHdr.RECO_wordtype_bits := 16; //for derived images, VISU overwrites RECO
if AnsiPos('##$VisuFGOrderDesc=', lStr) = 1 then begin
ReadLn(lFile, lStr);
BrHdr.VISU_Slice_Order := Slice_Order(lStr,BrHdr.VISU_FGOrder);
end;
if AnsiPos('##$VisuCoreDataSlope=', lStr) = 1 then //##$VisuCoreDataSlope=( 330 ) 1e-06 1e-09 1.34593219873039e-07 ....
BrGetArrayN(lFile, lStr, BrHdr.VISU_Scaling);
if AnsiPos('##$VisuCoreDataOffs=', lStr) = 1 then //
BrGetArrayN(lFile, lStr, BrHdr.VISU_Intercept);
end;
(*//we can derive mm resolution from FOV and voxel resolution
but better to get from METHOD file
if (BrHdr.RECO_size.v[1] > 0) then
BrHdr.METHOD_PVM_SpatResol.v[1] := BrHdr.RECO_fov.v[1]/BrHdr.RECO_size.v[1];
if (BrHdr.RECO_size.v[2] > 0) then
BrHdr.METHOD_PVM_SpatResol.v[2] := BrHdr.RECO_fov.v[1]/BrHdr.RECO_size.v[2]; *)
closefile(lFile);
result := true;
//result := false;
end;
function BrReadMETHOD (fname: string; var BrHdr: TBrukerHdr): boolean;
//read Bruker format Method file
var
lFile: TextFile;
lStr :string;
lUnused: TVec;
begin
result := false;
if (fname = '') or (not fileexists(fname)) then exit;
assignfile(lFile,fname);
reset(lFile);
while not Eof(lFile) do begin
ReadLn(lFile, lStr);
if AnsiPos('##$PVM_SPackArrSliceOrient=', lStr) = 1 then
BrHdr.METHOD_SPackArrSliceOrient := BrGetString(lFile);
if AnsiPos('##$PVM_SPackArrSliceOffset', lStr) = 1 then
BrHdr.METHOD_slice_offset := BrGetArray(lFile, '(1)',lUnused );
if AnsiPos('##$PVM_SPackArrSliceDistance', lStr) = 1 then
BrHdr.METHOD_slice_distance := BrGetArray(lFile, '(1)',lUnused );
if AnsiPos('##$PVM_ObjOrderScheme', lStr) = 1 then begin //4/2016 Suggested and validated by Chern-Chyi Yen
if AnsiPos('Sequential', lStr) <> 0 then BrHdr.METHOD_PVM_ObjOrderScheme := 1;
if AnsiPos('Reverse_sequential', lStr) <> 0 then BrHdr.METHOD_PVM_ObjOrderScheme := 2;
if AnsiPos('Interlaced', lStr) <> 0 then BrHdr.METHOD_PVM_ObjOrderScheme := 3;
if AnsiPos('Reverse_interlaced', lStr) <> 0 then BrHdr.METHOD_PVM_ObjOrderScheme := 4;
end;
if AnsiPos('##$NSegments', lStr) = 1 then
BrHdr.METHOD_NSegments := BrGetProd(lStr);
if AnsiPos('##$PVM_SpatReso', lStr) = 1 then
BrGetArray(lFile, lStr, BrHdr.METHOD_PVM_SpatResol);
if (AnsiPos('##$PVM_Matrix=', lStr) = 1) then
BrGetArray(lFile, lStr, BrHdr.RECO_size);
end;
result := true;
closefile(lFile);
end;
function BrReadACQP (fname: string; var BrHdr: TBrukerHdr): boolean;
//read Bruker format acqp file
var
lFile: TextFile;
lStr :string;
lUnused: TVec;
begin
result := false;
if (fname = '') or (not fileexists(fname)) then exit;
assignfile(lFile,fname);
reset(lFile);
while not Eof(lFile) do begin
ReadLn(lFile, lStr);
if AnsiPos('##$', lStr) <> 1 then continue;
if AnsiPos('##$ACQ_protocol_name=', lStr) = 1 then
BrHdr.ACQ_protocol_name := BrGetString(lFile);
if AnsiPos('##$ACQ_slice_sepn=', lStr) = 1 then
BrGetArray(lFile, lStr, BrHdr.ACQ_slice_sepn);
if AnsiPos('##$ACQ_grad_matrix=', lStr) = 1 then
BrGetArray(lFile, '(9)', BrHdr.ACQ_grad_matrix);
if AnsiPos('##$ACQ_read_offset=', lStr) = 1 then
BrHdr.ACQ_read_offset := BrGetArray(lFile, '(1)',lUnused );
if AnsiPos('##$ACQ_phase1_offset=', lStr) = 1 then
BrHdr.ACQ_phase1_offset := BrGetArray(lFile, '(1)',lUnused );
if AnsiPos('##$ACQ_repetition_time=', lStr) = 1 then
BrGetArray(lFile, lStr, BrHdr.ACQ_repetition_time);
if AnsiPos('##$ACQ_slice_thick', lStr) = 1 then
BrHdr.ACQ_slice_thick := BrGetFloat(lStr);
if AnsiPos('##$ACQ_ns_list_size=', lStr) = 1 then
BrHdr.ACQ_ns_list_size := BrGetInt(lStr);
if AnsiPos('##$NI=', lStr) = 1 then
BrHdr.ACQ_NI := BrGetInt(lStr);
if AnsiPos('##$ACQ_NSLICES=', lStr) = 1 then //##$ACQ_NSLICES=64
BrHdr.ACQ_NSLICES := BrGetInt(lStr);
if AnsiPos('##$NR=', lStr) = 1 then
BrHdr.ACQ_NR := BrGetInt(lStr);
if AnsiPos('##$ACQ_nr_completed', lStr) = 1 then
BrHdr.ACQ_nr_completed := BrGetInt(lStr);
if AnsiPos('##$RG=', lStr) = 1 then
BrHdr.ACQ_RG := BrGetFloat(lStr);
if AnsiPos('##$ACQ_method=', lStr) = 1 then
BrHdr.ACQ_method := BrGetString(lFile);
if AnsiPos('##$ACQ_n_echo_images', lStr) = 1 then
BrHdr.ACQ_n_echo_images := BrGetInt(lStr);
end;
result := true;
//if (BrHdr.ACQ_slice_thick <> BrHdr.ACQ_slice_sepn.v[1])then
// showmsg(format('%g %g %s',[BrHdr.ACQ_slice_thick, BrHdr.ACQ_slice_sepn.v[1],fname]));
closefile(lFile);
end;
function BrReadRECO (fname: string; var BrHdr: TBrukerHdr): boolean;
//Read Bruker format RECO file
var
lFile: TextFile;
lStr :string;
RECO_map_offset_varies, RECO_map_slope_varies: boolean;
begin
result := false;
if (fname = '') or (not fileexists(fname)) then exit;
assignfile(lFile,fname);
reset(lFile);
BrHdr.RECO_wordtype_bits := 32; //default
BrHdr.RECO_byte_order_little:= false; //default
BrHdr.RECO_reco_exists := true;
while not Eof(lFile) do begin
ReadLn(lFile, lStr);
if AnsiPos('##$', lStr) <> 1 then continue;
if AnsiPos('##$RECO_wordtype=_16BIT_SGN_INT', lStr) = 1 then
BrHdr.RECO_wordtype_bits := 16;
if AnsiPos('##$RECO_transposition=', lStr) = 1 then
BrHdr.RECO_transposition := round(BrArrayVaries(lFile, BrHdr.RECO_transposition_varies ));
if AnsiPos('##$RECO_byte_order=littleEndian', lStr) = 1 then
BrHdr.RECO_byte_order_little:= true;
if AnsiPos('##$RECO_size=', lStr) = 1 then
BrGetArray(lFile, lStr, BrHdr.RECO_size);
if AnsiPos('RECO_offset=', lStr) = 1 then
BrGetArray(lFile, '(3)', BrHdr.RECO_offset);
if AnsiPos('##$RECO_fov=', lStr) = 1 then
BrGetArray(lFile, lStr, BrHdr.RECO_fov);
if AnsiPos('##$RECO_map_offset=', lStr) = 1 then
BrHdr.RECO_map_offset := BrArrayVaries(lFile, RECO_map_offset_varies );
if AnsiPos('##$RECO_map_slope=', lStr) = 1 then
BrHdr.RECO_map_slope := BrArrayVaries(lFile, RECO_map_slope_varies );
end;
result := true;
closefile(lFile);
end;
function f2str (f: single): string;
//convert float to string
begin
result := FloatToStrF(f, ffGeneral, 8, 4);
end;
procedure BrReport(BrHdr: TBrukerHdr; InName, OutName: string; Verbose: boolean);
//provide text details of Bruker Header
begin
showmsg('Creating NIfTI: '+OutName);
if not Verbose then exit;
showmsg('Bruker Source: '+InName);
showmsg('ACQ_protocol_name : ' + BrHdr.ACQ_protocol_name);
showmsg('ACQ_method : ' + BrHdr.ACQ_method);
if (BrHdr.VISU_SeriesTypeId <> '') then
showmsg('VISU_SeriesTypeId : ' + BrHdr.VISU_SeriesTypeId);
if (BrHdr.VISU_SubjectPosition <> '') then
showmsg('VISU_SubjectPosition : ' + BrHdr.VISU_SubjectPosition );
if BrHdr.VISU_isDerived then
showmsg('VISU derived data : true');
if BrHdr.RECO_byte_order_little then
showmsg(' Endian: Little')
else
showmsg(' Endian: Big');
showmsg(' Bits : '+ inttostr(BrHdr.RECO_wordtype_bits));
showmsg(' Size : '+f2str(BrHdr.RECO_size.v[1])+'x'+f2str(BrHdr.RECO_size.v[2])) ;
showmsg(' FOV : '+f2str(BrHdr.RECO_fov.v[1])+'x'+f2str(BrHdr.RECO_fov.v[2]));
showmsg(' Matrix : ['+f2str(BrHdr.ACQ_grad_matrix.v[1])+' '+f2str(BrHdr.ACQ_grad_matrix.v[2])+' '+f2str(BrHdr.ACQ_grad_matrix.v[3])+'; '+
f2str(BrHdr.ACQ_grad_matrix.v[4])+' '+f2str(BrHdr.ACQ_grad_matrix.v[5])+' '+f2str(BrHdr.ACQ_grad_matrix.v[6])+'; '+
f2str(BrHdr.ACQ_grad_matrix.v[7])+' '+f2str(BrHdr.ACQ_grad_matrix.v[8])+' '+f2str(BrHdr.ACQ_grad_matrix.v[9])+']');
showmsg(' Sepn (Thick+Gap) : '+f2str(BrHdr.ACQ_slice_sepn.v[1]));
showmsg(' Slice Thick : '+f2str(BrHdr.ACQ_slice_thick));
showmsg(' Offset (Read/Phase/Slice) : '+f2str(BrHdr.ACQ_read_offset)+' '+f2str(BrHdr.ACQ_phase1_offset)+' '+f2str(BrHdr.METHOD_slice_offset));
showmsg(' METHOD_PVM_SpatResol : '+ f2str(BrHdr.METHOD_PVM_SpatResol.v[1])+'x' +f2str(BrHdr.METHOD_PVM_SpatResol.v[2])+'x' +f2str(BrHdr.METHOD_PVM_SpatResol.v[3]));
showmsg(' METHOD_slice_distance : '+ f2str(BrHdr.METHOD_slice_distance));
showmsg(' METHOD_PVM_ObjOrderScheme: '+inttostr(BrHdr.METHOD_PVM_ObjOrderScheme));
showmsg(' RECO_offset : '+f2str(BrHdr.RECO_offset.v[1])+' '+f2str(BrHdr.RECO_offset.v[2])+' '+f2str(BrHdr.RECO_offset.v[3]));
showmsg(' Repetition Time : '+f2str(BrHdr.ACQ_repetition_time.v[1]) );
showmsg(' NI (images per TR, slices) : '+inttostr(BrHdr.ACQ_NI));
showmsg(' NSLICES : '+inttostr(BrHdr.ACQ_NSLICES));
showmsg(' NR (volumes) : '+inttostr(BrHdr.ACQ_NR));
showmsg(' Convert pixel value (PV) to floating point value (FP) : FP = (PV/RECO_map_slope + RECO_map_offset)/ ACQ_RG');
showmsg(' RECO_map_slope : '+ f2str(BrHdr.RECO_map_slope));
showmsg(' RECO_map_offset : '+ f2str(BrHdr.RECO_map_offset));
showmsg(' ACQ_RG : '+ f2str(BrHdr.ACQ_RG));
showmsg(' Transpose : '+f2str(BrHdr.RECO_transposition) );
end;
procedure SwapDims (var i1, i2: smallint; var f1, f2: single);
//Bruker refers to X/Y dimensions in reverse order to NIfTI
var
i: integer;
f: single;
begin
i := i1;
i1 := i2;
i2 := i;
f := f1;
f1 := f2;
f2 := f;
end;
procedure MtReport (title: string; mt: TMat);
//display a 4x4 matrix
begin
showmsg(title+' = ['+f2str(mt[1,1])+' '+f2str(mt[1,2])+' '+f2str(mt[1,3])+' '+f2str(mt[1,4])+'; '
+f2str(mt[2,1])+' '+f2str(mt[2,2])+' '+f2str(mt[2,3])+' '+f2str(mt[2,4])+'; '
+f2str(mt[3,1])+' '+f2str(mt[3,2])+' '+f2str(mt[3,3])+' '+f2str(mt[3,4])+'; 0, 0, 0, 1] ');
end;
procedure BrMat_VISU (BrHdr: TBrukerHdr; var NiHdr: TNiHdr; lFOVx10, lVerbose: boolean);
var
m: mat44;
vc_orientation: mat33;
dumdx, dumdy, dumdz: single;
vc_position, resolution: vect3;
vc_subject_position: string;
frame_body_as_frame_head,keep_same_det,consider_subject_position: boolean;
begin
vc_orientation := toMatrix (BrHdr.VISU_orientation.v[1],BrHdr.VISU_orientation.v[2],BrHdr.VISU_orientation.v[3],
BrHdr.VISU_orientation.v[4],BrHdr.VISU_orientation.v[5],BrHdr.VISU_orientation.v[6],
BrHdr.VISU_orientation.v[7],BrHdr.VISU_orientation.v[8],BrHdr.VISU_orientation.v[9]);
vc_position := Vector3(BrHdr.VISU_CorePosition.v[1], BrHdr.VISU_CorePosition.v[2], BrHdr.VISU_CorePosition.v[3]);
if lFOVx10 then begin
NiHdr.pixdim[1] := NiHdr.pixdim[1] * 10;
NiHdr.pixdim[2] := NiHdr.pixdim[2] * 10;
NiHdr.pixdim[3] := NiHdr.pixdim[3] * 10;
end;
resolution := Vector3(NiHdr.pixdim[1], NiHdr.pixdim[2], NiHdr.pixdim[3]);
vc_subject_position := BrHdr.VISU_SubjectPosition;
frame_body_as_frame_head :=False;
keep_same_det := True;
consider_subject_position :=False;
m := compute_affine_from_visu_pars(vc_orientation, vc_position, vc_subject_position, resolution,
frame_body_as_frame_head, keep_same_det,consider_subject_position);
NiHdr.sform_code:= kNIFTI_XFORM_SCANNER_ANAT;
NiHdr.srow_x[0] := m[0,0]; NiHdr.srow_x[1] := m[0,1]; NiHdr.srow_x[2] := m[0,2]; NiHdr.srow_x[3] := m[0,3];
NiHdr.srow_y[0] := m[1,0]; NiHdr.srow_y[1] := m[1,1]; NiHdr.srow_y[2] := m[1,2]; NiHdr.srow_y[3] := m[1,3];
NiHdr.srow_z[0] := m[2,0]; NiHdr.srow_z[1] := m[2,1]; NiHdr.srow_z[2] := m[2,2]; NiHdr.srow_z[3] := m[2,3];
NiHdr.qform_code:= kNIFTI_XFORM_SCANNER_ANAT;
nifti_mat44_to_quatern(m, NiHdr.quatern_b, NiHdr.quatern_c, NiHdr.quatern_d,
NiHdr.qoffset_x, NiHdr.qoffset_y, NiHdr.qoffset_z,
dumdx, dumdy, dumdz,NiHdr.pixdim[0]) ;
if not lverbose then exit;
showmsg(Mat2Str('vc_orientation',vc_orientation));
showmsg(Vec2Str('vc_position',vc_position));
showmsg(Vec2Str('resolution',resolution));
showmsg('vc_subject_position = '+vc_subject_position);
showmsg(Bool2Str('frame_body_as_frame_head',frame_body_as_frame_head));
showmsg(Bool2Str('keep_same_det',keep_same_det));
showmsg(Bool2Str('consider_subject_position',consider_subject_position));
showmsg(Mat2Str('result',m));
end;
procedure BrMat (BrHdr: TBrukerHdr; var NiHdr: TNiHdr; lFOVx10, lVerbose: boolean);
//Generate NIfTI spatial transformation matrix from Bruker Header
var
rotn, Tranposition,Translations, swapxy, ft2mm, recoff, perl2nii, so_far: TMat;
begin
//showmsg('>>>>>>> '+BrHdr.VISU_SubjectPosition);
Tranposition := MtEye;
if (BrHdr.RECO_transposition = 1) then begin
SwapDims(NiHdr.dim[1],NiHdr.dim[2], NiHdr.pixdim[1],NiHdr.pixdim[2]);
Tranposition := MtSet(0,1,0,0, 1,0,0,0, 0,0,1,0) //swap read-phase
end
else if (BrHdr.RECO_transposition = 2) then
Tranposition := MtSet(1,0,0,0, 0,0,1,0, 0,1,0,0) //swap phase-slice
else if (BrHdr.RECO_transposition = 3) then
Tranposition := MtSet(0,0,1,0, 0,1,0,0, 1,0,0,0) //swap read-slice
else if (BrHdr.RECO_transposition <> 0) then begin
showmsg('Need to handle RECO transposition');
end;
swapxy := MtEye;
swapxy[1,1] := -1;
swapxy[2,2] := -1;
//recon offset
recoff := MtEye;
recoff[1,4] := BrHdr.RECO_offset.v[1]; //Read
recoff[2,4] := BrHdr.RECO_offset.v[2]; //Phase
recoff[3,4] := BrHdr.RECO_offset.v[3]; //Slice
//voxels ->mm
ft2mm := MtEye;
ft2mm[1,1] := NiHdr.pixdim[1];
ft2mm[2,2] := NiHdr.pixdim[2];
ft2mm[3,3] := NiHdr.pixdim[3];
//set origin to center of volume
ft2mm[1,4] := (NiHdr.dim[1]+1)/2 * -NiHdr.pixdim[1];
ft2mm[2,4] := (NiHdr.dim[2]+1)/2 * -NiHdr.pixdim[2];
ft2mm[3,4] := (NiHdr.dim[3]+1)/2 * -NiHdr.pixdim[3];
//translations
Translations := MtEye;
Translations[1,4] := BrHdr.ACQ_read_offset; //Read
Translations[2,4] := BrHdr.ACQ_phase1_offset; //Phase
Translations[3,4] := BrHdr.METHOD_slice_offset; //Slice
//gradients matrix - transposed!
rotn := MtSet(BrHdr.ACQ_grad_matrix.v[1],BrHdr.ACQ_grad_matrix.v[4],BrHdr.ACQ_grad_matrix.v[7],0,
BrHdr.ACQ_grad_matrix.v[2],BrHdr.ACQ_grad_matrix.v[5],BrHdr.ACQ_grad_matrix.v[8],0,
BrHdr.ACQ_grad_matrix.v[3],BrHdr.ACQ_grad_matrix.v[6],BrHdr.ACQ_grad_matrix.v[9],0);
so_far := MtMult(recoff, Tranposition);
so_far := MtMult(ft2mm, so_far);
so_far := MtMult(swapxy, so_far);
so_far := MtMult(Translations, so_far);
so_far := MtMult(rotn,so_far);
//The perl2nii transforms spatial coordinates to NIfTI convention
// pvconv.pl matrix dimensions X,Y,Z is L->R,I->S,P->A, but NIfTI is explicitly L->R,P->A,I->S
if lFOVx10 then begin
perl2nii := MtSet(-10,0,0,0, 0,0,10,0, 0,10,0,0);
NiHdr.pixdim[1] := NiHdr.pixdim[1] * 10;
NiHdr.pixdim[2] := NiHdr.pixdim[2] * 10;
NiHdr.pixdim[3] := NiHdr.pixdim[3] * 10;
end else
perl2nii := MtSet(-1,0,0,0, 0,0,1,0, 0,1,0,0);
so_far := MtMult(perl2nii,so_far);
NiHdr.sform_code:= kNIFTI_XFORM_SCANNER_ANAT;
NiHdr.srow_x[0] := so_far[1,1]; NiHdr.srow_x[1] := so_far[1,2]; NiHdr.srow_x[2] := so_far[1,3]; NiHdr.srow_x[3] := so_far[1,4];
NiHdr.srow_y[0] := so_far[2,1]; NiHdr.srow_y[1] := so_far[2,2]; NiHdr.srow_y[2] := so_far[2,3]; NiHdr.srow_y[3] := so_far[2,4];
NiHdr.srow_z[0] := so_far[3,1]; NiHdr.srow_z[1] := so_far[3,2]; NiHdr.srow_z[2] := so_far[3,3]; NiHdr.srow_z[3] := so_far[3,4];
if not lVerbose then exit; //display transformation values
MtReport('start',Tranposition);
MtReport('recoff',recoff);
MtReport('ft2mm',ft2mm);
MtReport('swaps',swapxy);
MtReport('trans',Translations);
MtReport('rotn',rotn);
MtReport('perl2nii',perl2nii);
showmsg('vx2mm = rotn * trans * swaps * ft2mm * recoff * start');
showmsg('nii = perl2nii * rotn * trans * swaps * ft2mm * recoff * start');
MtReport('NIfTI',so_far);
end;
function BrHdr2NII (BrHdr: TBrukerHdr; var NiHdr: TNiHdr; ImgBytes: integer; var FName: string): boolean;
//convert Bruker Header format to NIfTI format
var
i: integer;
str: string;
begin
result := false;
ClearHdr (NiHdr);
if BrHdr.RECO_wordtype_bits = 16 then begin
NiHdr.datatype := 4;
NiHdr.bitpix := 16;
end else if BrHdr.RECO_wordtype_bits = 32 then begin
NiHdr.datatype := 8;
NiHdr.bitpix := 32;
end else begin
showmsg('Unsupported RECO_wordtype '+inttostr(BrHdr.RECO_wordtype_bits)+' '+FName);
exit;
end;
NiHdr.scl_inter:= BrHdr.RECO_map_offset/BrHdr.ACQ_RG; //FP = (PV/RECO_map_slope + RECO_map_offset)/ ACQ_RG
NiHdr.scl_slope:= (1/BrHdr.RECO_map_slope)/BrHdr.ACQ_RG; //FP = (PV/RECO_map_slope + RECO_map_offset)/ ACQ_RG
for i := 1 to 4 do
NiHdr.dim[i] := round(BrHdr.RECO_size.v[i]);
if (NiHdr.dim[1] < 1) then begin
showmsg('Error: first dimension of RECO_size must be non-zero'+FName);
exit;
end;
if (NiHdr.dim[2] < 1) then NiHdr.dim[2] := 1;
(*if true then begin //if (BrHdr.VISU_FlipXY) and (NiHdr.dim[2] > 1) then begin //Bruker report YX order [Row,Column] while NIfTI XY [Column,Row]
showmsg('swapping rows/columns');
//Only an issue for images where inplane resolution is different for rows and columns
//swizzle row/column
i := NiHdr.dim[2];
NiHdr.dim[2] := NiHdr.dim[1];
NiHdr.dim[1] := i;
end;*)
if (NiHdr.dim[3] < 1) then NiHdr.dim[3] := 1;
if (NiHdr.dim[4] < 1) then NiHdr.dim[4] := 1;
if (BrHdr.METHOD_PVM_SpatResol.v[1] > 0) and (BrHdr.METHOD_PVM_SpatResol.v[2] > 0) and (BrHdr.METHOD_PVM_SpatResol.v[3] > 0) then begin
//use METHOD for resolution - seems most accurate
for i := 1 to 3 do
NiHdr.pixdim[i] := BrHdr.METHOD_PVM_SpatResol.v[i];
end else begin //no METHOD_PVM_SpatResol - use more speculative methods to detect resolution
for i := 1 to 2 do begin
if BrHdr.RECO_size.v[i] = 0 then begin