/**
* main - Begin here
*
* Start from here.
*
* Return: 0 Success, the program worked
* 1 Error, something went wrong
*/
int main(int argc, char **argv)
{
unsigned long mnt_flags = 0;
int result = 0;
ntfs_volume *vol;
ntfs_log_set_handler(ntfs_log_handler_outerr);
if (!parse_options(argc, argv))
return 1;
utils_set_locale();
if (!opts.label)
opts.noaction++;
vol = utils_mount_volume(opts.device,
(opts.noaction ? MS_RDONLY : 0) |
(opts.force ? MS_RECOVER : 0));
if (!vol)
return 1;
if (opts.label)
result = change_label(vol, mnt_flags, opts.label, opts.force);
else
result = print_label(vol, mnt_flags);
ntfs_umount(vol, FALSE);
return result;
}
int main(int argc, char *argv[])
{
printf("TFAT version 01\n");
printf("Copyright (C) 2015 Parham Alvani ([email protected])\n");
printf("TFAT comes with ABSOLUTELY NO WARRANTY; for details type `show w'.\n");
printf("This is free software, and you are welcome to redistribute it\n");
printf("under certain conditions; type `show c' for details.\n");
printf("\n");
char *command;
char prompt[MAX_BUFF];
change_current_path("-");
change_label("NOTHING");
while (true) {
sprintf(prompt, "%s@TFAT {%s} [%s] $ ", getlogin(), label,
current_path);
command = readline(prompt);
if (command && *command)
add_history(command);
command_dispatcher(command);
free(command);
}
}
/**
* main - Begin here
*
* Start from here.
*
* Return: 0 Success, the program worked
* 1 Error, something went wrong
*/
int main(int argc, char **argv)
{
unsigned long mnt_flags = 0;
int result = 0;
ntfs_volume *vol;
ntfs_log_set_handler(ntfs_log_handler_outerr);
result = parse_options(argc, argv);
if (result >= 0)
return (result);
result = 0;
utils_set_locale();
if ((opts.label || opts.new_serial)
&& !opts.noaction
&& !opts.force
&& !ntfs_check_if_mounted(opts.device, &mnt_flags)
&& (mnt_flags & NTFS_MF_MOUNTED)) {
ntfs_log_error("Cannot make changes to a mounted device\n");
result = 1;
goto abort;
}
if (!opts.label && !opts.new_serial)
opts.noaction++;
vol = utils_mount_volume(opts.device,
(opts.noaction ? NTFS_MNT_RDONLY : 0) |
(opts.force ? NTFS_MNT_RECOVER : 0));
if (!vol)
return 1;
if (opts.new_serial) {
result = set_new_serial(vol);
if (result)
goto unmount;
} else {
if (opts.verbose)
result = print_serial(vol);
}
if (opts.label)
result = change_label(vol, opts.label);
else
result = print_label(vol, mnt_flags);
unmount :
ntfs_umount(vol, FALSE);
abort :
/* "result" may be a negative reply of a library function */
return (result ? 1 : 0);
}
int main (int argc, char ** argv)
{
if (argc == 2)
print_label(argv[1]);
else if (argc == 3)
change_label(argv[1], argv[2]);
else {
fprintf(stderr, _("Usage: e2label device [newlabel]\n"));
exit(1);
}
return 0;
}
int ad_set(int argc, char **argv, AFPObj *obj)
{
int c, firstarg;
afpvol_t vol;
struct stat st;
int adflags = 0;
struct adouble ad;
while ((c = getopt(argc, argv, ":l:t:c:f:a:")) != -1) {
switch(c) {
case 'l':
new_label = strdup(optarg);
break;
case 't':
new_type = strdup(optarg);
break;
case 'c':
new_creator = strdup(optarg);
break;
case 'f':
new_flags = strdup(optarg);
break;
case 'a':
new_attributes = strdup(optarg);
break;
case ':':
case '?':
usage_set();
return -1;
break;
}
}
if (argc <= optind)
exit(1);
cnid_init();
openvol(obj, argv[optind], &vol);
if (vol.vol->v_path == NULL)
exit(1);
if (stat(argv[optind], &st) != 0) {
perror("stat");
exit(1);
}
if (S_ISDIR(st.st_mode))
adflags = ADFLAGS_DIR;
ad_init(&ad, vol.vol);
if (ad_open(&ad, argv[optind], adflags | ADFLAGS_HF | ADFLAGS_CREATE | ADFLAGS_RDWR, 0666) < 0)
goto exit;
if (new_label)
change_label(argv[optind], &vol, &st, &ad, new_label);
if (new_type)
change_type(argv[optind], &vol, &st, &ad, new_type);
if (new_creator)
change_creator(argv[optind], &vol, &st, &ad, new_creator);
if (new_flags)
change_flags(argv[optind], &vol, &st, &ad, new_flags);
if (new_attributes)
change_attributes(argv[optind], &vol, &st, &ad, new_attributes);
ad_flush(&ad);
ad_close(&ad, ADFLAGS_HF);
exit:
closevol(&vol);
return 0;
}
static MRI *
edit_hippocampus(MRI *mri_in_labeled, MRI *mri_T1, MRI *mri_out_labeled) {
int width, height, depth, x, y, z, nchanged, dleft, label,
dright, dpos, dant, dup, ddown, i, left, dgray, dhippo, dwhite, olabel ;
MRI *mri_tmp ;
nchanged = 0 ;
width = mri_T1->width ;
height = mri_T1->height ;
depth = mri_T1->depth ;
mri_out_labeled = MRIcopy(mri_in_labeled, mri_out_labeled) ;
/* change all gm within 2 mm of ventricle to wm */
for (z = 0 ; z < depth ; z++) {
for (y = 0 ; y < height ; y++) {
for (x = 0 ; x < width ; x++) {
if (x == Gx && y == Gy && z == Gz)
DiagBreak() ;
label = MRIvox(mri_out_labeled, x, y, z) ;
if (IS_GM(label) == 0)
continue ;
left = label == Left_Cerebral_Cortex ;
olabel = left ? Left_Lateral_Ventricle : Right_Lateral_Ventricle;
if (MRIneighborsInWindow(mri_out_labeled, x, y, z, 5, olabel) >= 1) {
nchanged++ ;
MRIvox(mri_out_labeled, x, y, z) = left ? Left_Cerebral_White_Matter : Right_Cerebral_White_Matter;
}
}
}
}
mri_tmp = MRIcopy(mri_out_labeled, NULL) ;
/* change gray to hippocampus based on wm */
for (i = 0 ; i < 3 ; i++) {
for (z = 0 ; z < depth ; z++) {
for (y = 0 ; y < height ; y++) {
for (x = 0 ; x < width ; x++) {
if (x == Gx && y == Gy && z == Gz)
DiagBreak() ;
label = MRIvox(mri_tmp, x, y, z) ;
if (x == 160 && y == 127 && z == 118)
DiagBreak() ;
left = 0 ;
switch (label) {
case Left_Cerebral_White_Matter:
left = 1 ;
case Right_Cerebral_White_Matter:
dgray = distance_to_label(mri_out_labeled,
left ? Left_Cerebral_Cortex :
Right_Cerebral_Cortex,
x,y,z,0,1,0,3);
dwhite = distance_to_label(mri_out_labeled,
left ? Left_Cerebral_White_Matter :
Right_Cerebral_White_Matter,
x,y,z,0,-1,0,1);
dhippo = distance_to_label(mri_out_labeled,
left ? Left_Hippocampus :
Right_Hippocampus,
x,y,z,0,-1,0,3);
/* change bright hippocampus that borders white matter to white matter */
if (dgray <= 2 && dwhite <= 1 && dhippo <= 3) {
mle_label(mri_T1, mri_tmp, x, y, z, 9,
left ? Left_Cerebral_Cortex : Right_Cerebral_Cortex,
left ? Left_Cerebral_White_Matter : Right_Cerebral_White_Matter) ;
}
case Left_Hippocampus:
left = 1 ;
case Right_Hippocampus:
dgray = distance_to_label(mri_out_labeled,
left ? Left_Cerebral_Cortex :
Right_Cerebral_Cortex,
x,y,z,0,1,0,3);
dwhite = distance_to_label(mri_out_labeled,
left ? Left_Cerebral_White_Matter :
Right_Cerebral_White_Matter,
x,y,z,0,1,0,1);
dhippo = distance_to_label(mri_out_labeled,
left ? Left_Hippocampus :
Right_Hippocampus,
x,y,z,0,-1,0,1);
/* change bright hippocampus that borders white matter to white matter */
if (dgray <= 3 && dwhite <= 1 && dhippo <= 1) {
change_label(mri_T1, mri_tmp, x, y, z, 9, left) ;
}
break ;
case Unknown: {
int dhippo, dl, dr, dgray, dwhite ;
if (x == 160 && y == 129 && z == 121)
DiagBreak() ;
/*
if the current label is unknown, and there is white matter above
and hippocampus above and gray matter below, change to gray matter.
*/
dl = distance_to_label(mri_out_labeled,
Left_Hippocampus,
x,y,z,0,-1,0,4);
dr = distance_to_label(mri_out_labeled,
Right_Hippocampus,
x,y,z,0,-1,0,4);
if (dl > 4 && dr > 4) /* could be inferior to inf-lat-ven also */
{
dl = distance_to_label(mri_out_labeled,
Left_Inf_Lat_Vent,
x,y,z,0,-1,0,4);
dr = distance_to_label(mri_out_labeled,
Right_Inf_Lat_Vent,
x,y,z,0,-1,0,4);
}
if (dl < dr) {
left = 1 ;
dhippo = dl ;
dgray = distance_to_label(mri_out_labeled,
Left_Cerebral_Cortex,
x,y,z,0,1,0,2);
dwhite = distance_to_label(mri_out_labeled,
Left_Cerebral_White_Matter,
x,y,z,0,-1,0,2);
} else {
left = 0 ;
dhippo = dr ;
dwhite = distance_to_label(mri_out_labeled,
Right_Cerebral_White_Matter,
x,y,z,0,-1,0,2);
dgray = distance_to_label(mri_out_labeled,
Right_Cerebral_Cortex,
x,y,z,0,1,0,2);
}
if (dhippo <= 4 && dwhite <= 2 && dgray <= 2) {
MRIvox(mri_tmp, x, y, z) =
left ? Left_Cerebral_Cortex : Right_Cerebral_Cortex ;
nchanged++ ;
continue ;
}
break ;
}
case Left_Cerebral_Cortex:
left = 1 ;
case Right_Cerebral_Cortex:
dup = distance_to_label(mri_out_labeled,
left ? Left_Hippocampus :
Right_Hippocampus,x,y,z,0,-1,0,2);
if (dup <= 1) {
label = left ?
Left_Cerebral_White_Matter : Right_Cerebral_White_Matter;
MRIvox(mri_tmp, x, y, z) = label ;
nchanged++ ;
continue ;
}
/*
if the current label is gray, and there is white matter below
and hippocampus above, change to hippocampus.
*/
ddown = distance_to_label(mri_out_labeled,
left ? Left_Cerebral_White_Matter :
Right_Cerebral_White_Matter,
x,y,z,0,1,0,3);
dup = distance_to_label(mri_out_labeled,
left ? Left_Hippocampus :
Right_Hippocampus,x,y,z,0,-1,0,2);
if (dup <= 2 && ddown <= 2) {
change_label(mri_T1, mri_tmp, x, y, z, 9, left) ;
nchanged++ ;
continue ;
}
/*
if the current label is gray, and there is white matter above
and hippocampus below, change to hippocampus.
*/
ddown = distance_to_label(mri_out_labeled,
left ? Left_Hippocampus :
Right_Hippocampus,
x,y,z,0,1,0,3);
dup = distance_to_label(mri_out_labeled,
left ? Left_Cerebral_White_Matter :
Right_Cerebral_White_Matter,
x,y,z,0,-1,0,2);
if (dup <= 2 && ddown <= 2) {
change_label(mri_T1, mri_tmp, x, y, z, 9, left) ;
nchanged++ ;
continue ;
}
ddown = distance_to_label(mri_out_labeled,
left ? Left_Hippocampus :
Right_Hippocampus,
x,y,z,0,1,0,3);
dup = distance_to_label(mri_out_labeled,
left ? Left_Hippocampus :
Right_Hippocampus,
x,y,z,0,-1,0,2);
if (dup <= 2 && ddown <= 2) {
change_label(mri_T1, mri_tmp, x, y, z, 9, left) ;
nchanged++ ;
continue ;
}
dleft = distance_to_label(mri_out_labeled, left ?
Left_Cerebral_White_Matter :
Right_Cerebral_White_Matter,
x,y,z,-1,0,0,3);
dright = distance_to_label(mri_out_labeled, left ?
Left_Cerebral_White_Matter :
Right_Cerebral_White_Matter,
x,y,z,1,0,0,3);
dup = distance_to_label(mri_out_labeled,
left ? Left_Hippocampus :
Right_Hippocampus,x,y,z,0,-1,0,2);
if (dleft <= 2 && dright <= 2 && dup <= 1) {
label = left ?
Left_Cerebral_White_Matter : Right_Cerebral_White_Matter;
MRIvox(mri_tmp, x, y, z) = label ;
nchanged++ ;
continue ;
}
dright = distance_to_label(mri_out_labeled, left ?
Left_Cerebral_White_Matter :
Right_Cerebral_White_Matter,
x,y,z,1,0,0,3);
dleft = distance_to_label(mri_out_labeled, left ?
Left_Hippocampus :
Right_Hippocampus,
x,y,z,-1,0,0,3);
if (dleft <= 1 && dright <= 1) {
change_label(mri_T1, mri_tmp, x, y, z, 9, left) ;
nchanged++ ;
continue ;
}
dleft = distance_to_label(mri_out_labeled, left ?
Left_Cerebral_White_Matter :
Right_Cerebral_White_Matter,
x,y,z,-1,0,0,3);
dright = distance_to_label(mri_out_labeled, left ?
Left_Hippocampus :
Right_Hippocampus,
x,y,z,1,0,0,3);
if (dleft <= 1 && dright <= 1) {
change_label(mri_T1, mri_tmp, x, y, z, 9, left) ;
nchanged++ ;
continue ;
}
dright = distance_to_label(mri_out_labeled, left ?
Left_Hippocampus :
Right_Hippocampus,
x,y,z,1,0,0,3);
dleft = distance_to_label(mri_out_labeled, left ?
Left_Hippocampus :
Right_Hippocampus,
x,y,z,-1,0,0,3);
if (dleft <= 1 && dright <= 1) {
label = left ?
Left_Hippocampus : Right_Hippocampus;
MRIvox(mri_tmp, x, y, z) = label ;
nchanged++ ;
continue ;
}
dpos = distance_to_label(mri_out_labeled,
Right_Cerebral_White_Matter,x,y,z,0,0,-1,3);
dant = distance_to_label(mri_out_labeled,
Right_Cerebral_White_Matter,x,y,z,0,0,1,3);
/* if the current label is gray and the is white matter directly above,
and hippocampus within 3 mm, then change label to MLE of either gray or
white
*/
if (x == 156 && y == 128 && z == 115)
DiagBreak() ;
dgray = distance_to_label(mri_out_labeled,
left ? Left_Cerebral_Cortex :
Right_Cerebral_Cortex,
x,y,z,0,1,0,1);
dwhite = distance_to_label(mri_out_labeled,
left ? Left_Cerebral_White_Matter :
Right_Cerebral_White_Matter,
x,y,z,0,-1,0,1);
dhippo = distance_to_label(mri_out_labeled,
left ? Left_Hippocampus :
Right_Hippocampus,
x,y,z,0,-1,0,3);
/* change bright hippocampus that borders white matter to white matter */
if (dgray <= 1 && dwhite <= 1 && dhippo <= 3) {
mle_label(mri_T1, mri_tmp, x, y, z, 9,
left ? Left_Cerebral_Cortex : Right_Cerebral_Cortex,
left ? Left_Cerebral_White_Matter : Right_Cerebral_White_Matter) ;
}
break ;
default:
break ;
}
}
}
}
MRIcopy(mri_tmp, mri_out_labeled) ;
}
/* make gray matter that is superior to hippocampus into hippocampus */
for (z = 0 ; z < depth ; z++) {
for (y = 0 ; y < height ; y++) {
for (x = 0 ; x < width ; x++) {
int yi ;
if (x == Gx && y == Gy && z == Gz)
DiagBreak() ;
label = MRIvox(mri_out_labeled, x, y, z) ;
if (!IS_HIPPO(label))
continue ;
left = label == Left_Hippocampus ;
/* search for first non-hippocampal voxel */
for (yi = y-1 ; yi >= 0 ; yi--) {
label = MRIvox(mri_out_labeled, x, yi, z) ;
if (!IS_HIPPO(label))
break ;
}
i = 0 ;
while (IS_GM(label) && yi >= 0) {
nchanged++ ;
MRIvox(mri_out_labeled, x, yi, z) = left ? Left_Hippocampus : Right_Hippocampus;
yi-- ;
label = MRIvox(mri_out_labeled, x, yi, z) ;
if (++i >= 4)
break ; /* don't let it go too far */
}
}
}
}
/* go through and change wm labels that have hippo both above and below them to hippo */
for (z = 0 ; z < depth ; z++) {
for (y = 0 ; y < height ; y++) {
for (x = 0 ; x < width ; x++) {
if (x == Gx && y == Gy && z == Gz)
DiagBreak() ;
label = MRIvox(mri_tmp, x, y, z) ;
if (x == 160 && y == 127 && z == 118)
DiagBreak() ;
if (!IS_WM(label))
continue ;
left = label == Left_Cerebral_White_Matter ;
if (IS_HIPPO(MRIvox(mri_out_labeled, x, mri_out_labeled->yi[y-1], z)) &&
IS_HIPPO(MRIvox(mri_out_labeled, x, mri_out_labeled->yi[y+1], z))) {
nchanged++ ;
MRIvox(mri_out_labeled, x, y, z) = left ? Left_Hippocampus : Right_Hippocampus;
}
}
}
}
MRIfree(&mri_tmp) ;
printf("%d hippocampal voxels changed.\n", nchanged) ;
return(mri_out_labeled) ;
}