X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=segmentation%2FclitkExtractBones.ggo;h=d69f92fb6fcfab221fe2bbb341bcc9ccbf589d9b;hb=ae015f09e2fa0ebc736d24b37c9ed6c1ca0cb5b2;hp=1700413feaae8cb3e4378a81fd3e324c45a71ae7;hpb=a9bddd3844a7b1fed036cbe9de2e1cc00b92598f;p=clitk.git

diff --git a/segmentation/clitkExtractBones.ggo b/segmentation/clitkExtractBones.ggo
index 1700413..d69f92f 100644
--- a/segmentation/clitkExtractBones.ggo
+++ b/segmentation/clitkExtractBones.ggo
@@ -10,12 +10,13 @@ option "verboseStep"    -  "Verbose each step"		  flag		off
 option "writeStep"      w  "Write image at each step"	  flag		off
 option "verboseOption"  -  "Display options values"       flag          off
 option "verboseWarningOff" -  "Do not display warning"    flag          off
+option "verboseMemory"  -  "Display memory usage"         flag          off
 
 section "I/O"
 
 option "input"		i	"Input image filename"		  string  	yes
 option "output"    	o   	"Output image filename"		  string 	yes
-#option "like"    	l   	"Resample like this image"	  string 	no
+option "afdb"           a	"Output Anatomical Feature DB (Carina position)"  string  no
 
 section "Smoothing (curvature anistropic diffusion)"
 
@@ -40,4 +41,8 @@ option "upper2"		-	"Upper threshold for RG"		double	no 	default="1500"
 option "radius2"	-	"Neighborhood radius"			int	no 	multiple	default="1" 
 option "sampleRate2"	-	"Sample rate of label image for RG: number of voxels to skip between seeds"	int	no 	default="0" 
 
-option "autoCrop"	- 	"Crop final mask to BoundingBox"        flag 	off
+section "Fill holes"
+option "doNotFillHoles"		-  "Do not fill holes if set"                 flag on
+option "dir"    	        d  "Directions (axes) to perform filling (defaults to 2,1,0)"	int multiple no
+
+option "noAutoCrop"	- 	"If set : do no crop final mask to BoundingBox"	                        flag 	off