X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=segmentation%2FclitkExtractLymphStations.ggo;h=d789824756ce33ad9d6fb37e9adf725d44b6a0db;hb=34f45c6507a3605351e265f4d5eb5b4bb31a1fa6;hp=78efb35a8b96e93104e7627d72d6aeada215f1ce;hpb=e008d74b0ecdc4ca2eaae8c429901a78f9ef5c31;p=clitk.git

diff --git a/segmentation/clitkExtractLymphStations.ggo b/segmentation/clitkExtractLymphStations.ggo
index 78efb35..d789824 100644
--- a/segmentation/clitkExtractLymphStations.ggo
+++ b/segmentation/clitkExtractLymphStations.ggo
@@ -10,18 +10,38 @@ 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 "mediastinum"   m	"Input mediastinum mask filename" string  	yes
-option "trachea"       t	"Input trachea mask filename"	  string  	yes
-option "output"        o 	"Output lungs mask filename"      string 	yes
-
-option "carenaZposition"   		c	"Sup-Inf position of the carena (in mm)" double no
-option "middleLobeBronchusZposition"   	b	"Sup-Inf position of the middle lobe bronchus (in mm)" double no
-option "spacing"     -	"Intermediate resampling spacing"         double no default="6"
-option "fuzzy1"	     -	"Fuzzy relative position threshold"	  double no default="0.6"
-
-
-
-
+option "afdb"          a	"Input Anatomical Feature DB"     string  	no
+option "input"         i	"Input filename"                  string  	no
+option "output"        o 	"Output lungs mask filename"      string 	no
+option "station"       - 	"Force to compute station even if already exist in the DB"      string 	no multiple
+
+section "Options for Station 8"
+option "maxAntSpine"                 - "Distance max to anterior part of the spine in mm"  double no default="10"
+option "esophagusDilatationForAnt"   - "Dilatation of esophagus, in mm, for 'anterior' limits (default=15,2,1)" double no multiple
+option "esophagusDilatationForRight" - "Dilatation of esophagus, in mm, for 'right' limits (default=5,10,1)" double no multiple
+option "tS8_Esophagus"               - "Threshold for 'Post' to dilated Esophagus" double default="0.5" no 
+option "injectedThresholdForS8"      - "Threshold injected areas in the ct" double default="150" no 
+
+section "Options for Station 7"
+option "tS7_Bronchi"                    - "Threshold for Left/Right bronchi" double default="0.1" no 
+option "tS7_LeftSuperiorPulmonaryVein"  - "Threshold for LeftSuperiorPulmonaryVein" double default="0.3" no 
+option "tS7_RightSuperiorPulmonaryVein" - "Threshold for RightSuperiorPulmonaryVein" double default="0.2" no 
+option "tS7_RightPulmonaryArtery"       - "Threshold for RightPulmonaryArtery" double default="0.3" no 
+option "tS7_LeftPulmonaryArtery"        - "Threshold for LeftPulmonaryArtery (NOT USEFUL YET)" double default="0.5" no 
+option "tS7_SVC"                        - "Threshold for SVC" double default="0.2" no 
+
+section "Options for Station 3A"
+option "tS3A_Sternum"          - "Threshold for Post to Sternum" double default="0.5" no 
+option "tS3A_SubclavianArtery" - "Threshold for Ant to SubclavianArtery" double default="0.2" no 
+
+section "Options for Station 2RL"
+option "tS2RL_CommonCarotidArtery"   - "Threshold for NotAntTo to CommonCarotidArtery"   double default="0.7" no 
+option "tS2RL_BrachioCephalicTrunk"  - "Threshold for NotAntTo to BrachioCephalicTrunk"  double default="0.7" no 
+option "tS2RL_BrachioCephalicVein"   - "Threshold for NotAntTo to BrachioCephalicVein"   double default="0.3" no 
+option "tS2RL_Aorta"                 - "Threshold for RightTo  to Aorta"                 double default="0.7" no 
+option "tS2RL_SubclavianArteryRight" - "Threshold for NotLeft  to SubclavianArteryRight" double default="0.5" no 
+option "tS2RL_SubclavianArteryLeft"  - "Threshold for NotRight to SubclavianArteryLeft"  double default="0.8" no