add jackknife R2 to jackknife plot title, add comment before jackknife question

README.md

@@ -50,7 +50,7 @@ data file "EXAMPLE.CLI" :
 * Age at the end of environmental influence __1__
 * Is this an acceptable model?__Yes__
 * Are there a good fit and no trend or strong autocorrelation in residuals?__Yes__
-* Are there reasonable jackknife coefficient R2 (>65% recommanded) no extreme yearly coefficient and acceptable MSY graph __Yes__
+* Are there reasonable jackknife coefficient R2 (>65% recommended) no extreme yearly coefficient and acceptable MSY graph __Yes__
 
 ## TO DO
 

src/fr/ird/climprod/Global.java

@@ -83,7 +83,7 @@ public class Global {
 
     static int cpue_sous_sur_production;                  // May the stock present large fluctuations in CPUE when overexploited
 
-    static double jackknife;                              // Reasonable jackknife coefficient R2 (>65% recommanded), no extreme yearly coefficient, and acceptable MSY graph
+    static double jackknife;                              // Reasonable jackknife coefficient R2 (>65% recommended), no extreme yearly coefficient, and acceptable MSY graph
     static boolean test_jackknife;
     static int coeff_determination_instable;
     /**
@@ -225,7 +225,7 @@ public class Global {
 
         cpue_sous_sur_production = -1; //	May the stock present large fluctuations in CPUE when overexploited
 
-        jackknife = 0.0d; //	Reasonable jackknife coefficient R2 (>65% recommanded), no extreme yearly coefficient, and acceptable MSY graph
+        jackknife = 0.0d; //	Reasonable jackknife coefficient R2 (>65% recommended), no extreme yearly coefficient, and acceptable MSY graph
         test_jackknife = false;
         coeff_determination_instable = -1;
         /**

src/fr/ird/climprod/TexteRegles.java

@@ -383,6 +383,7 @@ public static boolean isTrue(){
                     }
                     else
                       commentaireEnCours="The Student's test on jackknife regression coefficients is acceptable";
+                    commentaireEnCours=commentaireEnCours+"\n\nDue to usual autocorrelation in time series and non independance between CPUE and E, conventional statistics are usually provide too optimistic results";
                     break;
               case 1:
                     result=( Global.coeff_determination_instable!=1);
@@ -410,6 +411,7 @@ public static boolean isTrue(){
           }
           if(result && commentaireEnCours.equals(""))
               commentaireEnCours=(String)htComment.get(Integer.toString(numEnCours));
+          System.out.println("LE commentaire est "+commentaireEnCours);
           System.out.println("On teste " + numEnCours + " elle est "+ result );
 return result;
 }

src/fr/ird/climprod/Validation.java

@@ -357,6 +357,7 @@ public static void valide_modele()
         for(i=0;i<nbre_par;i++) {
 		if ( Math.abs(par_init[i]/ecart_pseudo[i]) < 2.00) Global.test_jackknife=false;
 	}
+        // TODO add fisher test
         /****************************************************************************/
 	r_jk  = (1 - (sdc_jk/var_tot));
 	if(r_tot<0.0) r_tot = 0.0;
@@ -457,14 +458,14 @@ for(int i=0;i<nbre_par;i++){
 trjk=new double[nim];
 for(int i=0;i<nim;i++)
     trjk[i] = 10000*jkn[i][0]/r_tot;
-
+        DecimalFormat nf = new DecimalFormat("0.00");
         PlotSerie ps= new  PlotSerie("Years",etiq,"",trjk);
         ps.setFigure(3);
         ps.setCouleur(Color.blue);
         Global.jackknifePlot[nbre_par]=new PlotHisto();
         Global.jackknifePlot[nbre_par].setValeurs(ps);
         Global.jackknifePlot[nbre_par].setValeurs(ps100);
-        Global.jackknifePlot[nbre_par].setTitreGraphique(Global.titreG[21]);
+        Global.jackknifePlot[nbre_par].setTitreGraphique(Global.titreG[21]+" (Jackknife R2 = "+nf.format(Global.jackknife)+")");
         Global.jackknifePlot[nbre_par].setTitreX(Global.titreSx[21]);
         Global.jackknifePlot[nbre_par].setTitreY(Global.titreSy[21]);
 

src/fr/ird/climprod/resources/Arbre_decisions.csv

@@ -98,7 +98,7 @@
 97;98;-3;0;2;good_results;Is this an acceptable model?; acceptab.hlp ;
 98;99;-3;15;3;trend_residuals;Are there a good fit and no trend or strong autocorrelation in residuals?; fitresid.hlp ;
 99;104;100;2;2;;;;
-100;101;-3;1;3;jackknife;Is there a reasonable jackknife coefficient R2 (>65% recommanded) no extreme yearly regression coefficients, an acceptable F test (p<0.01 recommended) and acceptable MSY graph ?; valide.hlp ;;;;;;;;;;;;
+100;101;-3;1;3;jackknife;Is there a reasonable jackknife coefficient R2 (>65% recommended) no extreme yearly regression coefficients, an acceptable F test (p<0.01 recommended) and acceptable MSY graph ?; valide.hlp ;;;;;;;;;;;;
 101;-4;-4;3;3;;;;
 102;-1;47;54;2
 103;46;102;55;2