X-Git-Url: https://hackdaworld.org/gitweb/?p=physik%2Fnlsop.git;a=blobdiff_plain;f=nlsop.c;h=2222fca666f3d1ae19afbf3fb9affdbce61335b2;hp=9b9f8039e2a790556b7896037b1eb1a1e58b212a;hb=HEAD;hpb=c37428b4496d4854ee7bd43b45be36238625c965

diff --git a/nlsop.c b/nlsop.c
index 9b9f803..2222fca 100644
--- a/nlsop.c
+++ b/nlsop.c
@@ -10,7 +10,7 @@
  * selforganizing lamella structure in the observed behaviour.
  *
  * refs: 
- *  - J. K. N. Lindner. Habilationsschrift, Universitaet Augsburg.
+ *  - J. K. N. Lindner. Habil.Schrift, Universitaet Augsburg.
  *  - Maik Haeberlen. Diplomarbeit, Universitaet Augsburg.
  *
  * Copyright (C) 2004 Frank Zirkelbach
@@ -55,21 +55,16 @@ int usage(void)
  puts("-n \t\t no user interaction");
  puts("-Z \t\t cryst -> amorph c diffusion in z direction");
  puts("-i \t\t no cryst to cryst diffusion");
- printf("-a <value> \t slope of nuclear energy loss (default %f)\n",A_EL);
- printf("-b <value> \t nuclear energy loss offset (default %f)\n",B_EL);
- printf("-x <value> \t # x cells (default %d)\n",X);
- printf("-y <value> \t # y cells (default %d)\n",Y);
- printf("-z <value> \t # z cells (default %d)\n",Z);
+ printf("-x <value> \t # x cells (default %d)\n",_X);
+ printf("-y <value> \t # y cells (default %d)\n",_Y);
+ printf("-z <value> \t # z cells (default %d)\n",_Z);
  printf("-s <value> \t steps (default %d)\n",STEPS);
  printf("-d <value> \t refresh display (default %d)\n",REFRESH);
  printf("-r <value> \t amorphous influence range (default %d)\n",RANGE);
- printf("-f <value> \t pressure = <value> * 1/distance^2 (default %f)\n",A_AP);
- printf("-p <value> \t pressure offset (default %f)\n",B_AP);
- printf("-F <value> \t proportionality constant between c conc and ability to get amorphous (default %f)\n",A_CP);
- printf("-A <value> \t slope of linear c distribution (default %f)\n",A_CD);
- printf("-B <value> \t linear c distribution offset (default %f)\n",B_CD);
+ printf("-f <value> \t stress induced amorphization influence (default %f)\n",S_D);
+ printf("-p <value> \t ballistic amorphization influence (default %f)\n",B_D);
+ printf("-F <value> \t carbon induced amorphization influence (default %f)\n",C_D);
  printf("-D <value> \t diffusion rate from cryst to amorph cells (default %f)\n",DR_AC);
- printf("-c <value> \t diffusion rate in cryst cells (default %f)\n",DR_CC);
  printf("-e <value> \t do diffusion every <value> steps (default %d)\n",DIFF_RATE);
  puts("-g <file> <step> continue simulation from file and step (step > 0)!");
  printf("-W <value> \t write every <value> steps to save file (default %d)\n",RESAVE);
@@ -78,22 +73,46 @@ int usage(void)
  puts("-S <file> \t save to file");
  puts("-R <file> \t read from random file");
  puts("-P <file> \t specify implantation profile file");
+ puts("-N <file> \t specify nuclear energy loss profile file");
  printf("-H <value> \t collisions per ion in simulation window (default %d)\n",CPI);
+ printf("-m <value> \t number of ion hits sputtering 3nm (default %d)\n",S_RATE);
  
  return 1;
 }
 
-int process_cell(d3_lattice *d3_l,u32 x,u32 y,u32 z,info *my_info)
+int sputter(d3_lattice *d3_l)
+{
+ int i,size;
+ int offh,offl;
+
+ size=d3_l->max_x*d3_l->max_y;
+ offl=0;
+ offh=size;
+
+ for(i=0;i<d3_l->max_z-1;i++)
+ {
+  memcpy(d3_l->status+offl,d3_l->status+offh,size);
+  memcpy(d3_l->extra+offl,d3_l->extra+offh,size*sizeof(int));
+  offl=offh;
+  offh+=size;
+ }
+ memset(d3_l->status+offl,0,size);
+ memset(d3_l->extra+offl,0,size);
+
+ return 1;
+}
+
+int process_cell(d3_lattice *d3_l,u32 x,u32 y,u32 z,info *my_info,u32 nel_z)
 {
  unsigned char *thiz;
  int *conc;
  int i,j;
  int off;
- double p;
+ double p,q;
 
  thiz=d3_l->status+x+y*d3_l->max_x+z*d3_l->max_x*d3_l->max_y;
  conc=d3_l->extra+x+y*d3_l->max_x+z*d3_l->max_x*d3_l->max_y;
- p=my_info->b_ap*URAND_MAX;
+ p=my_info->b*nel_z;
  for(i=-(my_info->range);i<=my_info->range;i++)
  {
   for(j=-(my_info->range);j<=my_info->range;j++)
@@ -101,24 +120,35 @@ int process_cell(d3_lattice *d3_l,u32 x,u32 y,u32 z,info *my_info)
    if(!(i==0 && j==0))
    {
     off=((x+d3_l->max_x+i)%d3_l->max_x)+((y+d3_l->max_y+j)%d3_l->max_x)*d3_l->max_x+z*d3_l->max_x*d3_l->max_y;
-    if(*(d3_l->status+off)&AMORPH) p+=my_info->a_ap*(*(d3_l->extra+off))*URAND_MAX/(i*i+j*j);
+    if(*(d3_l->status+off)&AMORPH) p+=my_info->s*(*(d3_l->extra+off))*URAND_MAX/(i*i+j*j);
    } 
   }
  }
- p+=*conc*my_info->a_cp*URAND_MAX;
+ p+=*conc*my_info->c*URAND_MAX;
  if(!(*thiz&AMORPH))
  {
   if(get_rand(URAND_MAX)<=p) MAKE_AMORPH(thiz);
  } else
  {
   /* assume 1-p probability */
+  /* also look for neighbours ! */
+  q=(URAND_MAX-p)>0?URAND_MAX-p:0;
+  j=0;
+  j+=(*(d3_l->status+((x+d3_l->max_x+1)%d3_l->max_x)+y*d3_l->max_x+z*d3_l->max_x*d3_l->max_y)&AMORPH)?1:0;
+  j+=(*(d3_l->status+((x+d3_l->max_x-1)%d3_l->max_x)+y*d3_l->max_x+z*d3_l->max_x*d3_l->max_y)&AMORPH)?1:0;
+  j+=(*(d3_l->status+x+((y+1+d3_l->max_y)%d3_l->max_y)*d3_l->max_x+z*d3_l->max_x*d3_l->max_y)&AMORPH)?1:0;
+  j+=(*(d3_l->status+x+((y-1+d3_l->max_y)%d3_l->max_y)*d3_l->max_x+z*d3_l->max_x*d3_l->max_y)&AMORPH)?1:0;
+  j+=(*(d3_l->status+x+y*d3_l->max_x+((z+1+d3_l->max_z)%d3_l->max_z)*d3_l->max_x*d3_l->max_y)&AMORPH)?1:0;
+  j+=(*(d3_l->status+x+y*d3_l->max_x+((z-1+d3_l->max_z)%d3_l->max_z)*d3_l->max_x*d3_l->max_y)&AMORPH)?1:0;
+
+  p+=((q/6)*j);
   if(get_rand(URAND_MAX)>p) MAKE_CRYST(thiz);
  }
  
  return 1;
 }
 
-int distrib_c(d3_lattice *d3_l,info *my_info,int step,double c_ratio)
+int distrib_c(d3_lattice *d3_l,info *my_info,int step,u32 rj_m,u32 *rj_g)
 {
  u32 x,y,z;
  int i,j,k,c;
@@ -126,14 +156,11 @@ int distrib_c(d3_lattice *d3_l,info *my_info,int step,double c_ratio)
  int carry;
 
  /* put one c ion somewhere in the lattice */
- if(my_info->cc<c_ratio*step)
- {
-  x=get_rand(d3_l->max_x);
-  y=get_rand(d3_l->max_y);
-  z=get_rand_lgp(d3_l->max_z,my_info->a_cd,my_info->b_cd);
-  *(d3_l->extra+x+y*d3_l->max_x+z*d3_l->max_x*d3_l->max_y)+=1;
-  (my_info->cc)++;
- }
+ x=get_rand(d3_l->max_x);
+ y=get_rand(d3_l->max_y);
+ z=get_rand_reject(d3_l->max_z,rj_m,rj_g);
+ *(d3_l->extra+x+y*d3_l->max_x+z*d3_l->max_x*d3_l->max_y)+=1;
+ (my_info->cc)++;
 
  if(step%my_info->diff_rate==0)
  {
@@ -176,74 +203,30 @@ int distrib_c(d3_lattice *d3_l,info *my_info,int step,double c_ratio)
        }
       }
      }
-     if(my_info->z_diff)
-     {
-      if(k!=0)
-      {
-       off=i+j*d3_l->max_x+(k-1)*d3_l->max_x*d3_l->max_y;
-       carry=0;
-       if(!*(d3_l->status+off)&AMORPH) carry=(int)(my_info->dr_ac*(*(d3_l->extra+off)));
-       if(carry!=0)
-       {
-        *(d3_l->extra+off)-=carry;
-        *(d3_l->extra+offset)+=carry;
-       }
-      }
-      if(k!=d3_l->max_z-1)
-      {
-       off=i+j*d3_l->max_x+(k+1)*d3_l->max_x*d3_l->max_y;
-       carry=0;
-       if(!*(d3_l->status+off)&AMORPH) carry=(int)(my_info->dr_ac*(*(d3_l->extra+off)));
-       if(carry!=0)
-       {
-        *(d3_l->extra+off)-=carry;
-        *(d3_l->extra+offset)+=carry;
-       }
-      }
-     }  
-    } else
-    /* case not amorph: cryst <-> cryst diffusion */
-    if(my_info->c_diff) {
-    /* if there is c diff, no diff in z-direction */
-    {
-     for(c=-1;c<=1;c++) 
+     /* z diff */
+     if(k!=0)
      {
-      if(c!=0)
+      off=i+j*d3_l->max_x+(k-1)*d3_l->max_x*d3_l->max_y;
+      carry=0;
+      if(!*(d3_l->status+off)&AMORPH) carry=(int)(my_info->dr_ac*(*(d3_l->extra+off)));
+      if(carry!=0)
       {
-       off=i+((j+c+d3_l->max_y)%d3_l->max_y)*d3_l->max_x+k*d3_l->max_x*d3_l->max_y;
-       carry=0;
-       if(!(*(d3_l->status+off)&AMORPH))
-       {
-        carry=(int)(my_info->dr_cc*(*(d3_l->extra+off)-*(d3_l->extra+offset))/2);
-        if(carry!=0)
-        {
-         *(d3_l->extra+offset)+=carry;
-         *(d3_l->extra+off)-=carry;
-        }
-       }
+       *(d3_l->extra+off)-=carry;
+       *(d3_l->extra+offset)+=carry;
       }
      }
-     for(c=-1;c<=1;c++)
+     if(k!=d3_l->max_z-1)
      {
-      if(c!=0)
+      off=i+j*d3_l->max_x+(k+1)*d3_l->max_x*d3_l->max_y;
+      carry=0;
+      if(!*(d3_l->status+off)&AMORPH) carry=(int)(my_info->dr_ac*(*(d3_l->extra+off)));
+     if(carry!=0)
       {
-       off=((i+c+d3_l->max_x)%d3_l->max_x)+j*d3_l->max_x+k*d3_l->max_x*d3_l->max_y;
-       carry=0;
-       if(!(*(d3_l->status+off)&AMORPH))
-       {
-	carry=(int)(my_info->dr_cc*(*(d3_l->extra+off)-*(d3_l->extra+offset))/2);
-	if(carry!=0)
-        {
-         *(d3_l->extra+offset)+=carry;
-	 *(d3_l->extra+off)-=carry;
-	}
-       }
+       *(d3_l->extra+off)-=carry;
+       *(d3_l->extra+offset)+=carry;
       }
      }
     }
-    /* end test */
-    }
-    /* */
    } /* for z */
   } /* for y */
  } /* for x */
@@ -300,7 +283,7 @@ int calc_pressure(d3_lattice *d3_l,int range)
       }
      }
     }
-    *(unsigned char *)(d3_l->v_ptr+x+y*d3_l->max_x+z*d3_l->max_x*d3_l->max_y)=(unsigned char)(count*255/max);
+    *((unsigned int *)(d3_l->v_ptr)+x+y*d3_l->max_x+z*d3_l->max_x*d3_l->max_y)=(count*500/max);
    }
   }
  }
@@ -328,52 +311,94 @@ int calc_max_extra(d3_lattice *d3_l)
  return max;
 }
 
-int write_bmp(d3_lattice *d3_l,int window,u32 x,u32 y,u32 z)
+int write_ac_distr(d3_lattice *d3_l,int ac_distr)
 {
- int fd,i,j,size=0,foo=0,end=0;
- int width=0,height=0;
- char bmpfile[MAX_CHARS];
- char buf[128];
+ int fd,x,y,z;
+ int count,offset;
+ char file[32];
+ int si_count;
+ 
+ if(ac_distr==1) strcpy(file,"carbon_in_av.plot");
+ if(ac_distr==2) strcpy(file,"carbon_in_cv.plot");
+ if(ac_distr==3) strcpy(file,"carbon.plot");
+ if(ac_distr==4) strcpy(file,"amorphous_volumes.plot");
 
- if(((window==4)||(window==5))&&(d3_l->max_z<FFT_HEIGHT) )
+ if((fd=open(file,O_WRONLY|O_CREAT))<0)
  {
-  puts("error: z < FFT_HEIGHT!");
-  puts("not writing bmp file ...");
+  puts("cannot open plot file");
   return -1;
  }
 
- if(window%3==1)
+ for(z=0;z<d3_l->max_z;z++)
  {
-  sprintf(bmpfile,"x-z_%d.bmp",y);
-  foo=3*d3_l->max_x;
-  if(window==1)
+  count=0;
+  si_count=0;
+  for(x=0;x<d3_l->max_x;x++)
   {
-   size=(foo+(4-foo%4))*d3_l->max_z;
-   height=d3_l->max_z;
+   for(y=0;y<d3_l->max_y;y++)
+   {
+    offset=x+y*d3_l->max_x+z*d3_l->max_x*d3_l->max_y;
+    if(ac_distr==1)
+     if(*(d3_l->status+offset)&AMORPH)
+     {
+      count+=*(d3_l->extra+offset);
+      si_count+=1;
+     }
+    if(ac_distr==2)
+     if(!(*(d3_l->status+offset)&AMORPH))
+     {
+      count+=*(d3_l->extra+offset);
+      si_count+=1;
+     }
+    if(ac_distr==3)
+    {
+     count+=*(d3_l->extra+offset);
+     si_count+=1;
+    }
+    if(ac_distr==4)
+     if(*(d3_l->status+offset)&AMORPH) count+=1;
+   }
   }
-  else 
+  si_count*=SI_PER_VOLUME;
+  if(ac_distr==4) dprintf(fd,"%d %d\n",z*CELL_LENGTH,count);
+#ifdef ATPROZ
+  else
   {
-   size=(foo+(4-foo%4))*FFT_HEIGHT;
-   end=d3_l->max_z-FFT_HEIGHT;
-   height=FFT_HEIGHT;
+   if(si_count)
+    dprintf(fd,"%d %f\n",z*CELL_LENGTH,100.0*count/(si_count+count));
+   else
+    dprintf(fd,"%d 0\n",z*CELL_LENGTH);
   }
+#else
+  else dprintf(fd,"%d %d\n",z*CELL_LENGTH,count/(d3_l->max_x*d3_l->max_y));
+#endif
+ }
+ close(fd);
+ 
+ return 1;
+}
+
+int write_bmp(d3_lattice *d3_l,int window,u32 x,u32 y,u32 z,int max)
+{
+ int fd,i,j,size=0,foo=0,k,sum;
+ int width=0,height=0;
+ char bmpfile[MAX_CHARS];
+ char buf[128];
+
+ if(window==1)
+ {
+  sprintf(bmpfile,"x-z_%d.bmp",y);
+  foo=3*d3_l->max_x;
+  size=(foo+(4-foo%4))*d3_l->max_z;
+  height=d3_l->max_z;
   width=d3_l->max_x;
  }
- if(window%3==2)
+ if(window==2)
  {
   sprintf(bmpfile,"y-z_%d.bmp",x);
   foo=3*d3_l->max_y;
-  if(window==2)
-  {
-   size=(foo+(4-foo%4))*d3_l->max_z;
-   height=d3_l->max_z;
-  }
-  else 
-  {
-   size=(foo+(4-foo%4))*FFT_HEIGHT;
-   end=d3_l->max_z-FFT_HEIGHT;
-   height=FFT_HEIGHT;
-  }
+  size=(foo+(4-foo%4))*d3_l->max_z;
+  height=d3_l->max_z;
   width=d3_l->max_y;
  }
  if(window==3)
@@ -384,7 +409,78 @@ int write_bmp(d3_lattice *d3_l,int window,u32 x,u32 y,u32 z)
   width=d3_l->max_x;
   height=d3_l->max_y;
  }
-
+ if(window==4)
+ {
+  sprintf(bmpfile,"x-z_cdistr_%d.bmp",y);
+  foo=3*d3_l->max_x;
+  size=(foo+(4-foo%4))*d3_l->max_z;
+  height=d3_l->max_z;
+  width=d3_l->max_x;
+ }
+ if(window==5)
+ {
+  sprintf(bmpfile,"y-z_cdistr_%d.bmp",x);
+  foo=3*d3_l->max_y;
+  size=(foo+(4-foo%4))*d3_l->max_z;
+  height=d3_l->max_z;
+  width=d3_l->max_y;
+ }
+ if(window==6)
+ {
+  sprintf(bmpfile,"x-y_cdistr_%d.bmp",z);
+  foo=3*d3_l->max_x;
+  size=(foo+(4-foo%4))*d3_l->max_y;
+  width=d3_l->max_x;
+  height=d3_l->max_y;
+ }
+ if(window==7)
+ {
+  sprintf(bmpfile,"x-z_pressure_%d.bmp",y);
+  foo=3*d3_l->max_x;
+  size=(foo+(4-foo%4))*d3_l->max_z;
+  height=d3_l->max_z;
+  width=d3_l->max_x;
+ }
+ if(window==8)
+ {
+  sprintf(bmpfile,"y-z_pressure_%d.bmp",x);
+  foo=3*d3_l->max_y;
+  size=(foo+(4-foo%4))*d3_l->max_z;
+  height=d3_l->max_z;
+  width=d3_l->max_y;
+ }
+ if(window==9)
+ {
+  sprintf(bmpfile,"x-y_pressure_%d.bmp",z);
+  foo=3*d3_l->max_x;
+  size=(foo+(4-foo%4))*d3_l->max_y;
+  height=d3_l->max_y;
+  width=d3_l->max_x;
+ }
+ if(window==10)
+ {
+  sprintf(bmpfile,"x-z_c_cdistr_%d.bmp",y);
+  foo=3*d3_l->max_x;
+  size=(foo+(4-foo%4))*d3_l->max_z;
+  height=d3_l->max_z;
+  width=d3_l->max_x;
+ }
+ if(window==11)
+ {
+  sprintf(bmpfile,"y-z_c_cdistr_%d.bmp",x);
+  foo=3*d3_l->max_y;
+  size=(foo+(4-foo%4))*d3_l->max_z;
+  height=d3_l->max_z;
+  width=d3_l->max_y;
+ }
+ if(window==12)
+ {
+  sprintf(bmpfile,"x-y_c_cdistr_%d.bmp",z);
+  foo=3*d3_l->max_x;
+  size=(foo+(4-foo%4))*d3_l->max_y;
+  height=d3_l->max_y;
+  width=d3_l->max_x;
+ }
  if((fd=open(bmpfile,O_WRONLY|O_CREAT))<0)
  {
   puts("cannot open bmp file");
@@ -428,14 +524,17 @@ int write_bmp(d3_lattice *d3_l,int window,u32 x,u32 y,u32 z)
   puts("failed writing bmp header");
   return -1;
  }
- if(window%3==1)
+ if(window==1)
  {
-  for(j=0;j<d3_l->max_z-end;j++)
+  for(j=0;j<d3_l->max_z;j++)
   {
    for(i=0;i<d3_l->max_x;i++)
    {
-    if(*(d3_l->status+i+y*d3_l->max_x+(d3_l->max_z-j-1)*d3_l->max_x*d3_l->max_y)&RED) memset(buf,0xff,3);
-    else memset(buf,0,3);
+    sum=0;
+    for(k=-2;k<=2;k++)
+     if(*(d3_l->status+i+(((y+k+d3_l->max_y)%d3_l->max_y)*d3_l->max_x)+(d3_l->max_z-j-1)*d3_l->max_x*d3_l->max_y)&RED) sum+=0xff;
+    sum/=5;
+    memset(buf,(unsigned char)sum,3);
     if(write(fd,buf,3)<3)
     {
      puts("failed writing rgb values to bmp file");
@@ -453,14 +552,17 @@ int write_bmp(d3_lattice *d3_l,int window,u32 x,u32 y,u32 z)
    } 
   }
  }
- if(window%3==2)
+ if(window==2)
  {
-  for(j=0;j<d3_l->max_z-end;j++)
+  for(j=0;j<d3_l->max_z;j++)
   {
    for(i=0;i<d3_l->max_y;i++)
    {
-    if(*(d3_l->status+x+i*d3_l->max_x+(d3_l->max_z-j-1)*d3_l->max_x*d3_l->max_y)&RED) memset(buf,0xff,3);
-    else memset(buf,0,3);
+    sum=0;
+    for(k=-2;k<=2;k++)
+     if(*(d3_l->status+((x+k+d3_l->max_x)%d3_l->max_x)+i*d3_l->max_x+(d3_l->max_z-j-1)*d3_l->max_x*d3_l->max_y)&RED) sum+=0xff;
+    sum/=5;
+    memset(buf,(unsigned char)sum,3);
     if(write(fd,buf,3)<3)
     {
      puts("failed writing rgb values to bmp file");
@@ -503,6 +605,283 @@ int write_bmp(d3_lattice *d3_l,int window,u32 x,u32 y,u32 z)
    }
   }
  }
+ if(window==4)
+ {
+  for(j=0;j<d3_l->max_z;j++)
+  {
+   for(i=0;i<d3_l->max_x;i++)
+   {
+    sum=*(d3_l->extra+i+y*d3_l->max_x+(d3_l->max_z-j-1)*d3_l->max_x*d3_l->max_y);
+    sum=sum*500/max;
+    buf[2]=0;
+    if(sum<=255) {
+      buf[1]=0;
+      buf[0]=sum;
+    } else {
+      buf[1]=(sum-255);
+      buf[0]=0xff;
+    }
+    if(write(fd,buf,3)<3)
+    {
+     puts("failed writing rgb values to bmp file");
+     return-1;
+    }
+   }
+   if(foo%4)
+   {
+    memset(buf,0,4-foo%4);
+    if(write(fd,buf,4-foo%4)<4-foo%4)
+    {
+     puts("failed writing 4 byte ending");
+     return -1;
+    }
+   }
+  }
+ }
+ if(window==5)
+ { 
+  for(j=0;j<d3_l->max_z;j++) 
+  {                     
+   for(i=0;i<d3_l->max_x;i++)
+   {
+    sum=*(d3_l->extra+x+i*d3_l->max_x+(d3_l->max_z-j-1)*d3_l->max_x*d3_l->max_y);
+    sum=sum*500/max;
+    buf[2]=0;
+    if(sum<=255) {
+      buf[1]=0;
+      buf[0]=sum;
+    } else {
+      buf[1]=(sum-255);
+      buf[0]=0xff;
+    }
+    if(write(fd,buf,3)<3)
+    {
+     puts("failed writing rgb values to bmp file");
+     return-1;  
+    }
+   }
+   if(foo%4)
+   {
+    memset(buf,0,4-foo%4);
+    if(write(fd,buf,4-foo%4)<4-foo%4)
+    {
+     puts("failed writing 4 byte ending");
+     return -1;
+    }
+   }
+  }
+ }
+ if(window==6)
+ {   
+  for(j=0;j<d3_l->max_y;j++)
+  {  
+   for(i=0;i<d3_l->max_x;i++)
+   { 
+    sum=*(d3_l->extra+i+(d3_l->max_y-j-1)*d3_l->max_x+z*d3_l->max_x*d3_l->max_y);
+    sum=sum*500/max;
+    buf[2]=0;
+    if(sum<=255) {
+      buf[1]=0;
+      buf[0]=sum;
+    } else {
+      buf[1]=(sum-255);
+      buf[0]=0xff;
+    }
+    if(write(fd,buf,3)<3)
+    {
+     puts("failed writing rgb values to bmp file");
+     return-1;
+    }
+   } 
+   if(foo%4)
+   { 
+    memset(buf,0,4-foo%4);
+    if(write(fd,buf,4-foo%4)<4-foo%4)
+    {
+     puts("failed writing 4 byte ending");
+     return -1;
+    }
+   } 
+  }
+ }
+ if(window==7)
+ {
+  for(j=0;j<d3_l->max_z;j++)
+  {
+   for(i=0;i<d3_l->max_x;i++)
+   {
+    sum=*((unsigned int *)(d3_l->v_ptr)+i+y*d3_l->max_x+(d3_l->max_z-j-1)*d3_l->max_x*d3_l->max_y);
+      buf[0]=0;
+    if(sum<=255) {
+      buf[1]=0;
+      buf[2]=sum;
+    } else {
+      buf[1]=(sum-255);
+      buf[2]=0xff;
+    }
+    if(write(fd,buf,3)<3)
+    {
+     puts("failed writing rgb values to bmp file");
+     return-1;
+    }
+   }
+   if(foo%4)
+   {
+    memset(buf,0,4-foo%4);
+    if(write(fd,buf,4-foo%4)<4-foo%4)
+    {
+     puts("failed writing 4 byte ending");
+     return -1;
+    }
+   }
+  }
+ }
+ if(window==8)
+ { 
+  for(j=0;j<d3_l->max_z;j++) 
+  {                     
+   for(i=0;i<d3_l->max_x;i++)
+   {
+    sum=*((unsigned int *)(d3_l->v_ptr)+x+i*d3_l->max_x+(d3_l->max_z-j-1)*d3_l->max_x*d3_l->max_y);
+      buf[0]=0;
+    if(sum<=255) {
+      buf[1]=0;
+      buf[2]=sum;
+    } else {
+      buf[1]=(sum-255);
+      buf[2]=0xff;
+    }
+    if(write(fd,buf,3)<3)
+    {
+     puts("failed writing rgb values to bmp file");
+     return-1;  
+    }
+   }
+   if(foo%4)
+   {
+    memset(buf,0,4-foo%4);
+    if(write(fd,buf,4-foo%4)<4-foo%4)
+    {
+     puts("failed writing 4 byte ending");
+     return -1;
+    }
+   }
+  }
+ }
+ if(window==9)
+ {   
+  for(j=0;j<d3_l->max_y;j++)
+  {  
+   for(i=0;i<d3_l->max_x;i++)
+   {
+    sum=*((unsigned int *)(d3_l->v_ptr)+i+(d3_l->max_y-j-1)*d3_l->max_x+z*d3_l->max_x*d3_l->max_y);
+      buf[0]=0;
+    if(sum<=255) {
+      buf[1]=0;
+      buf[2]=sum;
+    } else {
+      buf[1]=(sum-255);
+      buf[2]=0xff;
+    }
+    printf("sum = %d => r: %02x g: %02x b: %02x\n",sum,buf[2],buf[1],buf[0]);
+    if(write(fd,buf,3)<3)
+    {
+     puts("failed writing rgb values to bmp file");
+     return-1;
+    }
+   } 
+   if(foo%4)
+   { 
+    memset(buf,0,4-foo%4);
+    if(write(fd,buf,4-foo%4)<4-foo%4)
+    {
+     puts("failed writing 4 byte ending");
+     return -1;
+    }
+   } 
+  }
+ }
+ if(window==10)
+ {
+  for(j=0;j<d3_l->max_z;j++)
+  {
+   for(i=0;i<d3_l->max_x;i++)
+   {
+    if(!(*(d3_l->status+i+y*d3_l->max_x+(d3_l->max_z-j-1)*d3_l->max_x*d3_l->max_y)&RED)) sum=*(d3_l->extra+i+y*d3_l->max_x+(d3_l->max_z-j-1)*d3_l->max_x*d3_l->max_y);
+    else sum=0;
+    sum=sum*255/max;
+    memset(buf,(unsigned char)sum,3);
+    if(write(fd,buf,3)<3)
+    {
+     puts("failed writing rgb values to bmp file");
+     return-1;
+    }
+   }
+   if(foo%4)
+   {
+    memset(buf,0,4-foo%4);
+    if(write(fd,buf,4-foo%4)<4-foo%4)
+    {
+     puts("failed writing 4 byte ending");
+     return -1;
+    }
+   }
+  }
+ }
+ if(window==11)
+ { 
+  for(j=0;j<d3_l->max_z;j++) 
+  {                     
+   for(i=0;i<d3_l->max_x;i++)
+   {
+    if(!(*(d3_l->status+x+i*d3_l->max_x+(d3_l->max_z-j-1)*d3_l->max_x*d3_l->max_y)&RED)) sum=*(d3_l->extra+x+i*d3_l->max_x+(d3_l->max_z-j-1)*d3_l->max_x*d3_l->max_y);
+    else sum=0;
+    sum=sum*255/max;
+    memset(buf,(unsigned char)sum,3);
+    if(write(fd,buf,3)<3)
+    {
+     puts("failed writing rgb values to bmp file");
+     return-1;  
+    }
+   }
+   if(foo%4)
+   {
+    memset(buf,0,4-foo%4);
+    if(write(fd,buf,4-foo%4)<4-foo%4)
+    {
+     puts("failed writing 4 byte ending");
+     return -1;
+    }
+   }
+  }
+ }
+ if(window==12)
+ {   
+  for(j=0;j<d3_l->max_y;j++)
+  {  
+   for(i=0;i<d3_l->max_x;i++)
+   {
+    if(!(*(d3_l->status+i+(d3_l->max_y-j-1)*d3_l->max_x+z*d3_l->max_x*d3_l->max_y)&RED)) sum=*(d3_l->extra+i+(d3_l->max_y-j-1)*d3_l->max_x+z*d3_l->max_x*d3_l->max_y);
+    else sum=0;
+    sum=sum*255/max;
+    memset(buf,(unsigned char)sum,3);
+    if(write(fd,buf,3)<3)
+    {
+     puts("failed writing rgb values to bmp file");
+     return-1;
+    }
+   } 
+   if(foo%4)
+   { 
+    memset(buf,0,4-foo%4);
+    if(write(fd,buf,4-foo%4)<4-foo%4)
+    {
+     puts("failed writing 4 byte ending");
+     return -1;
+    }
+   }
+  }
+ }
  close(fd);
 
  return 1;
@@ -545,7 +924,8 @@ int save_to_file(char *sf,d3_lattice *d3_l,info *my_inf)
 
 int load_from_file(char *lf,d3_lattice *d3_l,info *my_inf)
 {
- int lf_fd,c;
+
+ int lf_fd,c,pos,end,data,data_len,strip;
 
  if((lf_fd=open(lf,O_RDONLY))<0)
  {
@@ -557,11 +937,31 @@ int load_from_file(char *lf,d3_lattice *d3_l,info *my_inf)
   puts("failed reading d3 lattice struct");
   return -1;
  }
- if(read(lf_fd,my_inf,sizeof(info))<sizeof(info))
+ pos=lseek(lf_fd,0,SEEK_CUR);
+ printf("psition: %d (%d)\n",pos,sizeof(d3_lattice));
+ data=d3_l->max_x*d3_l->max_y*d3_l->max_z;
+ data_len=data*(sizeof(int)+sizeof(unsigned char));
+ printf("there are %d volumes so we need %d of bytes\n",data,data_len);
+ end=lseek(lf_fd,0,SEEK_END);
+ c=end-pos-data_len;
+ printf("end: %d => length: %d => guessed info size: %d bytes\n",end,end-pos,c);
+ strip=sizeof(info)-c;
+ printf("as real programs info size is %d, we strip %d bytes\n",sizeof(info),strip);
+ lseek(lf_fd,pos,SEEK_SET);
+ c=sizeof(info);
+ if(strip>0) c-=strip;
+ if(c<0)
+ {
+  puts("info smaller then strip size");
+  return -1;
+ }
+ if(read(lf_fd,my_inf,c)<c)
  {
   puts("failed reading info struct");
   return-1;
  }
+ if(strip>0) memset(my_inf+c,0,strip);
+ if(strip<0) lseek(lf_fd,(-1*strip),SEEK_CUR);
  c=d3_l->max_x*d3_l->max_y*d3_l->max_z;
  if((d3_l->status=(unsigned char*)malloc(c*sizeof(unsigned char)))==NULL)
  {
@@ -645,7 +1045,7 @@ int get_c_ratio(double *c_ratio,char *pfile,info *my_info,d3_lattice *d3_l)
    a=atof(p)/10; /* nm */
    p=strtok(NULL," ");
    b=atof(p);
-   if(a>my_info->b_cd*CELL_LENGTH && a<(my_info->b_cd+d3_l->max_z)*CELL_LENGTH) d+=b;
+   if(a<=d3_l->max_z*CELL_LENGTH) d+=b;
    all+=b;
   }
  }
@@ -655,17 +1055,118 @@ int get_c_ratio(double *c_ratio,char *pfile,info *my_info,d3_lattice *d3_l)
  return 1;
 }
 
+u32 get_reject_graph(info *my_info,d3_lattice *d3_l,char *file,u32 *graph) {
+ double a,b;
+ int i,j,k;
+ int fd;
+ char buf[32],*p;
+ unsigned char *flag;
+ u32 max;
+
+ max=0;
+ if((fd=open(file,O_RDONLY))<0)
+ {
+  puts("cannot open file to calculate rejection graph");
+  return -1;
+ }
+ if((flag=(unsigned char *)malloc(d3_l->max_z))==NULL)
+ {
+  puts("cannot malloc flag memory for rejection graph");
+  return -1;
+ }
+ memset(flag,0,d3_l->max_z);
+ memset(graph,0,d3_l->max_z*sizeof(u32));
+ /* get fixpoints */
+ k=1;
+ while(k)
+ {
+  for(i=0;i<32;i++)
+  {
+   k=read(fd,&buf[i],1);
+   if((buf[i]=='\n')||(k==0)) break;
+  }
+  if(k)
+  {
+   p=strtok(buf," ");
+   a=atof(p)/10; /* nm */
+   p=strtok(NULL," ");
+   b=atof(p);
+   if(a>d3_l->max_z*CELL_LENGTH) k=0;
+   else 
+   {
+    graph[(int)(a/CELL_LENGTH)]=(int)(URAND_MAX/100*b);
+    flag[(int)(a/CELL_LENGTH)]=1;
+   }
+  }
+ }
+ /* do (linear) interpolation here! */
+ i=0;
+ a=0;
+ while(i<d3_l->max_z)
+ {
+  /* graph[0] is 0! */
+  j=i;
+  i++;
+  while(flag[i]==0&&i<d3_l->max_z) i++;
+  for(k=j+1;k<i;k++) graph[k]=(int)((k-j)*((int)graph[i]-(int)graph[j])/(i-j))+graph[j];
+  if(graph[i]>max) max=graph[i];
+ }
+
+ free(flag);
+
+#ifdef DEBUG_INTERPOL_PROFILE
+ printf("debug: %s (interpolated profile)\n",file);
+ for(i=0;i<d3_l->max_z;i++) printf("%d %d\n",i,graph[i]);
+#endif
+
+ return max;
+}
+
+int get_amorphous_layer_info(d3_lattice *d3_l,int *sai,int *sacl,int *eacl) {
+  int i,j,a,oend,nend,count;
+  unsigned char sacl_is_set=0;
+  unsigned char eacl_is_set=0;
+  unsigned char sai_is_set=0;
+
+  a=d3_l->max_x*d3_l->max_y;
+  nend=a;
+  oend=0;
+
+  for(i=0;i<d3_l->max_z;i++) {
+    count=0;
+    for(j=oend;j<nend;j++) if(*(d3_l->status+j)&AMORPH) count++;
+    oend=nend;
+    nend+=a;
+    if((count>=A_START*a)&&(!sai_is_set)) {
+      *sai=i;
+      sai_is_set=1;
+    }
+    if((count>=AC_START*a)&&(!sacl_is_set)) {
+      *sacl=i;
+      sacl_is_set=1;
+    }
+    if((count<=A_END*a)&&(sacl_is_set)&&(!eacl_is_set)) {
+      *eacl=i;
+      eacl_is_set=1;
+    }
+    if((eacl_is_set)&&(count>=A_END*a)) eacl_is_set=0;
+  }
+  return 1;
+}
+
 int main(int argc,char **argv)
 {
  u32 x,y,z,x_c,y_c,z_c;
- int i,j,quit,escape,switchmode,nowait,bmp;
+ int i,j,quit,escape,switchmode,nowait,bmp,ac_distr;
  int refresh,resave;
  int c_step;
+ int sai,sacl,eacl;
  char s_file[MAX_CHARS];
  char s_file_tmp[MAX_CHARS];
  char l_file[MAX_CHARS];
  char c_file[MAX_CHARS];
  char p_file[MAX_CHARS];
+ char n_e_file[MAX_CHARS];
  char convert;
  char r_file[MAX_CHARS];
 #ifdef USE_DFB_API
@@ -676,17 +1177,20 @@ int main(int argc,char **argv)
  char cc_txt[MAX_TXT];
  char a_txt[MAX_TXT];
  char s_txt[MAX_TXT];
- char ap_txt[MAX_TXT];
- char el_txt[MAX_TXT];
- char cd_txt[MAX_TXT];
+ char ballistic_txt[MAX_TXT];
+ char carbon_txt[MAX_TXT];
+ char stress_txt[MAX_TXT];
  char r_txt[MAX_TXT];
- char cp_txt[MAX_TXT];
  char zdiff_txt[MAX_TXT];
  char diff_txt[MAX_TXT];
  char dr_ac_txt[MAX_TXT];
- char dr_cc_txt[MAX_TXT];
  char dose_txt[MAX_TXT];
  char mode_txt[MAX_TXT];
+ char hpi_txt[MAX_TXT];
+ char srate_txt[MAX_TXT];
+ char start_ai_txt[MAX_TXT];
+ char start_acl_txt[MAX_TXT];
+ char end_acl_txt[MAX_TXT];
  char *arg_v[MAX_ARGV];
 #endif
  d3_lattice d3_l;
@@ -696,28 +1200,27 @@ int main(int argc,char **argv)
 #ifdef USE_DFB_API
  int max_extra;
 #endif
+ u32 *c_profile;
+ u32 *n_e_loss;
+ u32 ne_max,ip_max;
+ u32 nel_z;
+ unsigned char do_sputter;
 
- d3_l.max_x=X;
- d3_l.max_y=Y;
- d3_l.max_z=Z;
+ d3_l.max_x=_X;
+ d3_l.max_y=_Y;
+ d3_l.max_z=_Z;
  my_info.steps=STEPS;
  my_info.range=RANGE;
  refresh=REFRESH;
  resave=RESAVE;
- my_info.z_diff=0;
- my_info.c_diff=1;
- my_info.a_el=A_EL;
- my_info.b_el=B_EL;
- my_info.a_cd=A_CD;
- my_info.b_cd=B_CD;
- my_info.a_ap=A_AP;
- my_info.b_ap=B_AP;
- my_info.a_cp=A_CP;
+ my_info.s=S_D;
+ my_info.b=B_D;
+ my_info.c=C_D;
  my_info.cc=CC;
  my_info.dr_ac=DR_AC;
- my_info.dr_cc=DR_CC;
  my_info.diff_rate=DIFF_RATE;
  my_info.cpi=CPI;
+ my_info.s_rate=S_RATE;
  nowait=0;
  quit=0;
  escape=0;
@@ -727,9 +1230,20 @@ int main(int argc,char **argv)
  strcpy(l_file,"");
  strcpy(c_file,"");
  strcpy(p_file,IMP_PROFILE);
+ strcpy(n_e_file,NEL_PROFILE);
  convert=0;
  strcpy(r_file,"");
  mode=0;
+ ne_max=0;
+ ip_max=0;
+ sai=0;
+ sacl=0;
+ eacl=0;
+ do_sputter=1;
+
+#ifdef MORE_PRINTF
+ printf("reading argv ...");
+#endif
 
  for(i=1;i<argc;i++)
  {
@@ -743,12 +1257,6 @@ int main(int argc,char **argv)
     case 'n':
      nowait=1;
      break;
-    case 'a':
-     my_info.a_el=atof(argv[++i]);
-     break;
-    case 'b':
-     my_info.b_el=atof(argv[++i]);
-     break;
     case 'x':
      d3_l.max_x=atoi(argv[++i]);
      break;
@@ -758,13 +1266,6 @@ int main(int argc,char **argv)
     case 'z':
      d3_l.max_z=atoi(argv[++i]);
      break;
-    case 'Z':
-     my_info.z_diff=1;
-     break;
-    case 'i':
-     my_info.c_diff=0;
-     my_info.dr_cc=0;
-     break;
     case 's':
      my_info.steps=atoi(argv[++i]);
      break;
@@ -775,19 +1276,13 @@ int main(int argc,char **argv)
      my_info.range=atoi(argv[++i]);
      break;
     case 'f':
-     my_info.a_ap=atof(argv[++i]);
+     my_info.s=atof(argv[++i]);
      break;
     case 'p':
-     my_info.b_ap=atof(argv[++i]);
+     my_info.b=atof(argv[++i]);
      break;
     case 'F':
-     my_info.a_cp=atof(argv[++i]);
-     break;
-    case 'A':
-     my_info.a_cd=atof(argv[++i]);
-     break;
-    case 'B':
-     my_info.b_cd=atof(argv[++i]);
+     my_info.c=atof(argv[++i]);
      break;
     case 'W':
      resave=atoi(argv[++i]);
@@ -800,9 +1295,6 @@ int main(int argc,char **argv)
     case 'D':
      my_info.dr_ac=atof(argv[++i]);
      break;
-    case 'c':
-     my_info.dr_cc=atof(argv[++i]);
-     break;
     case 'e':
      my_info.diff_rate=atoi(argv[++i]);
      break;
@@ -818,6 +1310,9 @@ int main(int argc,char **argv)
     case 'P':
      strcpy(p_file,argv[++i]);
      break;
+    case 'N':
+     strcpy(n_e_file,argv[++i]);
+     break;
     case 'g':
      strcpy(l_file,argv[++i]);
      if(i<argc-1) if(argv[i+1][0]!='-') c_step=atoi(argv[++i]);
@@ -825,6 +1320,9 @@ int main(int argc,char **argv)
     case 'H':
      my_info.cpi=atoi(argv[++i]);
      break;
+    case 'm':
+     my_info.s_rate=atoi(argv[++i]);
+     break;
     default:
      usage();
      return -1;
@@ -832,6 +1330,10 @@ int main(int argc,char **argv)
   } else usage();
  }
 
+#ifdef MORE_PRINTF
+ printf(" done\n");
+#endif
+
  x=d3_l.max_x/2-1;
  y=d3_l.max_y/2-1;
  z=d3_l.max_z/2-1;
@@ -844,14 +1346,18 @@ int main(int argc,char **argv)
  }
 #endif
 
+ printf("random api init ...");
  if(!strcmp(r_file,"")) rand_init(NULL);
  else rand_init(r_file);
+ printf(" done\n");
 
  if(!strcmp(l_file,""))
  {
   i=d3_l.max_x*d3_l.max_y*d3_l.max_z;
 #ifdef USE_DFB_API
+  printf("d3 lattice init ...");
   d3_lattice_init(&argc,argv,&d3_l);
+  printf(" done\n");
 #endif
   if((d3_l.status=(unsigned char *)malloc(i*sizeof(unsigned char)))==NULL)
   {
@@ -867,7 +1373,9 @@ int main(int argc,char **argv)
   memset(d3_l.extra,0,i*sizeof(int));
  } else
  {
+  printf("loading file ...");
   load_from_file(l_file,&d3_l,&my_info);
+  printf(" done\n");
   if(convert) 
   {   
    if(!strcmp(c_file,"")) sprintf(c_file,"%s_gnuplot",l_file);
@@ -875,85 +1383,155 @@ int main(int argc,char **argv)
    convert_file(c_file,&d3_l);
    puts("done");
    return 1;
-  } 
+  }
 #ifdef USE_DFB_API
-  else d3_lattice_init(&argc,argv,&d3_l);
+  printf("d3 lattice init ...");
+  d3_lattice_init(&argc,argv,&d3_l);
+  printf(" done\n");
 #endif
  }
 
 #ifdef USE_DFB_API
+ printf("event init ...");
  d3_event_init(&d3_l);
+ printf(" done\n");
 #endif
 
 #ifdef USE_DFB_API
  strcpy(a_txt,"args:");
  sprintf(s_txt,"steps: %d",my_info.steps);
  sprintf(dose_txt,"dose: %.2fe+17 C/cm²",my_info.steps*1.0/(d3_l.max_x*d3_l.max_y*CELL_LENGTH*CELL_LENGTH*1000));
- sprintf(r_txt,"pressure range: %d",my_info.range);
- sprintf(ap_txt,"a_ap: %.3f  b_ap: %.3f",my_info.a_ap,my_info.b_ap);
- sprintf(el_txt,"a_el: %.3f  b_el: %.3f",my_info.a_el,my_info.b_el);
- sprintf(cd_txt,"a_cd: %.3f  b_cd: %.3f",my_info.a_cd,my_info.b_cd);
- sprintf(cp_txt,"a_cp: %.4f",my_info.a_cp);
- sprintf(dr_ac_txt,"a/c diffusion rate: %.4f",my_info.dr_ac);
- if(my_info.c_diff!=0) sprintf(dr_cc_txt,"c/c diffusion rate: %.4f",my_info.dr_cc);
- else sprintf(dr_cc_txt,"c/c diffusion rate: none");
- sprintf(zdiff_txt,"diffusion in z direction: %c",my_info.z_diff?'y':'n');
+ sprintf(r_txt,"stress influence range: %d",my_info.range);
+ sprintf(stress_txt,"stress term: %f",my_info.s);
+ sprintf(ballistic_txt,"ballistic term: %f",my_info.b);
+ sprintf(carbon_txt,"carbon term: %f",my_info.c);
+ sprintf(dr_ac_txt,"a/c diffusion rate: %f",my_info.dr_ac);
+ sprintf(zdiff_txt,"diffusion in z direction: yes");
  sprintf(diff_txt,"diffusion every %d steps",my_info.diff_rate);
  strcpy(mode_txt,"view: a/c mode");
- arg_v[1]=xyz_txt;
- arg_v[2]=NULL;
+ sprintf(hpi_txt,"hits per ion: %d",my_info.cpi);
+ sprintf(srate_txt,"sputter rate (3nm/#c): %d",my_info.s_rate);
+ get_amorphous_layer_info(&d3_l,&sai,&sacl,&eacl);
+ sprintf(start_ai_txt,"start of a-inclusions: %d nm (%d)",3*sai,sai);
+ sprintf(start_acl_txt,"start of a-layer: %d nm (%d)",3*sacl,sacl);
+ sprintf(end_acl_txt,"end of a-layer: %d nm (%d)",3*eacl,eacl);
+ arg_v[1]=mode_txt;
+ arg_v[2]=xyz_txt;
  arg_v[3]=status_txt;
  arg_v[4]=conc_txt;
  arg_v[5]=NULL;
- arg_v[6]=mode_txt;
- arg_v[7]=NULL;
- arg_v[8]=steps_txt;
- arg_v[9]=cc_txt;
- arg_v[10]=NULL;
- arg_v[11]=diff_txt;
- arg_v[12]=zdiff_txt;
- arg_v[13]=NULL;
- arg_v[14]=a_txt;
- arg_v[15]=s_txt;
- arg_v[16]=dose_txt;
- arg_v[17]=NULL;
+ arg_v[6]=steps_txt;
+ arg_v[7]=cc_txt;
+ arg_v[8]=NULL;
+ arg_v[9]=a_txt;
+ arg_v[10]=s_txt;
+ arg_v[11]=dose_txt;
+ arg_v[12]=diff_txt;
+ arg_v[13]=zdiff_txt;
+ arg_v[14]=dr_ac_txt;
+ arg_v[15]=ballistic_txt;
+ arg_v[16]=carbon_txt;
+ arg_v[17]=stress_txt;
  arg_v[18]=r_txt;
- arg_v[19]=ap_txt;
- arg_v[20]=el_txt;
- arg_v[21]=cd_txt;
- arg_v[22]=cp_txt;
- arg_v[23]=NULL;
- arg_v[24]=dr_ac_txt;
- arg_v[25]=dr_cc_txt;
+ arg_v[19]=hpi_txt;
+ arg_v[20]=srate_txt;
+ arg_v[21]=NULL;
+ arg_v[22]=start_ai_txt;
+ arg_v[23]=start_acl_txt;
+ arg_v[24]=end_acl_txt;
+ arg_v[25]=NULL;
 #endif
 
+ /* compute graphs for random number rejection method */
+ printf("random rejection graphs ...");
+ if((c_profile=(u32 *)malloc(d3_l.max_z*sizeof(unsigned int)))==NULL)
+ {
+  puts("failed allocating memory for carbon profile graph");
+  return -1;
+ }
+ if((n_e_loss=(u32 *)malloc(d3_l.max_z*sizeof(unsigned int)))==NULL)
+ {
+  puts("failed allocating memory for nuclear energy loss graph");
+  return -1;
+ }
+ ip_max=get_reject_graph(&my_info,&d3_l,p_file,c_profile);
+ ne_max=get_reject_graph(&my_info,&d3_l,n_e_file,n_e_loss);
+ printf(" done\n");
+
  if((!strcmp(l_file,""))||(c_step))
  {
-  if(get_c_ratio(&c_ratio,p_file,&my_info,&d3_l)!=1)
+
+  /* this should be obsolete - z is high enough - we check now! */
+  if(c_profile[d3_l.max_z-1]!=0)
   {
-   puts("failed calculating ratio");
-   return -1;
+   printf("max_z (%d) too small - sputtering not possible\n",d3_l.max_z);
+   do_sputter=0;
+  }
+  /* calculate ratio of c_simwindow / c_total */
+  if(!do_sputter)
+  {
+   get_c_ratio(&c_ratio,p_file,&my_info,&d3_l);
+   printf("calculated c ratio: %f\n",c_ratio);
   }
+
+  /* sputtering realy possible ?*/
+  if(n_e_loss[d3_l.max_z-1]!=0)
+   printf("warning: max_z (%d) too small - there may be amorphous volumes\n",d3_l.max_z);
+
+#ifdef DEBUG_RAND
+ i=0;
+ while(1)
+ {
+#ifdef DEBUG_CP
+  printf("%d\n",get_rand_reject(d3_l.max_z,ip_max,c_profile));
+#endif
+#ifdef DEBUG_NEL
+  printf("%d\n",get_rand_reject(d3_l.max_z,ne_max,n_e_loss));
+#endif
+#ifdef DEBUG_NORM
+  printf("%d\n",get_rand(d3_l.max_z));
+#endif
+#ifdef DEBUG_LINEAR
+  printf("%d\n",get_rand_lgp(d3_l.max_z,1,0));
+#endif
+ if(i==10000000) return 1;
+ i++;
+ }
+#endif
+
+#ifdef MORE_PRINTF
+  printf("starting simulation ... now! :)\n");
+#endif
+
   i=(c_step?c_step:0);
   while((i<my_info.steps) && (quit==0) && (escape==0))
   {
+#ifdef MORE_PRINTF
+   if(i%refresh==0) printf("step: %d\n",i);
+#endif
    for(j=0;j<my_info.cpi;j++)
    {
     x_c=get_rand(d3_l.max_x);
     y_c=get_rand(d3_l.max_y);
-    z_c=get_rand_lgp(d3_l.max_z,my_info.a_el,my_info.b_el);
-    process_cell(&d3_l,x_c,y_c,z_c,&my_info);
+    // z_c=get_rand_reject(d3_l.max_z,ne_max,n_e_loss);
+    z_c=get_rand(d3_l.max_z);
+    nel_z=URAND_MAX*(1.0*n_e_loss[z_c]/ne_max);
+    process_cell(&d3_l,x_c,y_c,z_c,&my_info,nel_z);
    }
-   distrib_c(&d3_l,&my_info,i,c_ratio);
+   distrib_c(&d3_l,&my_info,i,ip_max,c_profile);
 #ifdef USE_DFB_API
    if(i%refresh==0)
    {
-    sprintf(xyz_txt,"x: %d  y: %d  z: %d",x+1,y+1,z+1);
+    sprintf(xyz_txt,"x: %d  y: %d  z: %d (%d nm)",x+1,y+1,z+1,z*3);
     sprintf(status_txt,"status: %c",(*(d3_l.status+x+y*d3_l.max_x+z*d3_l.max_x*d3_l.max_y)&AMORPH)?'a':'c');
-    sprintf(conc_txt,"conc: %d",*(d3_l.extra+x+y*d3_l.max_x+z*d3_l.max_x*d3_l.max_y));
+    sprintf(conc_txt,"carbon: %d",*(d3_l.extra+x+y*d3_l.max_x+z*d3_l.max_x*d3_l.max_y));
     sprintf(steps_txt,"step: %d",i);
     sprintf(cc_txt,"total c: %d",my_info.cc);
-    d3_lattice_draw(&d3_l,x,y,z,25,arg_v,mode,0);
+    get_amorphous_layer_info(&d3_l,&sai,&sacl,&eacl);
+    sprintf(start_ai_txt,"start of a-inclusions: %d nm (%d)",3*sai,sai);
+    sprintf(start_acl_txt,"start of a-layer: %d nm (%d)",3*sacl,sacl);
+    sprintf(end_acl_txt,"end of a-layer: %d nm (%d)",3*eacl,eacl);
+    d3_lattice_draw(&d3_l,x,y,z,25,arg_v,mode,0,NULL,0,NULL,0);
    }
 #endif
    if(i%resave==0 && strcmp(s_file,"") && resave!=0 && i!=0)
@@ -965,6 +1543,7 @@ int main(int argc,char **argv)
 #endif
    }
    i++;
+   if((do_sputter)&(i%my_info.s_rate==0)) sputter(&d3_l);
   }
  }
 
@@ -976,14 +1555,20 @@ int main(int argc,char **argv)
 
 #ifdef USE_DFB_API
  /* allocating buffer for pressure values */
- if((d3_l.v_ptr=malloc(d3_l.max_x*d3_l.max_y*d3_l.max_z*sizeof(unsigned char)))==NULL)
+ printf("allocating buffer for preassure values ...");
+ if((d3_l.v_ptr=malloc(d3_l.max_x*d3_l.max_y*d3_l.max_z*sizeof(unsigned int)))==NULL)
  {
   puts("cannot allocate buffer for pressure values");
   return -1;
  }
+ printf(" done\n");
  /* calc values */
+ printf("calculating preassure values ...");
  calc_pressure(&d3_l,my_info.range);
+ printf(" done\n");
+ printf("finding maximum carbon concentration ...");
  max_extra=calc_max_extra(&d3_l);
+ printf(" done\n");
 
  while((quit==0) && (escape==0) && (nowait==0))
  {
@@ -991,20 +1576,23 @@ int main(int argc,char **argv)
   if(switchmode==0) mode=0;
   if(switchmode==1) mode=1;
   if(switchmode==2) mode=2;
+  if(switchmode==3) mode=3;
   /* end of bahh! */
-  sprintf(xyz_txt,"x: %d  y: %d  z: %d",x+1,y+1,z+1);
+  sprintf(xyz_txt,"x: %d  y: %d  z: %d (%d nm)",x+1,y+1,z+1,z*3);
   sprintf(status_txt,"status: %c",(*(d3_l.status+x+y*d3_l.max_x+z*d3_l.max_x*d3_l.max_y)&AMORPH)?'a':'c');
-  sprintf(conc_txt,"conc: %d",*(d3_l.extra+x+y*d3_l.max_x+z*d3_l.max_x*d3_l.max_y));
+  sprintf(conc_txt,"carbon: %d",*(d3_l.extra+x+y*d3_l.max_x+z*d3_l.max_x*d3_l.max_y));
   sprintf(steps_txt,"step: end");
   sprintf(cc_txt,"total c: %d",my_info.cc);
   if(switchmode==0) strcpy(mode_txt,"view: a/c mode");
   if(switchmode==1) strcpy(mode_txt,"view: c conc mode");
   if(switchmode==2) strcpy(mode_txt,"view: a pressure mode");
-  d3_lattice_draw(&d3_l,x,y,z,25,arg_v,mode,max_extra);
+  if(switchmode==3) strcpy(mode_txt,"view: a/c + profiles mode");
+  d3_lattice_draw(&d3_l,x,y,z,25,arg_v,mode,max_extra,c_profile,ip_max,n_e_loss,ne_max);
   bmp=0;
-  scan_event(&d3_l,&x,&y,&z,&quit,&escape,&switchmode,&bmp);
-  if(bmp) write_bmp(&d3_l,bmp,x,y,z);
-
+  ac_distr=0;
+  scan_event(&d3_l,&x,&y,&z,&quit,&escape,&switchmode,&bmp,&ac_distr);
+  if(bmp) write_bmp(&d3_l,bmp,x,y,z,max_extra);
+  if(ac_distr) write_ac_distr(&d3_l,ac_distr);
  }
 
  d3_lattice_release(&d3_l);