From: hackbard <hackbard@sage.physik.uni-augsburg.de>
Date: Sat, 3 May 2008 14:08:14 +0000 (+0200)
Subject: added position insertion method + fixed positioning
X-Git-Url: https://hackdaworld.org/gitweb/?a=commitdiff_plain;h=d1ceb8d3fc8e7a2e067f7576b3e787928d556277;p=physik%2Fposic.git

added position insertion method + fixed positioning
---

diff --git a/mdrun.c b/mdrun.c
index e5feda3..b2e67f3 100644
--- a/mdrun.c
+++ b/mdrun.c
@@ -372,7 +372,6 @@ int mdrun_parse_config(t_mdrun *mdrun) {
 				iap.ins_steps=atoi(word[2]);
 				iap.ins_atoms=atoi(word[3]);
 				iap.element=atoi(word[4]);
-				iap.element=atoi(word[4]);
 				iap.brand=atoi(word[5]);
 				for(i=0;i<strlen(word[6]);i++) {
 					switch(word[6][i]) {
@@ -401,20 +400,31 @@ int mdrun_parse_config(t_mdrun *mdrun) {
 							break;
 					}
 				}
-				// only rand mode by now
-				if(word[8][0]=='t') {
-					iap.type=INS_TOTAL;
-					iap.cr=atof(word[9]);
-				}
-				else {
-					iap.type=INS_REGION;
-					iap.x0=atof(word[8]);
-					iap.y0=atof(word[9]);
-					iap.z0=atof(word[10]);
-					iap.x1=atof(word[11]);
-					iap.y1=atof(word[12]);
-					iap.z1=atof(word[13]);
-					iap.cr=atof(word[14]);
+				switch(word[7][0]) {
+					// insertion types
+					case 'p':
+						iap.type=INS_POS;
+						iap.x0=atof(word[8]);
+						iap.y0=atof(word[9]);
+						iap.z0=atof(word[10]);
+						break;
+					case 'r':
+						if(word[8][0]=='t') {
+							iap.type=INS_TOTAL;
+							iap.cr=atof(word[9]);
+						}
+						else {
+							iap.type=INS_REGION;
+							iap.x0=atof(word[8]);
+							iap.y0=atof(word[9]);
+							iap.z0=atof(word[10]);
+							iap.x1=atof(word[11]);
+							iap.y1=atof(word[12]);
+							iap.z1=atof(word[13]);
+							iap.cr=atof(word[14]);
+						}
+					default:
+						break;
 				}
 				add_stage(mdrun,STAGE_INSERT_ATOMS,&iap);
 			}
@@ -490,7 +500,7 @@ int insert_atoms(t_moldyn *moldyn,t_mdrun *mdrun) {
 	t_stage *stage;
 	t_atom *atom;
 	t_3dvec r,v,dist;
-	double d,dmin;
+	double d,dmin,o;
 	int cnt,i;
 	double x,y,z;
 	double x0,y0,z0;
@@ -502,15 +512,32 @@ int insert_atoms(t_moldyn *moldyn,t_mdrun *mdrun) {
 	cr_check=FALSE;
 
 	v.x=0.0; v.y=0.0; v.z=0.0;
+	x=0; y=0; z=0;
+	o=0; dmin=0;
+
+	switch(mdrun->lattice) {
+		case CUBIC:
+			o=0.5*mdrun->lc;
+			break;
+		case FCC:
+			o=0.25*mdrun->lc;
+			break;
+		case DIAMOND:
+		case ZINCBLENDE:
+			o=0.125*mdrun->lc;
+			break;
+		default:
+			break;
+	}
 
 	switch(iap->type) {
 		case INS_TOTAL:
 			x=moldyn->dim.x;
-			x0=0.0;
+			x0=-x/2.0;
 			y=moldyn->dim.y;
-			y0=0.0;
+			y0=-y/2.0;
 			z=moldyn->dim.z;
-			z0=0.0;
+			z0=-z/2.0;
 			cr_check=TRUE;
 			break;
 		case INS_REGION:
@@ -522,6 +549,12 @@ int insert_atoms(t_moldyn *moldyn,t_mdrun *mdrun) {
 			z0=iap->z0;
 			cr_check=TRUE;
 			break;
+		case INS_POS:
+			x0=iap->x0;
+			y0=iap->y0;
+			z0=iap->z0;
+			cr_check=FALSE;
+			break;
 		default:
 			printf("%s unknown insertion mode: %02x\n",
 			       ME,iap->type);
@@ -532,9 +565,25 @@ int insert_atoms(t_moldyn *moldyn,t_mdrun *mdrun) {
 	while(cnt<iap->ins_atoms) {
 		run=1;
 		while(run) {
-			r.x=(rand_get_double(&(moldyn->random))-0.5)*x+x0;
-			r.y=(rand_get_double(&(moldyn->random))-0.5)*y+y0;
-			r.z=(rand_get_double(&(moldyn->random))-0.5)*z+z0;
+			if(iap->type!=INS_POS) {
+				r.x=rand_get_double(&(moldyn->random))*x;
+				r.y=rand_get_double(&(moldyn->random))*y;
+				r.z=rand_get_double(&(moldyn->random))*z;
+			}
+			else {
+				r.x=0.0;
+				r.y=0.0;
+				r.z=0.0;
+			}
+			r.x+=x0;
+			r.y+=y0;
+			r.z+=z0;
+			// offset
+			if(iap->type!=INS_TOTAL) {
+				r.x+=o;
+				r.y+=o;
+				r.z+=o;
+			}
 			run=0;
 			if(cr_check==TRUE) {
 				dmin=1000;	// for sure too high!
@@ -719,7 +768,9 @@ int mdrun_hook(void *ptr1,void *ptr2) {
 					change_stage=TRUE;
 					break;
 				}
-				set_temperature(moldyn,moldyn->t_ref+ap->dt);
+				if(moldyn->t_ref+ap->dt>=0.0)
+					set_temperature(moldyn,
+					                moldyn->t_ref+ap->dt);
 				ap->count+=1;
 				break;
 			case STAGE_CHAATTR:
diff --git a/mdrun.h b/mdrun.h
index 83a8196..fa16906 100644
--- a/mdrun.h
+++ b/mdrun.h
@@ -116,6 +116,7 @@ typedef struct s_insert_atoms_params {
 
 #define INS_TOTAL				0x01
 #define INS_REGION				0x02
+#define INS_POS					0x03
 
 typedef struct s_continue_params {
 	int runs;