Testing of paralel algorithm with mutexes and tainting. Still no success. I...

Samo Penic

2013-11-22 4e56fe682e6ad34c161aa40c06af4e3e0088962e

 src/timestep.c

@@ -2,6 +2,7 @@
#include<stdio.h>
#include<math.h>
#include<pthread.h>
#include<unistd.h> //usleep requires it
//#include "io.h"
#include "general.h"
#include "timestep.h"
@@ -17,18 +18,35 @@
   centermass(vesicle);
   cell_occupation(vesicle);
   ts_fprintf(stdout, "Starting simulation (first %d x %d MC sweeps will not be recorded on disk)\n", inititer, mcsweeps);
   pthread_t tid1,tid2;
   thdata data1, data2; 
   pthread_t tid1,tid2, tid3, tid4;
   thdata data1, data2, data3, data4;
   pthread_mutex_t mutex;
   data1.thread_no=0;
   data2.thread_no=1;
   data1.vesicle=vesicle;
   data2.vesicle=vesicle;
           for(i=0;i<inititer+iterations;i++){
          data3.thread_no=2;
   data4.thread_no=3;
   data3.vesicle=vesicle;
   data4.vesicle=vesicle;

   data1.vtx_tainting_lock=&mutex;
   data2.vtx_tainting_lock=&mutex;
   data3.vtx_tainting_lock=&mutex;
   data4.vtx_tainting_lock=&mutex;

   pthread_mutex_init(&mutex,NULL);

    for(i=0;i<inititer+iterations;i++){
      for(j=0;j<mcsweeps;j++){
         pthread_create(&tid1,NULL,single_timestep,(void *)&data1);
              pthread_create(&tid2,NULL,single_timestep,(void *)&data2);
              pthread_create(&tid3,NULL,single_timestep,(void *)&data3);
              pthread_create(&tid4,NULL,single_timestep,(void *)&data4);
              pthread_join(tid1,NULL);
              pthread_join(tid2,NULL);
              pthread_join(tid3,NULL);
              pthread_join(tid4,NULL);

//   single_timestep(vesicle);
      }
@@ -38,6 +56,9 @@
         write_vertex_xml_file(vesicle,i-inititer);
      }
   }

   pthread_mutex_destroy(&mutex);
   pthread_exit(NULL);
   return TS_SUCCESS;
}

@@ -46,9 +67,9 @@
   data=(thdata *)thread_data;
   ts_vesicle *vesicle=data->vesicle;
   ts_uint thID=data->thread_no;
   ts_uint partition_size=(ts_uint)(vesicle->vlist->n/2);
   ts_uint partition_size=(ts_uint)(vesicle->vlist->n/4);
   ts_uint end;
   if(thID==2){
   if(thID==3){
      end=vesicle->vlist->n;
   } else {
      end=(thID+1)*partition_size;
@@ -59,14 +80,17 @@
        rnvec[0]=drand48();
        rnvec[1]=drand48();
        rnvec[2]=drand48();
   vertex_taint(vesicle->vlist->vtx[i],1);
//      ts_fprintf(stdout, "Vertex %d should be tainted, level=%d.\n", i, vesicle->vlist->vtx[i]->locked);

   /**** THREAD IS POTENTIALLY LOCKED ******/
   pthread_mutex_lock(data->vtx_tainting_lock); //taint if no other process is tainting or wait until you can taint
   //   ts_fprintf(stdout, "thID=%d:: Tainting vertex %d, level=%d. Waiting....\n",thID, i, vesicle->vlist->vtx[i]->locked);
   while(vertex_tainted(vesicle->vlist->vtx[i],1,1)){
      ts_fprintf(stdout, "Vertex %d tainted, level=%d. Waiting....\n", i, vesicle->vlist->vtx[i]->locked);
      vertex_untaint(vesicle->vlist->vtx[i],1);
      //TODO: wait a random amount of time//
      vertex_taint(vesicle->vlist->vtx[i],1);
      ts_fprintf(stdout, "thID=%d:: Vertex %d is tainted, so I cannot try vertexmove. Level=%d. WAITING!\n",thID, i, vesicle->vlist->vtx[i]->locked);
   }
   vertex_taint(vesicle->vlist->vtx[i],1);
   pthread_mutex_unlock(data->vtx_tainting_lock);
   /**** THREAD IS RELEASING MUTEX RESOURCES ******/

        single_verticle_timestep(vesicle,vesicle->vlist->vtx[i],rnvec);
   vertex_untaint(vesicle->vlist->vtx[i],1);
//      ts_fprintf(stdout, "Vertex %d should be untainted, level=%d.\n", i, vesicle->vlist->vtx[i]->locked);
@@ -86,7 +110,6 @@
/*   if(retval);
    return TS_SUCCESS;
*/

    pthread_exit(0); /* exit */
}