writing file to fat16 file system

So, I recently adapted this code I found online, which is a command line tool that copies a file in a FAT16 file system, and puts it into your 'regular;' directory:
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#include <sys/stat.h>
#include <sys/mount.h>
#include <sys/wait.h>
    #include <unistd.h>
    #include <fcntl.h>
    #include <cstring>
    #include <stdio.h>
    #include <stdlib.h>
    #include <fcntl.h>
    #include <string.h>
    #include <signal.h>
    #include <ctype.h>
    #include <errno.h>
    #include <stdint.h>
    
    
    
    typedef struct {
        unsigned char first_byte;
        unsigned char start_chs[3];
        unsigned char partition_type;
        unsigned char end_chs[3];
        unsigned long start_sector;
        unsigned long length_sectors;
    } __attribute((packed)) PartitionTable;
    
    typedef struct {
        unsigned char jmp[3];
        char oem[8];
        unsigned short sector_size;
        unsigned char sectors_per_cluster;
        unsigned short reserved_sectors;
        unsigned char number_of_fats;
        unsigned short root_dir_entries;
        unsigned short total_sectors_short; // if zero, later field is used
        unsigned char media_descriptor;
        unsigned short fat_size_sectors;
        unsigned short sectors_per_track;
        unsigned short number_of_heads;
        unsigned long hidden_sectors;
        unsigned long total_sectors_long;
        
        unsigned char drive_number;
        unsigned char current_head;
        unsigned char boot_signature;
        unsigned long volume_id;
        char volume_label[11];
        char fs_type[8];
        char boot_code[448];
        unsigned short boot_sector_signature;
    } __attribute((packed)) Fat16BootSector;
    
    typedef struct {
        unsigned char filename[8];
        unsigned char ext[3];
        unsigned char attributes;
        unsigned char reserved[10];
        unsigned short modify_time;
        unsigned short modify_date;
        unsigned short starting_cluster;
        unsigned long file_size;
    } __attribute((packed)) Fat16Entry;
    
    
    
    
    
    
    
    void fat_read_file(FILE * in, FILE * out,
                       unsigned long fat_start, 
                       unsigned long data_start, 
                       unsigned long cluster_size, 
                       unsigned short cluster, 
                       unsigned long file_size) {
        unsigned char buffer[4096];
        size_t bytes_read, bytes_to_read,
               file_left = file_size, cluster_left = cluster_size;
    
        // Go to first data cluster
        fseek(in, data_start + cluster_size * (cluster-2), SEEK_SET);
        
        // Read until we run out of file or clusters
        while(file_left > 0 && cluster != 0xFFFF) {
            bytes_to_read = sizeof(buffer);
            
            // don't read past the file or cluster end
            if(bytes_to_read > file_left)
                bytes_to_read = file_left;
            if(bytes_to_read > cluster_left)
                bytes_to_read = cluster_left;
            
            // read data from cluster, write to file
            bytes_read = fread(buffer, 1, bytes_to_read, in);
            fwrite(buffer, 1, bytes_read, out);
            printf("Copied %d bytes\n", bytes_read);
            
            // decrease byte counters for current cluster and whole file
            cluster_left -= bytes_read;
            file_left -= bytes_read;
            
            // if we have read the whole cluster, read next cluster # from FAT
            if(cluster_left == 0) {
                fseek(in, fat_start + cluster*2, SEEK_SET);
                fread(&cluster, 2, 1, in);
                
                printf("End of cluster reached, next cluster %d\n", cluster);
                
                fseek(in, data_start + cluster_size * (cluster-2), SEEK_SET);
                cluster_left = cluster_size; // reset cluster byte counter
            }
        }
    }
    void  parse(char *line, char **argv)
    {
      while (*line != '\0') {//until the end of the line... 
        while (*line == ' ' || *line == '\t' || *line == '\n')//...while the character in memory is any of these...
          *line++ = '\0'; //...replace it with a 0.     
        *argv++ = line;//change the given argument to the changed line.           
              while (*line != '\0' && *line != '\t' && *line != '\n' && *line != ' ')//while the line is not at one of these symbols...
               
    	    line++;//...skip the argument            
         }
      *argv = '\0'; //mark the end of the argument list        
      printf("%s\n", line);      
    }
    
    int reader(char *b[]) {
        FILE *in, *out;
        in = fopen(b[1], "rb");
        int i, j;
        unsigned long fat_start, root_start, data_start;
        PartitionTable pt[4];
        Fat16BootSector bs;
        Fat16Entry entry;
    char filename[9] = "        ", file_ext[4] = "   "; // initially pad with spaces
        
     if(sizeof(b) < 4) {
    printf("Usage: read_file <fs_image> <FILE.EXT>\n");
    return 0;
    }
    if((in = fopen(b[1], "rb")) == NULL) {
    printf("Filesystem image file %s not found!\n", b[1]);
    return -1;
    }
        // Copy filename and extension to space-padded search strings
    for(i=0; i<8 && b[2][i] != '.' && b[2][i] != 0; i++)
    filename[i] = b[2][i];
    for(j=1; j<=3 && b[2][i+j] != 0; j++)
    file_ext[j-1] = b[2][i+j];
    printf("Opened %s, looking for [%s.%s]\n", b[1], filename, file_ext);
    
        
        
        
        
        fseek(in, 0x000, SEEK_SET);
        fread(&bs, sizeof(Fat16BootSector), 1, in);
        
        // Calculate start offsets of FAT, root directory and data
        fat_start = ftell(in) + (bs.reserved_sectors-1) * bs.sector_size;
        root_start = fat_start + bs.fat_size_sectors * bs.number_of_fats *
            bs.sector_size;
        data_start = root_start + bs.root_dir_entries * sizeof(Fat16Entry);
        
        printf("FAT start at %08X, root dir at %08X, data at %08X\n", 
               fat_start, root_start, data_start);
               
        fseek(in, root_start, SEEK_SET);
     
        for(i=0; i<bs.root_dir_entries; i++) {
            fread(&entry, sizeof(entry), 1, in);
    if(memcmp(entry.filename, filename, 8) == 0 && 
      memcmp(entry.ext, file_ext, 3) == 0) {
                printf("File found!\n");
                break;
            }
        }
        
        if(i == bs.root_dir_entries) {
            printf("File not found!");
            return -1;
        }
        
        out = fopen(b[3], "wb"); // write the file contents to disk
        fat_read_file(in, out, fat_start, data_start, bs.sectors_per_cluster * bs.sector_size, entry.starting_cluster, entry.file_size);
        fclose(out);
        
        fclose(in);
        
        return 0;
    }
    
    int main(int argc, char * argv[]){
      char line[1024];
      char *ag[64];
      while(1){
        printf(":/>");
        gets(line);
        parse(line, ag);
        if (strcmp(ag[0], "exit")==0)
          exit(0);
        if (strcmp(ag[0], "cpout")==0){
          char* b1[4];
          b1[1]=argv[1];
          b1[2]=ag[1];
          b1[3]=ag[2];
          int i=reader(b1);
        }
      }
    }

What I want to do now is have a command that takes a file from your regular directory, copies it, and puts that copy in the FAT16. Does anyone have an inkling of how that might be done?
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