cleaning

c-sandbox/obicount/Makefile

@@ -1,18 +0,0 @@
-CC = gcc
-CFLAGS = -c -Wall
-LDFLAGS = 
-SOURCES = obicount.c ../obidmscolumn.c
-OBJECTS = $(SOURCES:.c=.o)
-EXECUTABLE = obicount
-
-all: $(SOURCES) $(EXECUTABLE)
-    
-$(EXECUTABLE): $(OBJECTS) 
-	$(CC) $(LDFLAGS) $(OBJECTS) -o $@
-
-.c.o:
-	$(CC) $(CFLAGS) $< -o $@
-
-clean:
-	rm *o
-	rm $(EXECUTABLE)

c-sandbox/obicount/obicount.c

@@ -1,87 +0,0 @@
-
-#include <stdio.h>
-#include <stdlib.h>
-#include <sys/mman.h>	/* mmap() is defined in this header */
-#include <stdint.h>
-#include <fcntl.h>
-#include <sys/stat.h>
-
-#include "../obitypes.h"
-#include "../obidmscolumn.h"
-
-
-/**
- * @brief Computes the size to map.
- *
- * * @param OBIDMSColumn_file The file to map.
- * @return The size to map.
- */
-int get_size_to_map(int OBIDMSColumn_file)
-// compute size to map : file size minus size of the header
-{
-	int size;
-	struct stat s;
-
-	fstat(OBIDMSColumn_file, &s);
-	size = (s.st_size) - HEADER_SIZE;
-	return(size);
-}
-
-/**
- * @brief Computes and prints the total number of sequences by summing their counts.
- *
- * * @param The count file.
- */
-int main(int argc, char const *argv[])
-{
-	char* map;
-	int size;
-	int OBIDMSColumn_file;
-	int count;
-	char c;
-	char num_str[10] = "";
-	int num_int;
-	int i,j;
-
-	// initialize variables
-	OBIDMSColumn_file = open(argv[1], O_RDONLY);	//read only
-	count = 0;
-	j = 0;
-
-	// compute size to map
-	size = get_size_to_map(OBIDMSColumn_file);
-
-	// map the data
-	map = obi_map_read_only(OBIDMSColumn_file, HEADER_SIZE, size);
-
-	// sum the counts
-	for (i=0; i<size; i++)
-	{
-		c = map[i];
-
-		if (c != SEPARATOR)		// reading lines
-		{
-			num_str[j] = c;
-			j++;
-		}
-
-		else if (c == SEPARATOR)	// end of a line
-		{
-			num_int = atoi(num_str);	// turn number from character string to int
-			count = count + num_int;	// add the number to the sum
-			j = 0;
-			num_str[j] = '\0';
-		}
-	}
-
-	// print the final count of sequences
-	fprintf(stderr, "Sequence count = %d\n", count);
-
-	// unmap
-	obi_unmap(size);
-
-	// close file
-	close(OBIDMSColumn_file);
-
-	return(0);
-}