Branch to refactor and debug (AVLs bugged)

src/utils.c

@@ -0,0 +1,107 @@
+/****************************************************************************
+ * Utility functions                                                       *
+ ****************************************************************************/
+
+/**
+ * @file utils.c
+ * @author Celine Mercier (celine.mercier@metabarcoding.org)
+ * @date 29 March 2016
+ * @brief Code for utility functions.
+ */
+
+#include <fcntl.h>
+#include <string.h>
+#include <sys/stat.h>
+#include <sys/types.h>
+#include <stdio.h>
+#include <stdlib.h>
+#include <dirent.h>
+#include <unistd.h>
+
+#include "utils.h"
+#include "obidebug.h"
+#include "obierrno.h"
+#include "obidms.h"
+
+
+#define DEBUG_LEVEL 0	// TODO has to be defined somewhere else (cython compil flag?)
+
+
+
+/**********************************************************************
+ *
+ * D E F I N I T I O N   O F   T H E   P U B L I C   F U N C T I O N S
+ *
+ **********************************************************************/
+
+char* get_full_path(OBIDMS_p dms, const char* path_name)
+{
+	char* full_path;
+
+	full_path = (char*) malloc((MAX_PATH_LEN)*sizeof(char));
+	if (full_path == NULL)
+	{
+		obi_set_errno(OBI_MALLOC_ERROR);
+		obidebug(1, "\nError allocating memory for the char* path to a file or directory");
+		return NULL;
+	}
+
+	if (getcwd(full_path, MAX_PATH_LEN) == NULL)
+	{
+		obi_set_errno(OBI_UTILS_ERROR);
+		obidebug(1, "\nError getting the path to a file or directory");
+		return NULL;
+	}
+
+	strcat(full_path, "/");
+	strcat(full_path, dms->directory_name);
+	strcat(full_path, "/");
+	strcat(full_path, path_name);
+
+	return full_path;
+}
+
+
+DIR* opendir_in_dms(OBIDMS_p dms, const char* path_name)
+{
+	char* full_path;
+	DIR* directory;
+
+	full_path = get_full_path(dms, path_name);
+	if (full_path == NULL)
+		return NULL;
+
+	directory = opendir(full_path);
+	if (directory == NULL)
+	{
+		obi_set_errno(OBI_UTILS_ERROR);
+		obidebug(1, "\nError opening a directory");
+	}
+
+	free(full_path);
+
+	return directory;
+}
+
+
+int count_dir(char *dir)
+{
+	struct dirent *dp;
+	DIR *fd;
+	int count;
+
+	count = 0;
+	if ((fd = opendir(dir)) == NULL)
+	{
+		obi_set_errno(OBI_UTILS_ERROR);
+		obidebug(1, "Error opening a directory: %s\n", dir);
+		return -1;
+	}
+	while ((dp = readdir(fd)) != NULL)
+	{
+		if ((dp->d_name)[0] == '.')
+			continue;
+		count++;
+	}
+	return count;
+}