Add bgen_strdup and update filepath allocation

CMakeLists.txt

@@ -53,7 +53,8 @@ add_library(
   src/partition.c
   src/bstring.c
   src/unzlib.c
-  src/unzstd.c)
+  src/unzstd.c
+  src/strdup.c)
 add_library(BGEN::bgen ALIAS bgen)
 
 include(GenerateExportHeader)

src/file.c

@@ -10,6 +10,7 @@
 #include "mem.h"
 #include "report.h"
 #include "samples.h"
+#include "strdup.h"
 #include <inttypes.h>
 #include <stdbool.h>
 
@@ -190,7 +191,7 @@ int bgen_file_seek_variants_start(struct bgen_file* bgen_file)
 static struct bgen_file* bgen_file_create(char const* filepath)
 {
     struct bgen_file* bgen = malloc(sizeof(struct bgen_file));
-    bgen->filepath = strdup(filepath);
+    bgen->filepath = bgen_strdup(filepath);
     bgen->stream = NULL;
     bgen->nvariants = 0;
     bgen->nsamples = 0;

src/metafile.c

@@ -11,6 +11,7 @@
 #include "metafile_write.h"
 #include "partition.h"
 #include "report.h"
+#include "strdup.h"
 #include <string.h>
 
 static struct bgen_metafile* metafile_alloc(char const* filepath);
@@ -222,7 +223,7 @@ uint32_t bgen_metafile_partition_size(uint32_t nvariants, uint32_t npartitions)
 static struct bgen_metafile* metafile_alloc(char const* filepath)
 {
     struct bgen_metafile* metafile = malloc(sizeof(struct bgen_metafile));
-    metafile->filepath = strdup(filepath);
+    metafile->filepath = bgen_strdup(filepath);
     metafile->stream = NULL;
     metafile->partition_offset = NULL;
     return metafile;

src/strdup.c

@@ -0,0 +1,12 @@
+#include "strdup.h"
+#include <stdlib.h>
+#include <string.h>
+
+char* bgen_strdup(const char* s)
+{
+    size_t l = strlen(s);
+    char*  d = malloc(l + 1);
+    if (!d)
+        return NULL;
+    return memcpy(d, s, l + 1);
+}

src/strdup.h

@@ -0,0 +1,6 @@
+#ifndef STRDUP_H
+#define STRDUP_H
+
+char* bgen_strdup(const char* s);
+
+#endif