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--- src/utils/BamTools/include/SamHeader.hpp.orig 2021-01-24 16:15:06 UTC
+++ src/utils/BamTools/include/SamHeader.hpp
@@ -7,6 +7,7 @@
#include <string.h>
#include <api/BamAux.h>
#include <stdlib.h>
+#include <sysexits.h>
#ifdef WITH_HTS_CB_API
@@ -29,7 +30,11 @@ namespace htslib_future {
ops.cb_data = buffer;
samFile* fp = hts_open_callback(NULL, &ops, "w");
- sam_hdr_write(fp, hdr);
+ if ( sam_hdr_write(fp, hdr) != 0 )
+ {
+ fputs("sam_hdr_rebuild: Error: sam_hdr_write() failed.\n", stderr);
+ exit(EX_IOERR);
+ }
hts_close(fp);