Added a note to the manual. Currently SAMtools used unaligned words in

several places. Although this does not cause bus errors to me, it may
affect portability. Please see the "Bus error" wiki page for more
information. Also thank James Bonfields for pointing this out.

diff --git a/samtools.1 b/samtools.1
index acd27bce753f5e801baa6e5b355c8b9ca94a43a0..802e7a54185180f4c3c6bfc82329b3a88f7c71b1 100644 (file)
--- a/samtools.1
+++ b/samtools.1
@@ -319,7 +319,7 @@ _
 .SH LIMITATIONS
 .PP
 .IP o 2
-Reference sequence names and lengths are not acquired from the BAM/SAM header.
+Unaligned words used in bam_import.c, bam_endian.h, bam.c and bam_aux.c.
 .IP o 2
 CIGAR operation P is not properly handled at the moment.
 .IP o 2