X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=NEWS;h=9118140a48dd853050cb932179cb3dc04f103df7;hb=07f8f0c963bd0ad034153758863cd6a700b7cade;hp=91434f3ff72b34358644fe3dad36c5ef9b8cf8a5;hpb=c957fcdfce937652394b3b9489f0c6706d64c75d;p=samtools.git

diff --git a/NEWS b/NEWS
index 91434f3..9118140 100644
--- a/NEWS
+++ b/NEWS
@@ -1,7 +1,31 @@
-Beta release 0.1.11 (19 November, 2010)
+Beta release 0.1.12 (2 December, 2010)
+~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+
+This is another bug fix release:
+
+ * Fixed a memory violation in mpileup, which causes segfault. Release
+   0.1.9 and above are affected.
+
+ * Fixed a memory violation in the indel caller, which does not causes
+   segfault, but may potentially affect deletion calls in an unexpected
+   way. Release 0.1.10 and above are affected.
+
+ * Fixed a bug in computing r-square in bcftools. Few are using this
+   functionality and it only has minor effect.
+
+ * Fixed a memory leak in bam_fetch().
+
+ * Fixed a bug in writing meta information to the BAM index for the last
+   sequence. This bug is invisible to most users, but it is a bug anyway.
+
+(0.1.12: 2 December 2010, r859)
+
+
+
+Beta release 0.1.11 (21 November, 2010)
 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 
-This is a bug fix release:
+This is mainly a bug fix release:
 
  * Fixed a bug in random retrieval (since 0.1.8). It occurs when reads
    are retrieved from a small region containing no reads.
@@ -11,12 +35,21 @@ This is a bug fix release:
 
  * Improved fault tolerence in remote access.
 
+One minor feature has been implemented in bcftools:
+
+ * Added a reference-free variant calling mode. In this mode, a site is
+   regarded as a variat iff the sample(s) contains two or more alleles;
+   the meaning of the QUAL field in the VCF output is changed
+   accordingly. Effectively, the reference allele is irrelevant to the
+   result in the new mode, although the reference sequence has to be
+   used in realignment when SAMtools computes genotype likelihoods.
+
 In addition, since 0.1.10, the `pileup' command has been deprecated by
 `mpileup' which is more powerful and more accurate. The `pileup' command
 will not be removed in the next few releases, but new features will not
 be added.
 
-(0.1.11: 19 November 2010, r842)
+(0.1.11: 21 November 2010, r851)