Release miniprot-0.13 (r247)

lh3 · Mar 6, 2024 · 9eb0117 · 9eb0117
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diff --git a/NEWS.md b/NEWS.md
@@ -1,3 +1,27 @@
+Release 0.13-r247 (6 March 2024)
+--------------------------------
+
+Notable changes:
+
+ * New feature: added option -T to specify a non-standard NCBI translation
+   table (#56 and #57). As this is an indexing option, the binary index format
+   has to be changed accordingly. Miniprot will reject indices built with
+   previous versions.
+
+ * Improvement: properly handle reference deletions involving in-frame stop
+   codons (#58). Older versions would not penalize these stop codons. This
+   change also improves junction accuracy especially for distant homologs.
+
+ * Bug fix: in the GFF3 output, CDS now includes stop codons (#55). Note the in
+   GTF, CDS excludes stop codons.
+
+ * Bug fix: suppress an extra amino acid in the --trans or --aln output (#47).
+   In rare cases, this may lead to memory violation.
+
+(0.13: 6 March 2024, r247)
+
+
+
 Release 0.12-r237 (24 June 2023)
 --------------------------------
 

diff --git a/miniprot.1 b/miniprot.1
@@ -1,4 +1,4 @@
-.TH miniprot 1 "5 March 2024" "miniprot-0.12-dirty (r243)" "Bioinformatics tools"
+.TH miniprot 1 "5 March 2024" "miniprot-0.13 (r247)" "Bioinformatics tools"
 .SH NAME
 .PP
 miniprot - protein-to-genome alignment with splicing and frameshifts

diff --git a/miniprot.h b/miniprot.h
@@ -3,7 +3,7 @@
 
 #include <stdint.h>
 
-#define MP_VERSION "0.12-r246-dirty"
+#define MP_VERSION "0.13-r247"
 
 #define MP_F_NO_SPLICE    0x1
 #define MP_F_NO_ALIGN     0x2