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--- a/doc/release-notes.html
+++ b/doc/release-notes.html
@@ -15,6 +15,21 @@
</div>
<h2>MEME Suite Release Notes</h2>
<hr>
+ <b>MEME version 4.11.2 patch 2 -- October 24, 2016</b>
+ <ul>
+ <li>
+ <b>Bug fixes</b>
+ <ul>
+ <li>
+ Fixed bug in handling of RNA-like custom alphabets.
+ </li>
+ <li>
+ Fixed bug in MAST -comp option.
+ </li>
+ </ul
+ </li>
+ </ul>
+ <hr>
<b>MEME version 4.11.2 patch 1 -- June 16, 2016</b>
<ul>
<li>
--- a/src/alph-in.c
+++ b/src/alph-in.c
@@ -1044,7 +1044,7 @@
lookup[0] = sym->complement;
comp2 = (ALPH_SYM_T*)rbtree_get(reader->merged, lookup);
}
- if (comp1 != comp2) {
+ if (comp1 && (comp1 != comp2)) {
add_msg(reader, parmsg_create(SEVERITY_ERROR, -1, -1, -1,
"not like %s alphabet as %c complement rules are incorrect",
ext_name, req_syms[i]));
--- a/src/mast-util.c
+++ b/src/mast-util.c
@@ -740,14 +740,14 @@
// create the frequency array
alph = xlate ? xlate_dest_alph(xlate) : alph;
- freq = allocate_array(alph_size_core(alph));
+ freq = allocate_array(alph_size_full(alph));
init_array(0, freq);
// count the number of letters of each type
if (xlate) {
for (n=0; sequence[n]; n++) {
i = xlate_index(xlate, false, sequence+n);
- if (i > 0 && i < alph_size_core(alph)) incr_array_item(i, 1, freq);
+ if (i > 0 && i < alph_size_full(alph)) incr_array_item(i, 1, freq);
}
} else {
for (n=0; sequence[n]; n++) {
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