debian/changelog

+plink1.9 (1.90~b6.3-180717-1) unstable; urgency=medium
+
+  * New upstream release.
+  * Bump Standards-Version: 4.2.0 (no changes needed).
+
+ -- Dylan Aïssi <bob.dybian@gmail.com>  Fri, 03 Aug 2018 07:44:29 +0200
+
 plink1.9 (1.90~b6.2-180612-1) unstable; urgency=medium
 
   * New upstream release.

debian/control

@@ -8,7 +8,7 @@ Build-Depends: debhelper (>= 11~),
                libatlas-base-dev,
                liblapack-dev,
                zlib1g-dev
-Standards-Version: 4.1.4
+Standards-Version: 4.2.0
 Vcs-Browser: https://salsa.debian.org/med-team/plink1-9
 Vcs-Git: https://salsa.debian.org/med-team/plink1-9.git
 Homepage: https://www.cog-genomics.org/plink/1.9/

debian/upstream.docs/upstream.changelog

 # Copy/Paste from https://www.cog-genomics.org/plink/1.9/
 
-12 Jun 2018: "--assoc fisher"'s multiple testing corrections no longer treat zero-MAF variants as valid tests.
+17 Jul 2018: Fixed uninitialized --make-set-border value bug.
+
+12 Jun: "--assoc fisher"'s multiple testing corrections no longer treat zero-MAF variants as valid tests.
 
 28 May: Fixed --file triallelic-variant handling bug which occurred when the .map was unsorted.
 

plink.c

@@ -93,7 +93,7 @@
 static const char ver_str[] =
 #ifdef STABLE_BUILD
-  "PLINK v1.90b6.2"
+  "PLINK v1.90b6.3"
 #else
   "PLINK v1.90p"
 #endif
@@ -105,7 +105,7 @@ static const char ver_str[] =
 #else
   " 32-bit"
 #endif
-  " (12 Jun 2018)";
+  " (17 Jul 2018)";
 static const char ver_str2[] =
   // include leading space if day < 10, so character length stays the same
   ""

plink_set.c

@@ -25,12 +25,15 @@ void set_init(Set_info* sip, Annot_info* aip) {
   sip->subset_fname = nullptr;
   sip->merged_set_name = nullptr;
   sip->genekeep_flattened = nullptr;
-  sip->ct = 0;
   sip->modifier = 0;
+  // bugfix (17 Jul 2018): make_set_border not zero-initialized
+  sip->make_set_border = 0;
   sip->set_r2 = 0.5;
   sip->set_p = 0.05;
   sip->set_test_lambda = 0.0;
   sip->set_max = 5;
+  sip->ct = 0;
+  // sip->names, sip->setdefs not accessed if ct == 0
   aip->fname = nullptr;
   aip->attrib_fname = nullptr;
   aip->ranges_fname = nullptr;