[med-svn] [Git][med-team/plink1-9][master] 5 commits: New upstream version 1.90~b6.3-180717

[Dylan Aïssi]

Dylan Aïssi pushed to branch master at Debian Med / plink1.9


Commits:
80f5c46f by Dylan Aïssi at 2018-08-03T05:43:55Z
New upstream version 1.90~b6.3-180717
- - - - -
37a7d95a by Dylan Aïssi at 2018-08-03T05:43:58Z
Merge tag 'upstream/1.90_b6.3-180717'

Upstream version 1.90~b6.3-180717

- - - - -
aea92491 by Dylan Aïssi at 2018-08-03T05:46:02Z
Update d/changelogs

- - - - -
c6edf54d by Dylan Aïssi at 2018-08-03T05:54:01Z
Bump Standards-Version: 4.2.0 (no changes needed)

- - - - -
52649ac4 by Dylan Aïssi at 2018-08-03T05:56:59Z
Upload to unstable

- - - - -


5 changed files:

- debian/changelog
- debian/control
- debian/upstream.docs/upstream.changelog
- plink.c
- plink_set.c


Changes:

=====================================
debian/changelog
=====================================
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,3 +1,10 @@
+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 at 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
=====================================
--- a/debian/control
+++ b/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
=====================================
--- a/debian/upstream.docs/upstream.changelog
+++ b/debian/upstream.docs/upstream.changelog
@@ -1,6 +1,8 @@
 # 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
=====================================
--- a/plink.c
+++ b/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
=====================================
--- a/plink_set.c
+++ b/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;



View it on GitLab: https://salsa.debian.org/med-team/plink1-9/compare/e7f895321f49209ba13695af080dce89070c192e...52649ac487c085f55bfe80056c6e6ccc8f7bc503

-- 
View it on GitLab: https://salsa.debian.org/med-team/plink1-9/compare/e7f895321f49209ba13695af080dce89070c192e...52649ac487c085f55bfe80056c6e6ccc8f7bc503
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