[med-svn] [Git][med-team/plink1-9][master] 4 commits: New upstream version 1.90~b6.4-180807

[Dylan Aïssi]

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


Commits:
521762b6 by Dylan Aïssi at 2018-08-22T16:11:36Z
New upstream version 1.90~b6.4-180807
- - - - -
b5ed39c4 by Dylan Aïssi at 2018-08-22T16:11:40Z
Merge tag 'upstream/1.90_b6.4-180807'

Upstream version 1.90~b6.4-180807

- - - - -
61d28176 by Dylan Aïssi at 2018-08-22T16:13:24Z
Update changelogs

- - - - -
e3911803 by Dylan Aïssi at 2018-08-22T16:21:33Z
Upload to unstable

- - - - -


4 changed files:

- debian/changelog
- debian/upstream.docs/upstream.changelog
- plink.c
- plink_assoc.c


Changes:

=====================================
debian/changelog
=====================================
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,3 +1,9 @@
+plink1.9 (1.90~b6.4-180807-1) unstable; urgency=medium
+
+  * New upstream release.
+
+ -- Dylan Aïssi <bob.dybian at gmail.com>  Wed, 22 Aug 2018 18:11:44 +0200
+
 plink1.9 (1.90~b6.3-180717-1) unstable; urgency=medium
 
   * New upstream release.


=====================================
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/
 
-17 Jul 2018: Fixed uninitialized --make-set-border value bug.
+7 Aug 2018: --assoc set-test bugfix.
+
+17 Jul: Fixed uninitialized --make-set-border value bug.
 
 12 Jun: "--assoc fisher"'s multiple testing corrections no longer treat zero-MAF variants as valid tests.
 


=====================================
plink.c
=====================================
--- a/plink.c
+++ b/plink.c
@@ -93,7 +93,7 @@
 
 static const char ver_str[] =
 #ifdef STABLE_BUILD
-  "PLINK v1.90b6.3"
+  "PLINK v1.90b6.4"
 #else
   "PLINK v1.90p"
 #endif
@@ -105,10 +105,10 @@ static const char ver_str[] =
 #else
   " 32-bit"
 #endif
-  " (17 Jul 2018)";
+  " (7 Aug 2018)";
 static const char ver_str2[] =
   // include leading space if day < 10, so character length stays the same
-  ""
+  " "
 #ifdef STABLE_BUILD
   " " // (don't want this when version number has two trailing digits)
 #else


=====================================
plink_assoc.c
=====================================
--- a/plink_assoc.c
+++ b/plink_assoc.c
@@ -5918,6 +5918,8 @@ int32_t model_assoc_set_test(pthread_t* threads, FILE* bedfile, uintptr_t bed_of
 	}
 	goto model_assoc_set_test_perms_done;
       }
+      // bugfix (7 Aug 2018): forgot to update marker_unstopped_ct
+      marker_unstopped_ct = popcount_longs(unstopped_markers, (marker_ct + BITCT - 1) / BITCT);
     }
     printf("\r%u permutation%s complete.", perms_done, (perms_done != 1)? "s" : "");
     fflush(stdout);



View it on GitLab: https://salsa.debian.org/med-team/plink1-9/compare/52649ac487c085f55bfe80056c6e6ccc8f7bc503...e391180333011d111de6b00dac64401b148e704f

-- 
View it on GitLab: https://salsa.debian.org/med-team/plink1-9/compare/52649ac487c085f55bfe80056c6e6ccc8f7bc503...e391180333011d111de6b00dac64401b148e704f
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