[med-svn] [Git][med-team/stacks][upstream] New upstream version 2.53+dfsg

[Steffen Möller]

Steffen Möller pushed to branch upstream at Debian Med / stacks


Commits:
509bbff5 by Steffen Moeller at 2020-04-26T01:39:31+02:00
New upstream version 2.53+dfsg
- - - - -


3 changed files:

- ChangeLog
- configure.ac
- scripts/denovo_map.pl


Changes:

=====================================
ChangeLog
=====================================
@@ -1,3 +1,7 @@
+Stacks 2.53 - March 28, 2020
+----------------------------
+    Bugfix: denovo_map.pl was broken for running cstacks on non-genetic map datasets.
+
 Stacks 2.52 - March 5, 2020
 ---------------------------
     Feature: denovo_map.pl now has a --resume options, which will restart the pipeline if a previous run failed


=====================================
configure.ac
=====================================
@@ -2,7 +2,7 @@
 # Process this file with autoconf to produce a configure script.
 
 AC_PREREQ(2.59)
-AC_INIT([Stacks], [2.52])
+AC_INIT([Stacks], [2.53])
 AC_CONFIG_AUX_DIR([config])
 AM_INIT_AUTOMAKE([-Wall -Werror foreign parallel-tests subdir-objects])
 AC_CONFIG_SRCDIR([src/ustacks.cc])


=====================================
scripts/denovo_map.pl
=====================================
@@ -571,8 +571,8 @@ sub parse_population_map {
     #
     my @k = keys %{$pops};
     if (scalar(@k) == 2) {
-        if ( ($k[0] == "parent"  and $k[1] == "progeny") or
-             ($k[0] == "progent" and $k[1] == "parent") ) {
+        if ( ($k[0] eq "parent"  && $k[1] eq "progeny") ||
+             ($k[0] eq "progeny" && $k[1] eq "parent") ) {
             print STDERR "Genetic map detected from population map, only 'parent' samples will be loaded into the catalog.\n";
             $$map = true;
         }



View it on GitLab: https://salsa.debian.org/med-team/stacks/-/commit/509bbff5f903b735e12239370a5f582093be83a7

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View it on GitLab: https://salsa.debian.org/med-team/stacks/-/commit/509bbff5f903b735e12239370a5f582093be83a7
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