Merge branch 'feature-a/release' into 'dev'

vidjil-algo: release 2020.04

See merge request !674

algo/core/germline.cpp

@@ -182,8 +182,10 @@ void Germline::new_index(IndexTypes type)
 
 void Germline::set_index(IKmerStore<KmerAffect> *_index)
 {
-  index = _index;
-  index->refs++ ;
+  if (index != _index) {
+    index = _index;
+    index->refs++ ;
+  }
 }
 
 

algo/release

-2020.01
+2020.04

doc/CHANGELOG

 
 This changelog concerns vijil-algo, the algorithmic part (C++) of the Vidjil platform.
 
+2020-04-29  The Vidjil Team
+	* New --gz option to output compressed files #4253 #4269 #4270
+	* Improved seed framework, with different seeds on V/D/J parts. Analysis will be improved in further releases #3954
+	* Bugs closed (missing affectations #4225, crash in rare cases #4263)
+	* New Docker framework for tests on multiple compilers #4203
+	* New and updated tests
+
 2020-01-24  The Vidjil Team
 	* Improved e-value estimation, -e is now the global e-value, new advanced option --e-value-kmer
 	  Sequences on larger datasets will now be better analyzed #3594 !538

doc/vidjil-algo.md

-# vidjil-algo 2020.01
+# vidjil-algo 2020.04
 **Command-line manual**
 
 *The Vidjil team (Mathieu, Mikaël, Aurélien, Florian, Marc, Tatiana and Rayan)*
 
 ```
   Vidjil -- High-throughput Analysis of V(D)J Immune Repertoire -- [[http://www.vidjil.org]]
-  Copyright (C) 2011-2019 by Bonsai bioinformatics
+  Copyright (C) 2011-2020 by Bonsai bioinformatics
   at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
   and VidjilNet consortium.
   contact@vidjil.org