version

version.inc

@@ -1 +1,32 @@
-#define VERSION "1.1.9"
+#define VERSION "1.1.10"
+
+
+// 1.1.10 07/18/2020  makeDistTree -min_arc_prob; DistTree::reroot() does not use 3*SD
+// 1.1.9  06/23/2020  DistTree::mergeDissimAttrs() bug affecting indiscernibles
+// 1.1.8  06/21/2020  variance_min > 0 => indiscernibles are used, otherwise max_degree is very large
+// 1.1.7  06/20/2020  compbine_dissims.cpp: swap(name1,name2)
+// 1.1.6  06/17/2020  inc/GenBank/ -> inc/genome/, inc/marker/ -> inc/rRNA/
+// 1.1.5  06/16/2020  inc/ contains: server, database, bulk, bulk_remote
+// 1.1.4  06/11/2020  distTree_inc_save.sh: inc/*.sh are usable for users
+// 1.1.3  06/10/2020  distTree_inc_complete.sh: #3 (update database) parameter is removed
+// 1.1.2  06/09/2020  distTree_inc_new.sh: ADD = max($OBJS * $RATE, 1)
+// 1.1.1  06/05/2020  [ 1 == 1 ] -> true; [ 1 == 0 ] -> false
+// 1.1.0  06/03/2020  inc/request_closest.sh: output is 1 column
+// 1.0.2  06/02/2020  cpp/genetics/, cpp/dissim/
+// 0.0.0  05/11/2020  align.cpp: DNA: gap_open = -1 (was: 0)
+// 0.0.0  05/03/2020  Genome.surveillance = 1: -> dead
+// 0.0.0  03/04/2020  uniColl..Genogroup2outliers: "update Genome set genogroup = null" before setting Genome.genogroup
+// 0.0.0  02/28/2020  bacteria genomes: BUSCO.10, variance power = 4.0, root at 2780458:5196388 (Thermotogae, not Terabacteria group, cf. 16S tree)
+// 0.0.0  02/13/2020  extractFastaProt -replace: print all replacements
+// 0.0.0  02/12/2020  hmmsearch2besthits.cpp: print all HMMs (which may hit the same proteins)
+// 0.0.0  01/10/2020  update Taxroot set hashes_max = 150000 where id = 4751 and hashes_max = 30000; 
+// 0.0.0  11/06/2019  dbo.TaxLineage and phen/ files are added ' [TYPE_SPECIES]' 
+// 0.0.0  10/01/2019  distTree_inc.sh: -reinsert is removed
+// 0.0.0  09/30/2019  GenBank/: hashed directores: genome, phen; inc/phen_large
+// 0.0.0  09/26/2019  panfs/marker/.../inc/request_closest.sh: BLAST output is ordered by nident instead of e-value 
+// 0.0.0  09/01/2019  distTree_inc_new.sh: makeDistTree -reinsert 
+// 0.0.0  09/01/2019  better optimization for weights \sim 0
+// 0.0.0  09/01/2019  Genogroup2outliers: p-value is lowered (two-tail test): Genome.genogroup_outlier is set to null
+// 0.0.0  09/01/2019  normalized object criterion; normalized arc error density
+// 0.0.0  09/01/2019  hybrid2db.sh, db2unhybrid.sh: obsolete; Genome.outlier = 'auto_hybrid': redo
+