diff --git a/docs/HISTORY.TXT b/docs/HISTORY.TXT index a172479e..aea512d1 100644 --- a/docs/HISTORY.TXT +++ b/docs/HISTORY.TXT @@ -1,3 +1,18 @@ +List of changes from version 3.4.0 to 3.5.0 (until Sep 24th, 2022) + - automatic testcases (short regression test) and long-running performance tests + - added singularity definition file and instructions + - fix of PP::ProfileReadError that occurred with new versions of libstdc++ + - fixed an issue with chromosomes that are larger than 2^31 bp (~2GB) + - bugfixes in augustus, augustify and for BRAKER + - common parameter definitions of pygustus and augustus + - new species Vitis vinfera, Berviolum minutum, Hydra vulgaris, Skeletonema costatum, Pediculus humanus, + Pycnopodia helianthoides, Dermasterias imbricata, Ricinus communis, Taeniopygia guttata, Branchiostoma floridae, + Anopheles gambiae, Cryptosporidium hominis, Physcomitrium patens, Perkinsus marinus, Loa loa, Trypanosoma cruzi, + Naegleria gruberi, Monosiga brevicollis, Cyclotella cryptica, Sclerotinia sclerotiorum, Paramecium tetraurelia, + Xenopus tropicalis, Notospermus geniculatus, Chrysaora chesapeakei, sunflower + - improved filterBam performance + - make SeqLib API an alternative to the Bamtools API + - improvements in augustify List of changes from version 3.3.3 to 3.4.0 (until Dec 11th, 2020) - enable making of a Debian package that includes the CGP functionality - shortruning (make test) and longrunning tests for monitoring functionality and performance diff --git a/include/types.hh b/include/types.hh index 0ce581e6..fbddf53c 100644 --- a/include/types.hh +++ b/include/types.hh @@ -73,11 +73,11 @@ ostream& operator<< (ostream& strm, const Strand s); #define MODEL_SUBDIR "model/" #define EXTRINSIC_SUBDIR "extrinsic/" -#define VERSION "3.4.0" +#define VERSION "3.5.0" #define PREAMBLE "# This output was generated with AUGUSTUS (version " VERSION ").\n\ # AUGUSTUS is a gene prediction tool written by M. Stanke (mario.stanke@uni-greifswald.de),\n\ -# O. Keller, S. König, L. Gerischer, L. Romoth and Katharina Hoff.\n\ +# O. Keller, S. König, L. Gerischer, L. Romoth, Katharina Hoff, Henry Mehlan and Daniel Honsel.\n\ # Please cite: Mario Stanke, Mark Diekhans, Robert Baertsch, David Haussler (2008),\n\ # Using native and syntenically mapped cDNA alignments to improve de novo gene finding\n\ # Bioinformatics 24: 637-644, doi 10.1093/bioinformatics/btn013"