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version 2.3.12
affected: few *.cpp files
description:
- Added include of cstdio to make it compilable with gcc 4.4 (thanks to Ubuntu and
Debian-med teams)
version 2.3.11
affected: stsmatch_i.?pp
description:
- When parsing commandline if -d was used before -w or -f default size was reset to
program's default
version 2.3.10
affected: includes in a few files
description:
- Applied user-provided patch to add includes for gcc-4.3 compatibility
version 2.3.9
affected: fahash_lookup.cpp
description:
- Fixed a bug leading to false negatives when run without optimization
version 2.3.8
affected: e-PCR_main.cpp build_cfg.h
added: ncbi/Makefile ncbi/Makefile.INCLUDE
description:
- Added possibility to compile with NCBI C++ toolkit and read blastdb instead of fasta
version 2.3.7
affected: build_cfg.h fast_seqio*.?pp fahash*.?pp stsmatch_m.cpp
description:
- Fixed reverse e-pcr code to work on Linux 64 bit architecture
version 2.3.6
added: stand/Makefile.vc8
affected: mswin.h *_main.cpp
description:
- Fixed some warnings and made it compileable by MS Visual C++ 8.0
affected:
version 2.3.5
affected: fahash_create2.cpp
description:
- Made more details to report seek failure
version 2.3.4
affected: re-PCR_main.cpp, fahash_main.cpp
description:
- Minor changes to progress reporting
version 2.3.3
affected: e-PCR_main.cpp (forward e-PCR) output
description:
- Attention: Hit positions do not include floppy tails anymore
- TODO: same with reverse e-PCR
- Fixed typo in BUILD.*
version 2.3.2
affected: stsmatch_i.?pp, e-PCR_main.cpp (forward e-PCR)
description:
- Progress indication is more detailed and controlled
version 2.3.1
affected: sts_i.hpp, stsmatch_m.?pp (forward e-PCR)
description:
- Bugfix: some hits were lost with large margin
- Bugfix: re-PCR for win32 now works again
- Can read primers from file
version 2.3.0
affected: sts_i.hpp, stsmatch_m.?pp (forward e-PCR)
description:
- Support for overhang nucleotides in primers as masked characters
version 2.2.3
affected: Makefiles
description:
- Compiling under Mac OS X
version 2.2.2
affected: API, re-PCR, e-PCR, commandline
description:
- Better consistency for misalignments found and alignments shown
version 2.2.1
affected: API, re-PCR, commandline
description:
- New output for re-PCR is available (with alignments)
version 2.2.0
affected: Building, API, data format, e-PCR, re-PCR, commandline
description:
- API: Alignment now is performed by IAlign interface
- seqcmp class is obsolete
- Added new alignment method, more presize but slow (fixes bug)
- New output is available, with graphic representation of alignments
version 2.1.0
affected: Building, API, data format, e-PCR, commandline
description:
- e-PCR, re-PCR: fixed bug, that forbidded overlapping primers
- e-PCR : fixed `empty description is shown as to "?"'
- re-PCR : hash file version 2, new build algorithm
new "fahash" program generates hash files
re-PCR is for lookup only
version 2.0.5
affected: Building, e-PCR, famap, commandline
description: All tools are working for windows. Fasta conversion is added.
version 2.0.4
affected: Building
description: Now compileable with Borlang C++ Builder 5.5 for win32
version 2.0.3
affected: commandline parsing, API, defaults
description: Changed defaults for M (Margin); now can be changed from
commandline
version 2.0.2
affected: e-PCR commandline parsing
description: Fixed commandline processing -- compat options are allowed
anywhere
version 2.0.1
affected: API
description: independent report for left and right primer misalignments
in forward e-pcr API
|
