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Armin Sobhani
bioseq
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b922fe699955072573bfa274ff64d797418d1244
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buffer_io
master
default
new_buffer_io
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Created with Raphaël 2.2.0
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add perf_stl_complement benchmark
master
master
add sequence_host benchmark using Google benchmark
buffer_io
buffer_io
add constructor for inserting count default-inserterd instances to sequence_host class for benchmarking reverse complement algorithm
change to use boost::container for sc example
new_buffer_io
new_buffer_io
fix a bug in fasta file format for sequences larger than 16K buffer
add correct handling of sequence name in cases cut by the end of buffer to fasta file format
change fasta file format to store buffer rather than sequences for each invocation
change all unit tests and samples to be in conformance with new template interface for allocator
change sequence interface to be compatible with boost::container::allocator
change buffer size from 16K to 32K for fasta file format
fix some commented code in fasta file format
clean the code for fasta file format
fix compilation problem on Windows
change copy/move assignment operators to use base container class functions
add range constructor to the sequence_host class, no unit test yet
add some array reservation to fasta for speedup
change fasta implementation using queue - not debugged fully
add noexcept to sequence move assignmnet operator
fix compilation problem with std::ios_base::seekdir on some platforms
add mapped file sample to sc.cpp
add constructor to create a sequence with count elements
change all _MSC_VER macros to _WIN32
fix problem in building tests and benchmarks
fix some problem under Windows
add special handling of mapped file for fasta format
do some housekeeping in sc.cpp
add mapped_file samples to sc.cpp
use of file_descriptor_source for reading from the standard input instead of std::cin
add code to sc example for reading gzip compressed fasta files
change fasta file format to use stream buffers
make fasta reading of large files faster by a factor of two
add more optimization to fasta reader
make new fasta file format to work with files larger than 16K
fix -O3 warning on MSVC
make new fasta file format to work with files less than 16384 bytes. does not work with larger files yet.
add sc example
remove boost.compute samples by default
add perf_bc_reverse_complement.cpp
add sub-range function overload to sequence_host class along with unit tests
change unit test name from complement_overright to in_place_complement
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