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Commits on Jan 6, 2026

• CMakeLists.txt: adding controls for linking and including htslib

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• cmake/FindHTSLIB.cmake: adding

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Commits on Nov 30, 2025

• Makefile.am: Removing QualityScore.hcpp sources

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• QualityScore.hcpp: removing

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• smithlab_os.cpp: adding code from former QualityScore.chpp files

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• README.md: update TODO

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• Merge branch 'master' of github.com:smithlabcode/smithlab_cpp

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• CMakeLists.txt: fix typo

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Commits on Nov 27, 2025

• CMakeLists.txt: minor tweak

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• CMakeLists.txt: disabling static analysis config if not top level / used as submodule; this allows top level to do the config itself

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Commits on Nov 24, 2025

• iwyu.json: allowing sam.h to bring in hts.h and kstring.h

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• htslib_wrapper.hpp: fixing includes for htslib stuff

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Commits on Nov 23, 2025

• adding static analysis config files

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• CMakeLists.txt: adding compile flags and static analysis condition

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• iwyu

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Commits on Nov 4, 2025

• CMakeLists.txt: fixing a bug

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• CMakeLists.txt: adding a CMakeLists.txt file

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• configure.ac: fixing version

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Commits on Aug 13, 2025

• OptionParser.hcpp: added an option to output a program description in raw mode, where all formatting is kept; the default is to make lines wrap at a particular width and turn multiple spaces into a…

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Commits on Jul 6, 2025

• Merge branch 'master' of github.com:smithlabcode/smithlab_cpp

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• OptionParser.hcpp: fixing signature for argv in OptionParser

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Commits on Feb 19, 2025

• Fixing a syntax bug in closing namespace

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Commits on Oct 19, 2024

• OptionParser.cpp: adding code to remove any formatting in terms of space tabs or newlines from the program description before reformatting it

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Commits on Jun 23, 2024

• Merge pull request #49 from smithlabcode/formatting-all-sources

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• Fixing bug in clang-format workflow

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• Running clang-format on all c++ source files

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• Putting guards around parts of source that should not be formatted

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• Merge pull request #48 from smithlabcode/clang-format

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• Adding a workflow to check source code formatting for c++ files

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• Simplifying the .clang-format file for now

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• Adding a .clang-format file for this repo

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• Merge pull request #47 from smithlabcode/update-build-system

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• Separating the user-configurable CXXFLAGS from the built-in AM_CXXFLAGS

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• autogen.sh: adding a script to generate the configure script

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• Adding a check for zlib.h header because it seems this check is needed even if the check for the corresponding library passes.

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