Updating default compiler for static analysis tools - #123

Merged

andrewdavidsmith merged 29 commits into

mainfrom

compiler-update

Sep 2, 2026

Commits on Sep 1, 2026

src/quality_score.hcpp: renaming the to_string function because the adl was doing strange things
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a48b5d3
.cppcheck_suppress: ignoring fmt and ignoring constStatement which seems broken now
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3697635
src/samrec.cpp: adding missing include
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6633d46
src/tile_processor.cpp: renaming variables to avoid shadowing
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c256b39
src/bam_file.hcpp: headers and formatting for new clang-tidy
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7e962a2
src/base_groups.hpp: removing nodiscard on void functions
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d9a4f45
src/sam_file.cpp: adding includes and initializing cursor and last in ctor
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4a8c6f0
src/kmer_counter.hcpp: removing the apply_groups function which isn't used
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cd9127e
src/original_duplicates.cpp: changed loop to alg
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a39a7c8
src/falco_utils.hcpp: fixing nodiscards and an include
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5396c2e
src/falco_analyzer.cpp: adding an include for iwyu that seems wrong and moving n_tasks into a narrower scope
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d39f1df
src/bgzf_reader.cpp: static analysis
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8cc60aa
src/falco_grade.hcpp: making a member function get_tile static and removing always true condition for has_empty_reads
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646cd9c
src/adapter_set.cpp: iterating using itr = next(itr) for now when cleaning lines from config file
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e79f931
src/html.cpp: headers and nolint on optin.cplusplus.UninitObj
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0f5e495
src/fastq_gz_file.cpp: header and nolint on pointer arithmetic
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2163c8f
src/falco_config.cpp: loop to alg
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e3fb8ce
src/fastq_bgzf_file.cpp: loop to alg
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77235a3
src/falco_word.hpp: nolint on array bound
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9320554
src/contaminants.cpp: iterating using itr = next(itr) for now when cleaning lines from contams file
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7524af5
src/contaminants.hpp: adding a header
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ea20a1b
src/fastq_file.cpp: adding headers
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2d181f8
src/adapter_matcher.cpp: nolint and fixing the number of positions output in html when the max read length is very very short
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badab36
src/falco_file_format.hcpp: includes
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37d4a61
src/duplication_results.hpp: explicit on single param constructor
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4ce3f0e
src/duplication_results.cpp: nolint on optin.cplusplus.UninitObj
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dcd8535
src/results_collector.hpp: casting in an assert to avoid side effect of ssize
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cadffe0
src/results_summary.cpp: fixing var name to avoid shadowing
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c26cde0
src/report.cpp: removing include and fixing to_string for encoding to encoding_to_string
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089c478