diff --git a/LICENSE b/LICENSE index 5d5e5f464..1b1d06d03 100644 --- a/LICENSE +++ b/LICENSE @@ -3,7 +3,7 @@ according to the terms of the following MIT/Expat license.] The MIT/Expat License -Copyright (C) 2012-2025 Genome Research Ltd. +Copyright (C) 2012-2026 Genome Research Ltd. Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal @@ -29,7 +29,7 @@ according to the terms of the following Modified 3-Clause BSD license.] The Modified-BSD License -Copyright (C) 2012-2025 Genome Research Ltd. +Copyright (C) 2012-2026 Genome Research Ltd. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: diff --git a/Makefile b/Makefile index 8125d3aaa..56b7c6964 100644 --- a/Makefile +++ b/Makefile @@ -1,6 +1,6 @@ # Makefile for htslib, a C library for high-throughput sequencing data formats. # -# Copyright (C) 2013-2025 Genome Research Ltd. +# Copyright (C) 2013-2026 Genome Research Ltd. # # Author: John Marshall # diff --git a/annot-tsv.c b/annot-tsv.c index 7c657b777..154a65135 100644 --- a/annot-tsv.c +++ b/annot-tsv.c @@ -991,7 +991,7 @@ int main(int argc, char **argv) case 1 : printf( "annot-tsv (htslib) %s\n" -"Copyright (C) 2025 Genome Research Ltd.\n", hts_version()); +"Copyright (C) 2026 Genome Research Ltd.\n", hts_version()); return EXIT_SUCCESS; break; case 2 : diff --git a/bcf_sr_sort.c b/bcf_sr_sort.c index ad0d1813b..6c2033f56 100644 --- a/bcf_sr_sort.c +++ b/bcf_sr_sort.c @@ -1,5 +1,5 @@ /* - Copyright (C) 2017-2021,2024 Genome Research Ltd. + Copyright (C) 2017-2021,2024, 2026 Genome Research Ltd. Author: Petr Danecek diff --git a/bgzf.c b/bgzf.c index b79a09d91..bf5e331e7 100644 --- a/bgzf.c +++ b/bgzf.c @@ -2,7 +2,7 @@ Copyright (c) 2008 Broad Institute / Massachusetts Institute of Technology 2011, 2012 Attractive Chaos - Copyright (C) 2009, 2013-2025 Genome Research Ltd + Copyright (C) 2009, 2013-2026 Genome Research Ltd Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal diff --git a/bgzip.c b/bgzip.c index eda601e97..4bae99224 100644 --- a/bgzip.c +++ b/bgzip.c @@ -268,7 +268,7 @@ int main(int argc, char **argv) case 1: printf( "bgzip (htslib) %s\n" -"Copyright (C) 2025 Genome Research Ltd.\n", hts_version()); +"Copyright (C) 2026 Genome Research Ltd.\n", hts_version()); return EXIT_SUCCESS; case 2: binary = 1; break; case 'h': return bgzip_main_usage(stdout, EXIT_SUCCESS); diff --git a/config.mk.in b/config.mk.in index 38bafce3e..d8d261f4b 100644 --- a/config.mk.in +++ b/config.mk.in @@ -1,6 +1,6 @@ # Optional configure Makefile overrides for htslib. # -# Copyright (C) 2015-2017, 2019, 2023 Genome Research Ltd. +# Copyright (C) 2015-2017, 2019, 2023, 2025 Genome Research Ltd. # # Author: John Marshall # diff --git a/configure.ac b/configure.ac index 8e39bc5e3..399e506de 100644 --- a/configure.ac +++ b/configure.ac @@ -1,6 +1,6 @@ # Configure script for htslib, a C library for high-throughput sequencing data. # -# Copyright (C) 2015-2025 Genome Research Ltd. +# Copyright (C) 2015-2026 Genome Research Ltd. # # Author: John Marshall # @@ -35,7 +35,7 @@ m4_include([m4/hts_hide_dynamic_syms.m4]) m4_include([m4/pkg.m4]) dnl Copyright notice to be copied into the generated configure script -AC_COPYRIGHT([Portions copyright (C) 2020-2025 Genome Research Ltd. +AC_COPYRIGHT([Portions copyright (C) 2020-2026 Genome Research Ltd. This configure script is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law.]) diff --git a/cram/cram_codecs.h b/cram/cram_codecs.h index 76f36271f..f6fc43220 100644 --- a/cram/cram_codecs.h +++ b/cram/cram_codecs.h @@ -1,5 +1,5 @@ /* -Copyright (c) 2012-2015, 2018, 2020, 2023 Genome Research Ltd. +Copyright (c) 2012-2015, 2018, 2020, 2023, 2026 Genome Research Ltd. Author: James Bonfield Redistribution and use in source and binary forms, with or without diff --git a/cram/cram_encode.c b/cram/cram_encode.c index cb54a6f4c..28f0f236e 100644 --- a/cram/cram_encode.c +++ b/cram/cram_encode.c @@ -1,5 +1,5 @@ /* -Copyright (c) 2012-2020, 2022-2025 Genome Research Ltd. +Copyright (c) 2012-2020, 2022-2026 Genome Research Ltd. Author: James Bonfield Redistribution and use in source and binary forms, with or without diff --git a/cram/cram_index.c b/cram/cram_index.c index 0bc80d022..2b76690bf 100644 --- a/cram/cram_index.c +++ b/cram/cram_index.c @@ -1,5 +1,5 @@ /* -Copyright (c) 2013-2020, 2023-2024 Genome Research Ltd. +Copyright (c) 2013-2020, 2023-2024, 2026 Genome Research Ltd. Author: James Bonfield Redistribution and use in source and binary forms, with or without diff --git a/cram/cram_io.c b/cram/cram_io.c index 6650eb027..ad3ee838d 100644 --- a/cram/cram_io.c +++ b/cram/cram_io.c @@ -1,5 +1,5 @@ /* -Copyright (c) 2012-2025 Genome Research Ltd. +Copyright (c) 2012-2026 Genome Research Ltd. Author: James Bonfield Redistribution and use in source and binary forms, with or without diff --git a/cram/cram_stats.c b/cram/cram_stats.c index 2d70c8bd2..0ee8b14a7 100644 --- a/cram/cram_stats.c +++ b/cram/cram_stats.c @@ -1,5 +1,5 @@ /* -Copyright (c) 2012-2014, 2016, 2018, 2020 Genome Research Ltd. +Copyright (c) 2012-2014, 2016, 2018, 2020, 2026 Genome Research Ltd. Author: James Bonfield Redistribution and use in source and binary forms, with or without diff --git a/cram/cram_structs.h b/cram/cram_structs.h index 2d5f4f8af..da4de3907 100644 --- a/cram/cram_structs.h +++ b/cram/cram_structs.h @@ -1,5 +1,5 @@ /* -Copyright (c) 2012-2016, 2018-2020, 2023 Genome Research Ltd. +Copyright (c) 2012-2016, 2018-2020, 2023, 2026 Genome Research Ltd. Author: James Bonfield Redistribution and use in source and binary forms, with or without diff --git a/cram/string_alloc.c b/cram/string_alloc.c index 567083656..021e7f1cb 100644 --- a/cram/string_alloc.c +++ b/cram/string_alloc.c @@ -1,5 +1,5 @@ /* -Copyright (c) 2010, 2013, 2018-2019 Genome Research Ltd. +Copyright (c) 2010, 2013, 2018-2019, 2026 Genome Research Ltd. Author: Andrew Whitwham Redistribution and use in source and binary forms, with or without diff --git a/faidx.c b/faidx.c index c1db6ef1c..ee1878c34 100644 --- a/faidx.c +++ b/faidx.c @@ -1,6 +1,6 @@ /* faidx.c -- FASTA and FASTQ random access. - Copyright (C) 2008, 2009, 2013-2020, 2022, 2024 Genome Research Ltd. + Copyright (C) 2008, 2009, 2013-2020, 2022, 2024, 2026 Genome Research Ltd. Portions copyright (C) 2011 Broad Institute. Author: Heng Li diff --git a/header.c b/header.c index 627f64b98..cabf81ca5 100644 --- a/header.c +++ b/header.c @@ -1,5 +1,5 @@ /* -Copyright (c) 2018-2020, 2023, 2025 Genome Research Ltd. +Copyright (c) 2018-2020, 2023, 2025-2026 Genome Research Ltd. Authors: James Bonfield , Valeriu Ohan Redistribution and use in source and binary forms, with or without diff --git a/hfile.c b/hfile.c index 097085353..8d749685b 100644 --- a/hfile.c +++ b/hfile.c @@ -1,6 +1,6 @@ /* hfile.c -- buffered low-level input/output streams. - Copyright (C) 2013-2021, 2023-2024 Genome Research Ltd. + Copyright (C) 2013-2021, 2023-2025 Genome Research Ltd. Author: John Marshall diff --git a/hfile_libcurl.c b/hfile_libcurl.c index a82ee1863..f32156604 100644 --- a/hfile_libcurl.c +++ b/hfile_libcurl.c @@ -1,6 +1,6 @@ /* hfile_libcurl.c -- libcurl backend for low-level file streams. - Copyright (C) 2015-2017, 2019-2020 Genome Research Ltd. + Copyright (C) 2015-2017, 2019-2020, 2026 Genome Research Ltd. Author: John Marshall diff --git a/hfile_s3.c b/hfile_s3.c index f64bc70e4..7f629f736 100644 --- a/hfile_s3.c +++ b/hfile_s3.c @@ -1,6 +1,6 @@ /* hfile_s3.c -- Amazon S3 backend for low-level file streams. - Copyright (C) 2015-2017, 2019-2025 Genome Research Ltd. + Copyright (C) 2015-2017, 2019-2026 Genome Research Ltd. Author: John Marshall diff --git a/hts.c b/hts.c index bb16cdff4..571969cec 100644 --- a/hts.c +++ b/hts.c @@ -1,6 +1,6 @@ /* hts.c -- format-neutral I/O, indexing, and iterator API functions. - Copyright (C) 2008, 2009, 2012-2025 Genome Research Ltd. + Copyright (C) 2008, 2009, 2012-2026 Genome Research Ltd. Copyright (C) 2012, 2013 Broad Institute. Author: Heng Li diff --git a/htsfile.c b/htsfile.c index 33c979900..436abe084 100644 --- a/htsfile.c +++ b/htsfile.c @@ -250,7 +250,7 @@ int main(int argc, char **argv) case 1: printf( "htsfile (htslib) %s\n" -"Copyright (C) 2025 Genome Research Ltd.\n", +"Copyright (C) 2026 Genome Research Ltd.\n", hts_version()); exit(EXIT_SUCCESS); break; diff --git a/htslib/bgzf.h b/htslib/bgzf.h index f2a7655aa..8b4a2dc4a 100644 --- a/htslib/bgzf.h +++ b/htslib/bgzf.h @@ -3,7 +3,7 @@ /* Copyright (c) 2008 Broad Institute / Massachusetts Institute of Technology 2011, 2012 Attractive Chaos - Copyright (C) 2009, 2013, 2014, 2017, 2018-2019, 2022-2024 Genome Research Ltd + Copyright (C) 2009, 2013, 2014, 2017, 2018-2019, 2022-2024, 2026 Genome Research Ltd Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal diff --git a/htslib/hfile.h b/htslib/hfile.h index cbf6bf68e..dc8b3ee6f 100644 --- a/htslib/hfile.h +++ b/htslib/hfile.h @@ -1,7 +1,7 @@ /// @file htslib/hfile.h /// Buffered low-level input/output streams. /* - Copyright (C) 2013-2022 Genome Research Ltd. + Copyright (C) 2013-2022, 2025 Genome Research Ltd. Author: John Marshall diff --git a/htslib/hts_defs.h b/htslib/hts_defs.h index d7942f2d9..d7f7b612b 100644 --- a/htslib/hts_defs.h +++ b/htslib/hts_defs.h @@ -1,6 +1,6 @@ /* hts_defs.h -- Miscellaneous definitions. - Copyright (C) 2013-2015,2017, 2019-2020, 2024 Genome Research Ltd. + Copyright (C) 2013-2015,2017, 2019-2020, 2024, 2026 Genome Research Ltd. Author: John Marshall diff --git a/htslib/synced_bcf_reader.h b/htslib/synced_bcf_reader.h index 0599f5353..aafbf4d71 100644 --- a/htslib/synced_bcf_reader.h +++ b/htslib/synced_bcf_reader.h @@ -1,7 +1,7 @@ /// @file htslib/synced_bcf_reader.h /// Stream through multiple VCF files. /* - Copyright (C) 2012-2017, 2019-2025 Genome Research Ltd. + Copyright (C) 2012-2017, 2019-2026 Genome Research Ltd. Author: Petr Danecek diff --git a/htslib/vcf.h b/htslib/vcf.h index 11e5675ab..38971111d 100644 --- a/htslib/vcf.h +++ b/htslib/vcf.h @@ -2,7 +2,7 @@ /// High-level VCF/BCF variant calling file operations. /* Copyright (C) 2012, 2013 Broad Institute. - Copyright (C) 2012-2020, 2022-2025 Genome Research Ltd. + Copyright (C) 2012-2020, 2022-2026 Genome Research Ltd. Author: Heng Li diff --git a/kstring.c b/kstring.c index ba9d9664e..8150cd2ae 100644 --- a/kstring.c +++ b/kstring.c @@ -1,7 +1,7 @@ /* The MIT License Copyright (C) 2011 by Attractive Chaos - Copyright (C) 2013-2018, 2020-2021, 2023, 2025 Genome Research Ltd. + Copyright (C) 2013-2018, 2020-2021, 2023, 2025-2026 Genome Research Ltd. Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the diff --git a/ref_cache/poll_wrap_poll.c b/ref_cache/poll_wrap_poll.c index 5631b339c..96b2f4e0d 100644 --- a/ref_cache/poll_wrap_poll.c +++ b/ref_cache/poll_wrap_poll.c @@ -1,6 +1,6 @@ /* poll_wrap_poll.c -- ref-cache wrapper around poll - Copyright (C) 2025 Genome Research Ltd. + Copyright (C) 2025-2026 Genome Research Ltd. Author: Rob Davies diff --git a/sam.c b/sam.c index 09067fbb7..e64dad276 100644 --- a/sam.c +++ b/sam.c @@ -1,6 +1,6 @@ /* sam.c -- SAM and BAM file I/O and manipulation. - Copyright (C) 2008-2010, 2012-2025 Genome Research Ltd. + Copyright (C) 2008-2010, 2012-2026 Genome Research Ltd. Copyright (C) 2010, 2012, 2013 Broad Institute. Author: Heng Li diff --git a/synced_bcf_reader.c b/synced_bcf_reader.c index 6353ea824..6d21ac723 100644 --- a/synced_bcf_reader.c +++ b/synced_bcf_reader.c @@ -1,6 +1,6 @@ /* synced_bcf_reader.c -- stream through multiple VCF files. - Copyright (C) 2012-2023, 2025 Genome Research Ltd. + Copyright (C) 2012-2023, 2025-2026 Genome Research Ltd. Author: Petr Danecek diff --git a/tabix.1 b/tabix.1 index 433eb55db..cfb103bf9 100644 --- a/tabix.1 +++ b/tabix.1 @@ -4,7 +4,7 @@ tabix \- Generic indexer for TAB-delimited genome position files .\" .\" Copyright (C) 2009-2011 Broad Institute. -.\" Copyright (C) 2014, 2016, 2018, 2020, 2022, 2024 Genome Research Ltd. +.\" Copyright (C) 2014, 2016, 2018, 2020, 2022, 2024, 2026 Genome Research Ltd. .\" .\" Author: Heng Li .\" diff --git a/tabix.c b/tabix.c index eda5fd249..fbac493f6 100644 --- a/tabix.c +++ b/tabix.c @@ -1,7 +1,7 @@ /* tabix.c -- Generic indexer for TAB-delimited genome position files. Copyright (C) 2009-2011 Broad Institute. - Copyright (C) 2010-2012, 2014-2020, 2024 Genome Research Ltd. + Copyright (C) 2010-2012, 2014-2020, 2024, 2026 Genome Research Ltd. Author: Heng Li @@ -734,7 +734,7 @@ int main(int argc, char *argv[]) case 1: printf( "tabix (htslib) %s\n" -"Copyright (C) 2025 Genome Research Ltd.\n", hts_version()); +"Copyright (C) 2026 Genome Research Ltd.\n", hts_version()); return EXIT_SUCCESS; case 2: return usage(stdout, EXIT_SUCCESS); diff --git a/tbx.c b/tbx.c index 60e8c77c1..8b96c568d 100644 --- a/tbx.c +++ b/tbx.c @@ -1,6 +1,6 @@ /* tbx.c -- tabix API functions. - Copyright (C) 2009, 2010, 2012-2015, 2017-2020, 2022-2023, 2025 Genome Research Ltd. + Copyright (C) 2009, 2010, 2012-2015, 2017-2020, 2022-2023, 2025-2026 Genome Research Ltd. Copyright (C) 2010-2012 Broad Institute. Author: Heng Li diff --git a/test/tabix/tabix.tst b/test/tabix/tabix.tst index 906fdef99..fd6c71927 100644 --- a/test/tabix/tabix.tst +++ b/test/tabix/tabix.tst @@ -1,4 +1,4 @@ -# Copyright (C) 2017, 2024 Genome Research Ltd. +# Copyright (C) 2017, 2024, 2026 Genome Research Ltd. # # Author: Robert Davies # diff --git a/test/test.pl b/test/test.pl index 6630d14fb..140ec3d23 100755 --- a/test/test.pl +++ b/test/test.pl @@ -1,6 +1,6 @@ #!/usr/bin/env perl # -# Copyright (C) 2012-2025 Genome Research Ltd. +# Copyright (C) 2012-2026 Genome Research Ltd. # # Author: Petr Danecek # diff --git a/test/test_kstring.c b/test/test_kstring.c index 6f0771ac3..f084e5d71 100644 --- a/test/test_kstring.c +++ b/test/test_kstring.c @@ -1,6 +1,6 @@ /* test_kstring.c -- kstring unit tests - Copyright (C) 2018, 2020, 2024-2025 Genome Research Ltd. + Copyright (C) 2018, 2020, 2024-2026 Genome Research Ltd. Author: Rob Davies diff --git a/vcf.c b/vcf.c index a563878e1..9dadc1c33 100644 --- a/vcf.c +++ b/vcf.c @@ -1,7 +1,7 @@ /* vcf.c -- VCF/BCF API functions. Copyright (C) 2012, 2013 Broad Institute. - Copyright (C) 2012-2025 Genome Research Ltd. + Copyright (C) 2012-2026 Genome Research Ltd. Portions copyright (C) 2014 Intel Corporation. Author: Heng Li