| 24f2777 | nshabani | 06 September 2022, 18:38:23 UTC | Add ntCard refactor binaries | 06 September 2022, 18:38:23 UTC |
| 3480a57 | parham-k | 22 June 2022, 23:14:04 UTC | Merge branch 'refactor' of github.com:bcgsc/ntCard into refactor | 22 June 2022, 23:14:04 UTC |
| 5f4f341 | parham-k | 22 June 2022, 23:10:03 UTC | Fix error when sequence length is smaller than k | 22 June 2022, 23:10:03 UTC |
| c2970d8 | Parham Kazemi | 22 June 2022, 02:47:15 UTC | Update sampling bit count | 22 June 2022, 02:47:15 UTC |
| 5a6e746 | Parham Kazemi | 22 June 2022, 02:15:37 UTC | Fix array size bug | 22 June 2022, 02:15:37 UTC |
| f046913 | Parham Kazemi | 22 June 2022, 02:06:32 UTC | Fix count array initialization bug | 22 June 2022, 02:06:32 UTC |
| 3ab608a | Parham Kazemi | 22 June 2022, 01:29:15 UTC | Fix seeds arg priority | 22 June 2022, 01:29:15 UTC |
| 90a46bc | Parham Kazemi | 22 June 2022, 01:21:12 UTC | Fix output coverage column | 22 June 2022, 01:21:12 UTC |
| ffd19c6 | Parham Kazemi | 22 June 2022, 01:09:29 UTC | Fix count array bug | 22 June 2022, 01:09:29 UTC |
| a6dbd20 | Parham Kazemi | 21 June 2022, 23:46:37 UTC | Fix min number of threads | 21 June 2022, 23:46:37 UTC |
| 154f190 | Parham Kazemi | 21 June 2022, 21:52:40 UTC | Code refactor | 21 June 2022, 21:52:40 UTC |
| 9433d03 | vlad0x00 | 05 January 2022, 21:31:33 UTC | Update formatting | 05 January 2022, 21:31:33 UTC |
| ce71f5e | vlad0x00 | 05 January 2022, 21:24:40 UTC | Update whitespace formatting | 05 January 2022, 21:24:40 UTC |
| 9b345c3 | vlad0x00 | 05 January 2022, 21:13:54 UTC | Update .gitignore and CI | 05 January 2022, 21:13:54 UTC |
| 7e9e498 | vlad0x00 | 05 January 2022, 21:06:20 UTC | clang-format ntcard.cpp | 05 January 2022, 21:06:20 UTC |
| e614868 | vlad0x00 | 05 January 2022, 20:53:19 UTC | Update CI and add .gitignore | 05 January 2022, 20:53:19 UTC |
| 46457d3 | Vladimir Nikolić | 05 January 2022, 20:47:11 UTC | Merge pull request #52 from emollier/32bits compatibility with 32 bit platforms | 05 January 2022, 20:47:11 UTC |
| d41be49 | Étienne Mollier | 16 June 2021, 18:48:17 UTC | hm, sounds like lines went too long using uint64_t should probably be both more concise and less ambiguous than any of size_t or unsigned long long. | 16 June 2021, 18:48:17 UTC |
| 8605752 | Étienne Mollier | 16 June 2021, 18:19:11 UTC | fix test suite discrepancies on 32 bit Some differencies showed up in some of the tests. It turned out that some more overflows are occurring, but were not caught at build time. These adjustments allow the test suite to pass again. There are no changes of behavior on 64 bit platforms. | 16 June 2021, 18:19:11 UTC |
| 5423687 | Étienne Mollier | 16 June 2021, 16:48:15 UTC | change totalSize type from size_t to ull totalSize is compared against a value of 50 billion. On 32 bits cpu architectures, a size_t is an unsigned int effectively 32 bits wide, per definition of size_t. However the integer would have overflown already at 5 billion. On 64 bits cpu architecture, the size_t matches effectively the type of an unsigned long long, so aligning to that type avoids the overflow. The issue has been caught initially by Adrian Bunk, from the Debian QA group, on Debian bug #989855[1]. [1]: https://bugs.debian.org/989855 | 16 June 2021, 16:48:15 UTC |
| 5fb4327 | Hamid Mohamadi | 10 June 2021, 23:52:32 UTC | Merge pull request #51 from taylorreiter/master add description of output to README | 10 June 2021, 23:52:32 UTC |
| 62c04d1 | Taylor Reiter | 10 June 2021, 18:59:08 UTC | add description of output | 10 June 2021, 18:59:08 UTC |
| dbe4b3c | Johnathan Wong | 22 April 2021, 16:09:21 UTC | ntcard.cpp: update low kmer sample check to evaluate entire expression (#49) | 22 April 2021, 16:09:21 UTC |
| c4aa22e | Johnathan Wong | 25 September 2020, 23:47:52 UTC | release 1.2.2 (#45) * release 1.2.2 * ChangeLog: update 1.2.2 date | 25 September 2020, 23:47:52 UTC |
| ea3be3e | Johnathan Wong | 25 September 2020, 21:46:19 UTC | azure: add more tests (#42) * azure: add more tests * azure: fix job name * azure: add macOS tests * azure: fix openmp with macOS * azure: update flags * azure: try openmp * azure: remove macOS | 25 September 2020, 21:46:19 UTC |
| 4f822d7 | Johnathan Wong | 25 September 2020, 18:57:06 UTC | ntcard.cpp: remove unnecessary type cast | 25 September 2020, 19:36:25 UTC |
| d70137a | Johnathan Wong | 25 September 2020, 19:01:09 UTC | azure: force symlink | 25 September 2020, 19:16:31 UTC |
| 92c54e7 | Hamid Mohamadi | 08 May 2020, 13:22:12 UTC | change copyright year | 08 May 2020, 13:22:12 UTC |
| ff66c06 | Hamid Mohamadi | 08 May 2020, 13:16:09 UTC | Update ntCard download link | 08 May 2020, 13:16:09 UTC |
| 5df34d8 | Hamid Mohamadi | 27 April 2020, 18:15:09 UTC | Update README.md Fixed download link. | 27 April 2020, 18:15:09 UTC |
| 2efa79c | Hamid Mohamadi | 27 April 2020, 18:08:15 UTC | Update README.md Added ntCard logo, bioconda install link | 27 April 2020, 18:08:15 UTC |
| 3bba9a8 | Hamid Mohamadi | 27 April 2020, 18:04:27 UTC | Add files via upload | 27 April 2020, 18:04:27 UTC |
| df968ff | Hamid Mohamadi | 25 March 2020, 14:31:58 UTC | Update year | 25 March 2020, 14:31:58 UTC |
| 741c941 | Johnathan Wong | 27 January 2020, 22:56:49 UTC | release 1.2.1 (#40) * release 1.2.1 * ChangeLog: update version number Co-Authored-By: Lauren Coombe <lauren.e.coombe@gmail.com> Co-authored-by: Lauren Coombe <lauren.e.coombe@gmail.com> | 27 January 2020, 22:56:49 UTC |
| b14e327 | Johnathan Wong | 27 January 2020, 22:42:42 UTC | CI: add fa file tests (#39) | 27 January 2020, 22:42:42 UTC |
| 8ebca4a | mohamadi | 27 January 2020, 21:06:35 UTC | Fixing bug in new version FASTA file processing | 27 January 2020, 21:06:35 UTC |
| b6de758 | kmnip | 25 January 2020, 07:03:34 UTC | bump version number | 25 January 2020, 07:03:34 UTC |
| e8d401c | Johnathan Wong | 24 January 2020, 23:25:27 UTC | release 1.2.0 (#37) | 24 January 2020, 23:25:27 UTC |
| e2eafd5 | Johnathan Wong | 24 January 2020, 22:42:01 UTC | Count Gap Seed (#30) * add gap seed estimation * nthash.hpp: revert changes to table * ntcard.hpp: fix format * ntcard.hpp: remove comment * ntcard.hpp: break when multiple is specified with -g * ntcard.cpp: gap seed for fa and sam * ntcard: update headers * ntcard: clang-formatted * vendor: undo changes * Common: remove stHashIterator * configure.ac: revert * vendor/Makefile.am: add stHashIterator.hpp * Makefile.am: remove m4 * vendor: undo changes * ntcard: c++03 compliant * clang-format: c++03 compliant * clang-format: correct syntax * clang-format: capitalization * ntcard: remove empty line * add gap seed test | 24 January 2020, 22:42:01 UTC |
| 24d35c0 | Johnathan Wong | 23 January 2020, 17:22:40 UTC | use ntHash 2.1.0 (#36) * The files in ntHash come from: https://github.com/bcgsc/ntHash Release 2.1.0 Downloaded using https://github.com/bcgsc/ntHash/archive/2.1.0.zip * ntcard.cpp: use new ntHashIterator * set up make distcheck CI * azure: run make distcheck * add Makefile needed for make distcheck * Makefile.am: clean up downloaded files * Makefile.am: add rm to code * Makefile.am: use tabs * Common: remove nthash.hpp * Makefile.am: remove Common/nthash.hpp * Common: remove ntHashIterator.hpp * nthll.cpp: use vendored ntHashIterator.hpp * Makefile.am: revert to previous ordering * vendor/Makefile.am: add nthash.hpp | 23 January 2020, 17:22:40 UTC |
| 8eb710f | Hamid Mohamadi | 22 January 2020, 14:34:15 UTC | Merge pull request #35 from bcgsc/low_kmer_check ntcard: fix edge case of no kmer sampled | 22 January 2020, 14:34:15 UTC |
| ae1d153 | Johnathan Wong | 22 January 2020, 00:17:05 UTC | ntcard: fix edge case of no kmer sampled | 22 January 2020, 00:17:05 UTC |
| ed026f4 | Johnathan Wong | 16 January 2020, 00:44:37 UTC | azure: add display name | 16 January 2020, 16:54:14 UTC |
| ba3e4d2 | Johnathan Wong | 16 January 2020, 00:41:47 UTC | add clang-format specification | 16 January 2020, 16:54:14 UTC |
| 5bc0192 | Johnathan Wong | 16 January 2020, 00:39:11 UTC | clang-formatted ntcard.cpp | 16 January 2020, 16:54:14 UTC |
| beba4f4 | Johnathan Wong | 16 January 2020, 00:16:54 UTC | add rna integration test | 16 January 2020, 00:25:21 UTC |
| 9f53364 | Johnathan Wong | 15 January 2020, 23:24:40 UTC | Merge pull request #32 from bcgsc/integration_test Integration test | 15 January 2020, 23:24:40 UTC |
| fbe5a31 | Johnathan Wong | 15 January 2020, 23:20:50 UTC | azure: remove unecessary code | 15 January 2020, 23:20:50 UTC |
| 36b91df | Johnathan Wong | 15 January 2020, 23:20:09 UTC | add integration test | 15 January 2020, 23:20:09 UTC |
| 0863ce9 | Johnathan Wong | 15 January 2020, 22:50:06 UTC | Merge pull request #31 from bcgsc/azure-pipelines Set up CI with Azure Pipelines | 15 January 2020, 22:50:06 UTC |
| ef5699b | Johnathan Wong | 15 January 2020, 22:43:30 UTC | azure: remove distcheck | 15 January 2020, 22:43:30 UTC |
| 48b4325 | Johnathan Wong | 15 January 2020, 22:40:43 UTC | azure: add compilation | 15 January 2020, 22:40:43 UTC |
| d3752db | Lauren Coombe | 15 January 2020, 21:52:30 UTC | Set up CI with Azure Pipelines [skip ci] | 15 January 2020, 21:52:30 UTC |
| d6f832b | kmnip | 10 December 2019, 23:55:52 UTC | fixes support for uracil bases | 10 December 2019, 23:55:52 UTC |
| 2a48882 | mohamadi | 25 October 2019, 21:11:25 UTC | Supporting Uracil for RNA-seq data | 25 October 2019, 21:11:25 UTC |
| cdf62de | mohamadi | 10 February 2019, 20:46:05 UTC | nthash.hpp: added precomputed seed for faster rolling | 10 February 2019, 20:46:05 UTC |
| 67f6e76 | mohamadi | 16 October 2018, 18:59:16 UTC | Modified README with mandatory prefix/output option | 16 October 2018, 18:59:16 UTC |
| dd4aea4 | mohamadi | 16 October 2018, 18:45:40 UTC | Fixing bugs and typos and updatig help and version messages | 16 October 2018, 18:45:40 UTC |
| c9e66cc | mohamadi | 12 October 2018, 22:15:45 UTC | README and version updated to 1.1.0 | 12 October 2018, 22:15:45 UTC |
| 0272ffb | mohamadi | 04 October 2018, 21:50:31 UTC | Added option for output to a single file | 04 October 2018, 21:50:31 UTC |
| a8105d9 | mohamadi | 04 September 2018, 04:39:06 UTC | nthash.hpp: Increased periodicity of ntHash | 04 September 2018, 04:39:06 UTC |
| e3feb96 | mohamadi | 13 April 2018, 01:07:45 UTC | Print error for FASTA/FASTQ file without header | 13 April 2018, 01:07:45 UTC |
| 9cc1dcf | Shaun Jackman | 01 March 2018, 23:31:19 UTC | brew install brewsci/bio/ntcard | 01 March 2018, 23:34:44 UTC |
| 801b16d | mohamadi | 29 January 2018, 15:54:39 UTC | Updated date | 29 January 2018, 15:54:39 UTC |
| e587d4d | Hamid Mohamadi | 31 December 2017, 16:50:56 UTC | Update README.md | 31 December 2017, 16:50:56 UTC |
| 7a4bcc2 | Hamid Mohamadi | 29 December 2017, 22:26:05 UTC | Update README.md | 29 December 2017, 22:26:05 UTC |
| a3598bd | Hamid Mohamadi | 29 December 2017, 22:25:31 UTC | Update README.md | 29 December 2017, 22:25:31 UTC |
| 4c4412a | mohamadi | 28 November 2017, 22:16:40 UTC | configure.ac: updating ntcard version | 28 November 2017, 22:16:40 UTC |
| fb05b32 | mohamadi | 17 August 2017, 16:44:37 UTC | Changing License to MIT | 17 August 2017, 16:44:37 UTC |
| 4a15865 | Hamid Mohamadi | 17 August 2017, 16:38:47 UTC | Delete COPYRIGHT | 17 August 2017, 16:38:47 UTC |
| 73dba86 | mohamadi | 17 August 2017, 16:37:52 UTC | Changing license from GPLv3 to MIT License | 17 August 2017, 16:37:52 UTC |
| 1cf3557 | mohamadi | 09 August 2017, 17:56:41 UTC | Checking user set required -k parameter | 09 August 2017, 17:56:41 UTC |
| e694ac8 | mohamadi | 25 July 2017, 09:24:24 UTC | nthash.hpp: improving rotate ops | 25 July 2017, 09:24:24 UTC |
| c5a5fb2 | mohamadi | 28 April 2017, 16:21:33 UTC | updated citation | 28 April 2017, 16:21:33 UTC |
| 7132d77 | mohamadi | 20 April 2017, 23:57:33 UTC | ntcard.cpp: fixing the bug to pass more than 15 k values | 20 April 2017, 23:57:33 UTC |
| f50f8d1 | mohamadi | 31 March 2017, 17:10:03 UTC | nthash.hpp: formatted | 31 March 2017, 17:10:03 UTC |
| ea75b66 | mohamadi | 29 March 2017, 18:52:30 UTC | nthll, ntcard: remove extra line | 29 March 2017, 18:52:30 UTC |
| ff76406 | mohamadi | 29 March 2017, 18:48:43 UTC | ntcard.cpp: set --cov to 65535 | 29 March 2017, 18:48:43 UTC |
| a3cc209 | Hamid Mohamadi | 26 February 2017, 19:16:02 UTC | Update README: specify prefix for output file | 26 February 2017, 19:16:02 UTC |
| a361732 | mohamadi | 26 February 2017, 19:06:06 UTC | Added feature: specify prefix for output histogram files | 26 February 2017, 19:06:06 UTC |
| 15ce07e | Hamid Mohamadi | 02 February 2017, 22:39:42 UTC | Update configure.ac | 02 February 2017, 22:39:42 UTC |
| c7e9f88 | mohamadi | 02 February 2017, 19:21:58 UTC | Make -O3 defualt in configure.ac | 02 February 2017, 19:21:58 UTC |
| 73c2f3a | mohamadi | 31 January 2017, 22:43:28 UTC | Added inline to all functions | 31 January 2017, 22:43:28 UTC |
| 3d1b07b | mohamadi | 19 January 2017, 01:05:25 UTC | Makefile.am: included StringUtil.h | 19 January 2017, 01:05:25 UTC |
| dd1b886 | Hamid Mohamadi | 11 January 2017, 22:17:17 UTC | Update README.md | 11 January 2017, 22:17:17 UTC |
| de4252d | Hamid Mohamadi | 11 January 2017, 21:01:42 UTC | Update README.md | 11 January 2017, 21:01:42 UTC |
| 86d28c1 | Hamid Mohamadi | 11 January 2017, 20:56:14 UTC | Update README.md | 11 January 2017, 20:56:14 UTC |
| 88f0622 | mohamadi | 11 January 2017, 20:49:53 UTC | Autotools version | 11 January 2017, 20:49:53 UTC |
| 7eda6f8 | Hamid Mohamadi | 08 January 2017, 19:16:36 UTC | Update README.md | 08 January 2017, 19:16:36 UTC |
| 9a328dc | Hamid Mohamadi | 22 December 2016, 20:40:56 UTC | Update README.md | 22 December 2016, 20:40:56 UTC |
| 38d21c1 | mohamadi | 22 December 2016, 20:32:26 UTC | made code C++14 friendly | 22 December 2016, 20:32:26 UTC |
| 8be737f | mohamadi | 22 December 2016, 20:20:30 UTC | Added multiple k option | 22 December 2016, 20:20:30 UTC |
| 1789808 | Hamid Mohamadi | 06 December 2016, 20:45:38 UTC | Update README.md | 06 December 2016, 20:45:38 UTC |
| 189c34c | Hamid Mohamadi | 06 December 2016, 20:22:17 UTC | Update README.md | 06 December 2016, 20:22:17 UTC |
| 83319cd | mohamadi | 04 November 2016, 23:29:45 UTC | Added COPYRIGHT | 04 November 2016, 23:29:45 UTC |
| 2ff88f3 | Hamid Mohamadi | 04 November 2016, 17:10:37 UTC | Update LICENSE | 04 November 2016, 17:10:37 UTC |
| 1057d5e | Hamid Mohamadi | 03 November 2016, 21:21:14 UTC | Delete COPYRIGHT | 03 November 2016, 21:21:14 UTC |
| feb151e | Hamid Mohamadi | 03 November 2016, 20:52:23 UTC | Update README.md | 03 November 2016, 20:52:23 UTC |
| d6a5b67 | Hamid Mohamadi | 03 November 2016, 18:59:36 UTC | Update LICENSE | 03 November 2016, 18:59:36 UTC |
| 30b0cbc | Hamid Mohamadi | 03 November 2016, 18:14:11 UTC | Update LICENSE | 03 November 2016, 18:14:11 UTC |
