https://github.com/bcgsc/ntCard

sort by:
Revision Author Date Message Commit Date
9433d03 Update formatting 05 January 2022, 21:31:33 UTC
ce71f5e Update whitespace formatting 05 January 2022, 21:24:40 UTC
9b345c3 Update .gitignore and CI 05 January 2022, 21:13:54 UTC
7e9e498 clang-format ntcard.cpp 05 January 2022, 21:06:20 UTC
e614868 Update CI and add .gitignore 05 January 2022, 20:53:19 UTC
46457d3 Merge pull request #52 from emollier/32bits compatibility with 32 bit platforms 05 January 2022, 20:47:11 UTC
d41be49 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 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 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 Merge pull request #51 from taylorreiter/master add description of output to README 10 June 2021, 23:52:32 UTC
62c04d1 add description of output 10 June 2021, 18:59:08 UTC
dbe4b3c ntcard.cpp: update low kmer sample check to evaluate entire expression (#49) 22 April 2021, 16:09:21 UTC
c4aa22e release 1.2.2 (#45) * release 1.2.2 * ChangeLog: update 1.2.2 date 25 September 2020, 23:47:52 UTC
ea3be3e 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 ntcard.cpp: remove unnecessary type cast 25 September 2020, 19:36:25 UTC
d70137a azure: force symlink 25 September 2020, 19:16:31 UTC
92c54e7 change copyright year 08 May 2020, 13:22:12 UTC
ff66c06 Update ntCard download link 08 May 2020, 13:16:09 UTC
5df34d8 Update README.md Fixed download link. 27 April 2020, 18:15:09 UTC
2efa79c Update README.md Added ntCard logo, bioconda install link 27 April 2020, 18:08:15 UTC
3bba9a8 Add files via upload 27 April 2020, 18:04:27 UTC
df968ff Update year 25 March 2020, 14:31:58 UTC
741c941 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 CI: add fa file tests (#39) 27 January 2020, 22:42:42 UTC
8ebca4a Fixing bug in new version FASTA file processing 27 January 2020, 21:06:35 UTC
b6de758 bump version number 25 January 2020, 07:03:34 UTC
e8d401c release 1.2.0 (#37) 24 January 2020, 23:25:27 UTC
e2eafd5 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 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 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 ntcard: fix edge case of no kmer sampled 22 January 2020, 00:17:05 UTC
ed026f4 azure: add display name 16 January 2020, 16:54:14 UTC
ba3e4d2 add clang-format specification 16 January 2020, 16:54:14 UTC
5bc0192 clang-formatted ntcard.cpp 16 January 2020, 16:54:14 UTC
beba4f4 add rna integration test 16 January 2020, 00:25:21 UTC
9f53364 Merge pull request #32 from bcgsc/integration_test Integration test 15 January 2020, 23:24:40 UTC
fbe5a31 azure: remove unecessary code 15 January 2020, 23:20:50 UTC
36b91df add integration test 15 January 2020, 23:20:09 UTC
0863ce9 Merge pull request #31 from bcgsc/azure-pipelines Set up CI with Azure Pipelines 15 January 2020, 22:50:06 UTC
ef5699b azure: remove distcheck 15 January 2020, 22:43:30 UTC
48b4325 azure: add compilation 15 January 2020, 22:40:43 UTC
d3752db Set up CI with Azure Pipelines [skip ci] 15 January 2020, 21:52:30 UTC
d6f832b fixes support for uracil bases 10 December 2019, 23:55:52 UTC
2a48882 Supporting Uracil for RNA-seq data 25 October 2019, 21:11:25 UTC
cdf62de nthash.hpp: added precomputed seed for faster rolling 10 February 2019, 20:46:05 UTC
67f6e76 Modified README with mandatory prefix/output option 16 October 2018, 18:59:16 UTC
dd4aea4 Fixing bugs and typos and updatig help and version messages 16 October 2018, 18:45:40 UTC
c9e66cc README and version updated to 1.1.0 12 October 2018, 22:15:45 UTC
0272ffb Added option for output to a single file 04 October 2018, 21:50:31 UTC
a8105d9 nthash.hpp: Increased periodicity of ntHash 04 September 2018, 04:39:06 UTC
e3feb96 Print error for FASTA/FASTQ file without header 13 April 2018, 01:07:45 UTC
9cc1dcf brew install brewsci/bio/ntcard 01 March 2018, 23:34:44 UTC
801b16d Updated date 29 January 2018, 15:54:39 UTC
e587d4d Update README.md 31 December 2017, 16:50:56 UTC
7a4bcc2 Update README.md 29 December 2017, 22:26:05 UTC
a3598bd Update README.md 29 December 2017, 22:25:31 UTC
4c4412a configure.ac: updating ntcard version 28 November 2017, 22:16:40 UTC
fb05b32 Changing License to MIT 17 August 2017, 16:44:37 UTC
4a15865 Delete COPYRIGHT 17 August 2017, 16:38:47 UTC
73dba86 Changing license from GPLv3 to MIT License 17 August 2017, 16:37:52 UTC
1cf3557 Checking user set required -k parameter 09 August 2017, 17:56:41 UTC
e694ac8 nthash.hpp: improving rotate ops 25 July 2017, 09:24:24 UTC
c5a5fb2 updated citation 28 April 2017, 16:21:33 UTC
7132d77 ntcard.cpp: fixing the bug to pass more than 15 k values 20 April 2017, 23:57:33 UTC
f50f8d1 nthash.hpp: formatted 31 March 2017, 17:10:03 UTC
ea75b66 nthll, ntcard: remove extra line 29 March 2017, 18:52:30 UTC
ff76406 ntcard.cpp: set --cov to 65535 29 March 2017, 18:48:43 UTC
a3cc209 Update README: specify prefix for output file 26 February 2017, 19:16:02 UTC
a361732 Added feature: specify prefix for output histogram files 26 February 2017, 19:06:06 UTC
15ce07e Update configure.ac 02 February 2017, 22:39:42 UTC
c7e9f88 Make -O3 defualt in configure.ac 02 February 2017, 19:21:58 UTC
73c2f3a Added inline to all functions 31 January 2017, 22:43:28 UTC
3d1b07b Makefile.am: included StringUtil.h 19 January 2017, 01:05:25 UTC
dd1b886 Update README.md 11 January 2017, 22:17:17 UTC
de4252d Update README.md 11 January 2017, 21:01:42 UTC
86d28c1 Update README.md 11 January 2017, 20:56:14 UTC
88f0622 Autotools version 11 January 2017, 20:49:53 UTC
7eda6f8 Update README.md 08 January 2017, 19:16:36 UTC
9a328dc Update README.md 22 December 2016, 20:40:56 UTC
38d21c1 made code C++14 friendly 22 December 2016, 20:32:26 UTC
8be737f Added multiple k option 22 December 2016, 20:20:30 UTC
1789808 Update README.md 06 December 2016, 20:45:38 UTC
189c34c Update README.md 06 December 2016, 20:22:17 UTC
83319cd Added COPYRIGHT 04 November 2016, 23:29:45 UTC
2ff88f3 Update LICENSE 04 November 2016, 17:10:37 UTC
1057d5e Delete COPYRIGHT 03 November 2016, 21:21:14 UTC
feb151e Update README.md 03 November 2016, 20:52:23 UTC
d6a5b67 Update LICENSE 03 November 2016, 18:59:36 UTC
30b0cbc Update LICENSE 03 November 2016, 18:14:11 UTC
14cf1e8 Update LICENSE 03 November 2016, 18:12:53 UTC
f37ff6d Update LICENSE 03 November 2016, 17:42:54 UTC
0931eda Update README.md 31 October 2016, 23:19:47 UTC
cd43ba8 Update README.md 31 October 2016, 23:18:18 UTC
434dcb7 Update README.md 31 October 2016, 20:40:58 UTC
76cef0a Update README.md 31 October 2016, 20:31:41 UTC
53d67d7 Update README.md 31 October 2016, 20:27:08 UTC
5cfb4bc Adding GPL-3 License 31 October 2016, 20:13:01 UTC
65a2cd7 Submitted version 31 October 2016, 20:03:02 UTC
9c199bd nthash handles k-mers with nonACGT 20 July 2016, 17:55:50 UTC
97dc3b2 nthist: accepting bam, sam, gz, bz, fasta, fastq format 19 July 2016, 17:52:26 UTC
back to top