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• aa31eac682 合并更改（run.sh） main zzh 2023-08-24 14:30:01 +0800
• 79f174cc57 增加run.sh zzh 2023-08-24 14:27:12 +0800
• 74ebd77ce2 增加时间统计，avx2实现的bsw zzh 2023-08-24 14:25:32 +0800
• 6f90802be2 重新配置了mxsvr zzh 2023-08-03 03:21:33 +0800
• 80657bad20 Initial commit zzh 2023-08-03 03:21:52 +0800
• 5127a3c4ef 初始化，合并github和gitea仓库代码 zzh 2023-07-28 23:58:04 +0800
• 4ae2ef14ab Initial commit zzh 2023-07-28 23:23:14 +0800
• 139f68fc4c
  Merge pull request #367 from martin-g/github-actions-linux-aarch64 Heng Li 2022-09-22 19:52:12 -0400
• 94248a8cea
  Add CI job for Ubuntu 20.04 aarch64 Martin Tzvetanov Grigorov 2022-08-10 14:59:32 +0300
• 2e603e4581
  Merge pull request #359 from jmarshall/neon Heng Li 2022-08-31 09:50:31 -0400
• c77ace7059 Use native SSE2 intrinsics on i386 as well as x86-64 John Marshall 2022-06-27 14:15:59 +0100
• ac612b6f5a On other platforms, emulate SSE2 SIMD calls using scalar code John Marshall 2022-06-22 18:47:04 +0100
• 165e524e5c On ARM, rewrite SSE2 SIMD calls using Neon intrinsics John Marshall 2022-06-17 19:34:14 +0100
• ab01ab4490 Make _mm_load_si128() explicit John Marshall 2022-06-17 18:42:07 +0100
• b56db22548
  Merge pull request #355 from clintval/cv_document_new_XB Heng Li 2022-06-03 15:01:14 -0400
• 2160a0c7de Document that the XB tag now contains the mapping quality too clintval 2022-05-19 13:43:22 -0400
• 2d4272bc82
  Merge pull request #263 from jmarshall/std-vars Heng Li 2022-03-07 09:50:23 -0500
• ceaaa6d9cb Use $CPPFLAGS and $LDFLAGS if they are set John Marshall 2019-12-15 18:14:49 +0000
• 8c92aef23d Merge branch 'fulcrumgenomics-feature/add-xa-drop-ratio-option' Heng Li 2022-03-06 18:22:02 -0500
• 58e3ed223f Merge branch 'feature/add-xa-drop-ratio-option' of https://github.com/fulcrumgenomics/bwa into fulcrumgenomics-feature/add-xa-drop-ratio-option Heng Li 2022-03-06 18:21:49 -0500
• 41e007868c
  Merge pull request #293 from nh13/patch-2 Heng Li 2022-03-06 18:18:45 -0500
• cb7e5dffcf
  Merge pull request #292 from nh13/patch-1 Heng Li 2022-03-06 18:16:09 -0500
• 40b3aeed56
  Merge pull request #297 from nh13/patch-3 Heng Li 2022-03-06 18:12:09 -0500
• 0747fcc09d
  Merge pull request #330 from nh13/patch-4 Heng Li 2022-03-06 18:07:01 -0500
• ef52b4ac19
  Merge pull request #336 from nh13/patch-5 Heng Li 2022-03-06 18:06:38 -0500
• 760098d1c2
  Merge pull request #343 from nh13/patch-7 Heng Li 2022-03-06 18:05:46 -0500
• 4bf3cdf948
  Update bwa.1 Nils Homer 2022-02-18 13:36:09 -0800
• 6b18630a62
  Add the header line to the output SAM Nils Homer 2021-12-14 08:02:05 -0700
• d8dd308a1f
  Add the mate mapping quality tag Nils Homer 2021-07-21 11:12:27 -0700
• 3ddd7b87d4 fixed wrong Markdown format in README Heng Li 2021-05-10 12:48:45 -0400
• fe209ff1ca updated to Github CI status Heng Li 2021-05-10 12:47:13 -0400
• f033d4e4e7
  Merge pull request #325 from jmarshall/ci Heng Li 2021-05-10 12:44:43 -0400
• 765fac1070 Convert Travis CI to GitHub Actions John Marshall 2021-05-09 22:54:58 +0100
• fbfffc9031 added code of conduct Heng Li 2021-04-22 17:35:37 -0400
• 34374c5613 Removed the debug output; resolves #320 Heng Li 2021-03-09 08:56:52 -0500
• 110bf9b8ed deprecate bwasw Heng Li 2021-03-09 00:52:20 -0500
• f1d1fd7c42 output more memory information Heng Li 2021-02-23 10:43:41 -0500
• b9accf95ad debug flag to measure memory Heng Li 2021-02-22 23:26:03 -0500
• 84b2abb675
  Clarify bwa mem -5 option Nils Homer 2020-08-18 23:01:43 -0700
• 50122bed2a allow the user to specify the XA drop ratio via the -z option Nils Homer 2020-08-12 09:01:44 -0700
• ab9e0e0226
  Update fastmap.c Nils Homer 2020-08-12 08:51:19 -0700
• e050ec9a10
  Output mapping quality with XB Nils Homer 2020-08-06 10:10:58 -0700
• e5985723cc
  Document "-u" Nils Homer 2020-08-06 10:08:29 -0700
• 13b5637fe6 added the MIT license header to main.c Heng Li 2020-07-02 13:49:42 -0400
• c4a010d19f Merge branch 'master' of github.com:lh3/bwa Heng Li 2020-07-01 23:02:31 -0400
• 436aceb4ef added MIT license to some non-GPL source files Heng Li 2020-07-01 23:02:01 -0400
• 3072c80e9c
  Merge pull request #267 from SoapGentoo/fixes Heng Li 2020-03-23 08:56:40 -0400
• 2a1ae7b6f3
  Fix building against GCC 10 David Seifert 2020-02-26 13:24:17 +0100
• 3a2b0c05dd updated badges Heng Li 2019-07-09 15:44:34 -0400
• 38e751a40a mention bwa-mem2 Heng Li 2019-07-09 10:25:57 -0400
• 20d0a13092 r1198: exit if .alt is malformatted Heng Li 2019-01-23 13:23:25 -0500
• f090f93460 Merge remote-tracking branch 'origin/master' Heng Li 2018-04-10 15:01:35 -0400
• e624290ad4
  Merge pull request #190 from ihaque-freenome/bwa-postalt-fix Heng Li 2018-04-07 18:03:10 -0400
• 27dd1da702 Exclude empty SAM lines in bounds check for ALT postprocessor Imran Haque 2018-04-07 07:47:32 +0000
• 11d53b06fb Merge branch 'dev' into XB Heng Li 2018-04-02 10:47:45 -0400
• eb7dbc1429 optionally write XB to include alignment score Heng Li 2018-04-02 10:43:41 -0400
• fde1fd7ce3 emphasize pacbio and nanopore Heng Li 2017-11-06 19:51:01 -0500
• eef04271e6 wording changes Heng Li 2017-11-06 19:49:19 -0500
• 1a2b0c001a fixed a typo in link Heng Li 2017-11-06 19:43:02 -0500
• 824e00e7ac formatting change Heng Li 2017-11-06 19:41:53 -0500
• ab64326ae6 claim bwa-mem long-read mode deprecated Heng Li 2017-11-06 19:40:42 -0500
• 9f26bfcc77 Released bwa-0.7.17 (r1188) Heng Li 2017-10-23 13:10:17 -0400
• b582816211 r1187: a typo in command line help Heng Li 2017-09-26 09:35:19 -0400
• 340babdd67 r1185: don't lower supp mapq with -5 Heng Li 2017-09-11 09:58:41 -0400
• a9c688ac92 r1181: fixed a segfault (#145) due to (#138) Heng Li 2017-07-31 07:55:35 -0400
• 47d9fb27d7 Release 0.7.16-r1180 Heng Li 2017-07-30 22:35:38 -0400
• 5d15c8b09f Merge pull request #129 from lexentbio/bwakit_fix_sort Heng Li 2017-07-30 19:14:09 -0400
• 950ea8cf40 Merge pull request #138 from nh13/nh_mem_mate_cigar Heng Li 2017-07-30 19:05:47 -0400
• 83260ccb10 Merge pull request #60 from jdagilliland/typo Heng Li 2017-07-30 18:59:11 -0400
• 1eee77ad93 Merge pull request #84 from jblachly/readgroupfix Heng Li 2017-07-30 18:56:39 -0400
• 24a8d66481 removed drone.io Heng Li 2017-07-30 18:49:06 -0400
• 89a5c0c5c8 moved BWTFree() into BWTIncFree() Heng Li 2017-07-30 18:47:03 -0400
• 0976272d99 Merge pull request #139 from jmarshall/fixes Heng Li 2017-07-30 18:36:07 -0400
• a54e76945e Merge pull request #70 from rmzelle/patch-1 Heng Li 2017-07-30 17:01:27 -0400
• 31bf49d814 Merge pull request #96 from jpfeil/master Heng Li 2017-07-30 16:57:30 -0400
• 498973642f Merge pull request #123 from bwlang/patch-1 Heng Li 2017-07-30 16:55:39 -0400
• 87ed015b24 Merge pull request #141 from jmarshall/bwasw-nan Heng Li 2017-07-30 16:53:04 -0400
• c56c2e4677 Several trivial Debian patches Andreas Tille 2015-07-12 14:59:23 +0200
• 3b96dcee7f Mem should set the mate cigar tag. Nils Homer 2017-06-25 08:02:42 -0700
• bcb475cd03 In bsw2_stat(), fail to infer when no pairs are within boundaries John Marshall 2017-06-30 13:36:16 +0100
• 690649872b Copy the whole kstring_t even if it contains NULs John Marshall 2017-06-30 12:46:56 +0100
• a61b1dc610 Expand tot_seqs variable to long long John Marshall 2017-06-29 15:36:46 +0100
• 5ede7eb981 Update README.md Rintze M. Zelle 2016-06-10 11:15:53 -0400
• bc58bf265d Add "bwa mem -o FILE" synonym and documentation John Marshall 2017-06-27 17:05:44 +0100
• d28da05f36 Added option to write output to file José Manuel Abuín Mosquera 2015-03-24 10:35:46 +0100
• ab3a92bc73 Prevent Clang warnings on abs() and fabs() calls John Marshall 2017-06-26 10:45:13 +0100
• 05c501332c Merge branch 'dev' Heng Li 2017-06-08 16:06:37 -0400
• 298284d754 r1144: output debugging message to stderr Heng Li 2017-06-08 16:06:13 -0400
• 7a77cc4785 Fix output file parameter for samtools sort Ram Yalamanchili 2017-05-18 15:23:05 -0700
• 6a5caf764f Fixed BWTIncFree() memory leaks Gwen Ives 2014-12-09 10:24:46 +0100
• 1972a97813 Only realloc(pac,...) if it needs to be made larger John Marshall 2017-05-10 19:47:12 +0100
• 6442d009cd updates grch38 URL Brad Langhorst 2017-04-27 08:40:48 -0400
• beff2e27f8 Add missing <stdint.h> include John Marshall 2017-04-25 13:54:31 +0100
• af87825525 Replace u_int32_t by the more common uint32_t John Marshall 2017-04-25 13:51:52 +0100
• 9dfb9708db Add -M option to bwakit Jacob Pfeil 2016-11-07 16:52:54 -0800
• 8cc02badd9 Forbid literal TAB control characters in @RG line James Blachly 2016-08-09 17:05:51 -0400
• 00e59ddbae Update README.md Rintze M. Zelle 2016-06-10 11:15:53 -0400
• 5961611c35 Merge branch 'dev' Heng Li 2016-05-31 11:02:54 -0400
• f123871451 r1142: added option -5 for Hi-C data Heng Li 2016-05-31 11:01:36 -0400
• 08764215c6 Merge branch 'dev' Heng Li 2016-05-31 09:43:16 -0400