 Heng Li
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e9a45a4e1c
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Merge branch 'master' into avx
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2019-03-04 11:15:56 -05:00 |
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Heng Li
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169216bfff
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manpage was wrongly marked as "dirty"
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2019-02-28 15:58:12 -05:00 |
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Heng Li
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6b391e3373
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Release minimap2-2.16 (r922)
v2.16
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2019-02-28 15:49:24 -05:00 |
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Heng Li
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55e39c2d30
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r921: output unmapped reads in full PAF
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2019-02-27 15:03:19 -05:00 |
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Kevin Chan
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90b7b83ec7
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fix typo in command line help
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2019-02-27 14:46:57 -05:00 |
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Heng Li
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d431dc0181
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r917: added --max-chain-iter to avoid worst case
Resolves #324
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2019-02-27 14:41:01 -05:00 |
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Heng Li
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ccf1680aaf
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make it explicit that -x is preferred for prebuilt
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2019-02-27 12:43:33 -05:00 |
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Heng Li
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ea84fc0a53
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r917: fixed a bug in command-line parsing
Resolves #344
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2019-02-27 11:22:58 -05:00 |
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Heng Li
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19208fb06b
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r916: support long cs in sam-to-paf conversion
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2019-02-17 09:35:23 -05:00 |
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Heng Li
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e02bebd96d
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r915: fixed a bug caused by the latest change
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2019-02-14 10:04:04 -05:00 |
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Heng Li
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32ab6ce15b
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r914: fixed two harmless division by 0
Resolves #326
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2019-02-12 19:30:49 -05:00 |
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Heng Li
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1739a260fb
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r913: output tag "rl", length of unseedable regs
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2019-02-05 14:19:17 -05:00 |
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Heng Li
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aaf3233818
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added mappy.Aligner.seq_names to return seq names
Resolves #312
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2019-01-29 12:53:20 -05:00 |
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Heng Li
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8b05880f73
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r911: option -o to output to file (#319)
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2019-01-29 10:42:20 -05:00 |
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Heng Li
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eba237f39d
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r910: meaningful error message (#320)
when minimap2 fails to create temporary files
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2019-01-29 10:29:27 -05:00 |
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Heng Li
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a8e1e3cbb8
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updated citation with page numbers
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2019-01-26 17:59:36 -05:00 |
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Heng Li
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597212b9f3
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r908: added an assertion to detect a potential bug
as in #311
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2019-01-23 11:18:50 -05:00 |
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Heng Li
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30abcf3cf9
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r907: copy tag "cs" in sam2paf
Resolves #310
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2019-01-13 17:52:31 -05:00 |
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Heng Li
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48e230f40d
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r906: de tag is wrongly calculated given "N"
Resolves #309
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2019-01-11 19:39:09 -05:00 |
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Heng Li
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c404f49569
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Release minimap2-2.15 (r905)
v2.15
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2019-01-10 12:34:45 -05:00 |
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Heng Li
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cf2bae6e9b
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r904: fixed a corner-case segfault. Resolves #307.
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2019-01-10 09:57:05 -05:00 |
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Heng Li
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f5e2176bc5
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r903: merged extd2_avx512.c into extd2_sse.c
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2019-01-01 13:46:30 -05:00 |
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Heng Li
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0b4be2996e
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avx512 working on MT
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2019-01-01 13:05:30 -05:00 |
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Heng Li
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feca68c71d
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fixed two bugs when computing full score
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2019-01-01 11:46:01 -05:00 |
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Heng Li
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6d9ce56721
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blend was reversed
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2019-01-01 10:27:59 -05:00 |
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Heng Li
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f2f425890d
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can be compiled on Linux
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2019-01-01 10:04:03 -05:00 |
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Heng Li
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58f4210dea
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compiled, but not working
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2019-01-01 01:32:43 -05:00 |
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Heng Li
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a4782c7d7a
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r897: avx2 working on test/MT-*.fa
srli/slli behaves differently between SSE2 and AVX2, which is very annoying.
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2018-12-31 10:26:19 -05:00 |
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Heng Li
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2a7d071e8b
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minor equivalent changes
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2018-12-30 23:15:07 -05:00 |
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Heng Li
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9462da5159
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initial avx2 support; not working properly yet
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2018-12-30 11:09:44 -05:00 |
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Heng Li
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5b2fdfff9c
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r895: option in asmgene to count autosomal only
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2018-12-14 10:36:47 -05:00 |
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Heng Li
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ea2b1c5b2a
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r894: added --max-qlen to filter out long query
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2018-12-12 12:27:32 -05:00 |
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Heng Li
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eef1cee9b7
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r893: added paftools.js vcfpair
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2018-12-01 18:53:03 -05:00 |
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Heng Li
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2c52364527
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r892: avoid de:f:0.0000
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2018-11-24 21:54:28 -05:00 |
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Heng Li
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128476efc9
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r891: compute gap-compressed divergence
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2018-11-24 21:50:49 -05:00 |
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Heng Li
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1b3a6a0fe5
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r890: removed "register" (#261)
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2018-11-19 13:57:31 -05:00 |
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Heng Li
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83a8ee7038
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r888: fixed incorrect CIGAR when --eqx in use
This was caused by mm_fix_cigar() which may change query/target offset in very
rare cases. Generating EQX has to beware of this change.
Resolves #266
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2018-11-18 14:22:29 -05:00 |
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Heng Li
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62bbadf668
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r887: fixed a bug in asmgene
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2018-11-11 21:35:19 -05:00 |
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Heng Li
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91f548b497
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r886: fixed two minor typos
Resolves #264
Resolves #265
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2018-11-08 12:04:14 -05:00 |
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Heng Li
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cdaf46665a
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r885: compute dup with asmstat
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2018-11-07 00:26:05 -05:00 |
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Heng Li
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6596c63dcd
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r884: for C++ compatibility (#261)
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2018-11-06 22:07:11 -05:00 |
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Heng Li
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59f23f7579
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Release minimap2-2.14 (r883)
v2.14
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2018-11-06 00:03:16 -05:00 |
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Heng Li
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5e55e397e9
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r882: guard against -E0 (#263)
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2018-11-05 23:36:12 -05:00 |
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Heng Li
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88c421e8de
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r881: a recent change reduces sr accuracy
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2018-11-05 22:03:59 -05:00 |
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Heng Li
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3db5bfe6e5
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r880: fixed false wrong FASTA/Q alert
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2018-11-05 20:52:07 -05:00 |
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Heng Li
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83dfdd5f50
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draft release note
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2018-11-05 20:07:57 -05:00 |
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Heng Li
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8a2b1cd4c9
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updated mappy for extra option max_sw_mat
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2018-11-05 19:28:44 -05:00 |
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Heng Li
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1ede8ca170
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r877: renamed cap-sw-mat to cap-sw-mem
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2018-11-05 11:46:38 -05:00 |
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Heng Li
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13981404e2
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r876: skip DP if taking too much RAM (#259)
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2018-11-05 11:43:10 -05:00 |
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Heng Li
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fd64dd26f6
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r875: warn given incorrect FASTA/Q
resolves #252
resolves #255
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2018-11-05 10:02:44 -05:00 |
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