Heng Li
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c0e0d5d84b
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r707: bugfix for inversions on rev strand (#112)
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2018-02-14 14:09:03 -05:00 |
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Heng Li
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b328795051
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r706: don't segfault upon wrong FASTA/Q (#111)
The lack of robustness cost me several hours to identify.
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2018-02-13 10:00:22 -05:00 |
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Heng Li
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3b17d62ccd
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minor doc improvements
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2018-02-12 22:27:02 -05:00 |
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Heng Li
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874b8c4795
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rework misc/README; progressing but unfinished
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2018-02-12 22:06:05 -05:00 |
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Heng Li
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7ef5490884
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r703: added --max-clip-ratio
still testing the option
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2018-02-12 13:29:18 -05:00 |
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Heng Li
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f66de7df59
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updated paftools revision number to r702
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2018-02-12 11:39:04 -05:00 |
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Heng Li
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fbbd4e0968
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changed output messages for clarity
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2018-02-12 11:32:32 -05:00 |
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Heng Li
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8c89ba005e
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merged cnt-feat into paftools
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2018-02-12 11:29:42 -05:00 |
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Heng Li
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50775a1e6f
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added liftOver
tested on a few toy examples
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2018-02-12 11:12:23 -05:00 |
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Heng Li
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87cf650168
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r697: fixed wrong #mapped reads in junceval
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2018-02-09 18:45:57 -05:00 |
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Heng Li
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6e65c5e631
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Revision 1
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2018-02-09 17:39:02 -05:00 |
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Heng Li
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a58b05a61b
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extend the section on genome alignment
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2018-02-09 13:59:00 -05:00 |
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Heng Li
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42dab6319b
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don't call SNPs involving 'n'
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2018-02-09 13:27:17 -05:00 |
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Heng Li
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8428809369
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convert MUMmer's delta to PAF
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2018-02-09 12:14:28 -05:00 |
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Heng Li
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642af5591e
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merged intron-eval into paftools
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2018-02-09 11:07:14 -05:00 |
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Heng Li
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2025a6279a
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merged gff2bed and mapstat to paftools
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2018-02-09 10:47:12 -05:00 |
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Heng Li
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3465b04724
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merged a few converters to paftools
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2018-02-09 10:23:30 -05:00 |
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Heng Li
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66c5e71fa8
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merging scripts into one long script
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2018-02-09 10:00:35 -05:00 |
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Heng Li
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01560f1db0
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Revision v1, to be submitted
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2018-02-07 11:07:08 -05:00 |
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Heng Li
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39535565ee
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first round of revision
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2018-02-06 16:19:22 -05:00 |
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Heng Li
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a8d476c6ad
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r686: end seed trimming don't go over long join
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2018-02-06 11:31:32 -05:00 |
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Heng Li
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29b4a1786c
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r685: tune end seed filter again
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2018-02-05 11:48:22 -05:00 |
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Heng Li
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dbf284b2d9
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r684: separate end score from min_chain_score
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2018-02-05 11:40:38 -05:00 |
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Heng Li
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3df5015668
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General doc improvements
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2018-02-02 21:45:46 -05:00 |
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Heng Li
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756379bf83
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Documented paf2diff.js (more to come later)
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2018-02-02 14:43:58 -05:00 |
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Heng Li
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41fd8a966a
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Documented ov-eval.js
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2018-02-02 14:18:18 -05:00 |
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Heng Li
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86e4933b1a
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Added TOC
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2018-02-02 14:12:30 -05:00 |
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Heng Li
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a633a744b6
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more doc in misc
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2018-02-02 14:07:17 -05:00 |
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Heng Li
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ddc31f57ba
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Documented some k8 scripts; more coming
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2018-02-02 13:57:08 -05:00 |
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Heng Li
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35d3e064bf
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r677: reduce the change of missing hits
that are close to end of alignments. It is still possible to create examples
that fail the heuristic.
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2018-02-02 10:35:33 -05:00 |
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Heng Li
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997ab9bb2e
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Fixed the description of --dual
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2018-02-01 15:11:51 -05:00 |
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Heng Li
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53ce317e59
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Release minimap2-2.8 (r672)
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2018-02-01 12:50:20 -05:00 |
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Heng Li
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da6947cfa3
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r671: cleanup command line options
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2018-01-31 13:59:52 -05:00 |
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Heng Li
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46d6349af4
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r670: added PE support to mappy
and minor code cleanup
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2018-01-31 11:33:08 -05:00 |
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Heng Li
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12a5a5fa3c
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r669: improved self chain extension (#10)
This has not fully resolved #10, only alleviated the issue.
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2018-01-30 20:05:02 -05:00 |
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Heng Li
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ad18fa490d
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fixed typos
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2018-01-30 10:11:50 -05:00 |
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Heng Li
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43bfa6199d
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r667: warn if one query file has fewer records #92
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2018-01-28 17:36:21 -05:00 |
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Heng Li
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72b9b0e3b6
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r666: report if >=3 query files in SR mode #92
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2018-01-28 17:15:57 -05:00 |
|
Heng Li
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6205fa6f21
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document --heap-sort
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2018-01-26 15:15:40 -05:00 |
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Heng Li
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d676a5314b
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r664: use --heat-sort for sr by default
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2018-01-26 12:25:42 -05:00 |
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Heng Li
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dfc78b39d3
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refactor the old sorting
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2018-01-26 09:37:48 -05:00 |
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Heng Li
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7b57c9a619
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heap sort working on MT
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2018-01-26 09:21:45 -05:00 |
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Heng Li
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123bc1d91d
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put option operations in another file
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2018-01-26 08:38:37 -05:00 |
|
Heng Li
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dd18307e66
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code backup
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2018-01-25 21:52:49 -05:00 |
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Heng Li
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543fa12e68
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r659: for C++ compatibility
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2018-01-19 10:40:18 -05:00 |
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Heng Li
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af1a871270
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r658: gives a warning if -N0 is used
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2018-01-19 08:33:20 -05:00 |
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Heng Li
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2b71181a37
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r657: check -p (#96)
Well, in principle, every option should be checked. Will do when someone raise
issues...
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2018-01-19 01:03:38 -05:00 |
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Heng Li
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0454e6be91
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explain -M in the manpage
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2018-01-18 11:47:11 -05:00 |
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Heng Li
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33f8157961
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r655: options to map to one strand of the ref #91
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2018-01-16 10:34:30 -05:00 |
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Heng Li
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eecc06086f
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Released minimap2-2.7 (r654)
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2018-01-09 13:16:00 -05:00 |