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alnpos-compat

compathelper/new_version/2021-04-02-02-40-39-288-122334684

compathelper/new_version/2021-04-29-00-03-02-365-4269583037

develop

develop-2020-08-13-0406

feature/BioAlignmentsv2.2

feature/CodecBGZF

feature/CodecBGZF-issue-31

gh-pages

hotfix/field_access

hotfix/issue-31

hotfix/issue-31-eof

hotfix/issue-31-tryread

hotfix/issue-31-virtualoffset

hotfix/issue-31-virtualoffset2

hotfix/issue-34

master

operations-fix

pu/v0.3.0

release/v0.2.5

workaround_23

v0.1.0

v0.1.1

v0.2.0

v0.2.1

v0.2.2

v0.2.3

v0.2.4

v0.2.5

v0.2.6

v0.2.7

Mono Color

• 560a5cd8df Check that EOF_BLOCK gets written develop Ciarán O'Mara 2023-05-02 14:56:48 +1000
• 10c1aacd4d Improve Slack link Ciarán O'Mara 2023-04-16 21:22:52 +1000
• cc5f21b854 Add doi to README Ciarán O'Mara 2023-02-28 15:09:38 +1100
• 9a9f2c1f5a Fun with flags Implements flag queries. Ciarán O'Mara 2023-01-09 14:10:50 +1100
• 0d1eec3ed3 Subtype from XAMRecord Ciarán O'Mara 2023-01-09 12:48:54 +1100
• 8151d877e7 Subtype from XAMReader and XAMWriter Ciarán O'Mara 2023-01-09 12:30:36 +1100
• 50039e749f Update CHANGELOG Ciarán O'Mara 2022-10-14 22:24:41 +1100
• 8272cea71e
  Merge pull request #56 from jonathanBieler/bam_index_method Ciarán O'Mara 2022-10-14 22:15:31 +1100
• bda532e2ce Merge branch 'master' into develop Ciarán O'Mara 2022-10-14 22:12:10 +1100
• 22f939ffbe
  Merge pull request #57 from BioJulia/release/0.3.1 master Ciarán O'Mara 2022-10-14 22:09:50 +1100
• fe83a749d2
  
  Update CHANGELOG for v0.3.1 Thomas A. Christensen II 2022-10-13 15:27:57 -0500
• 1c57e9b0e2
  
  Bump version number in Project.toml to 0.3.1 Thomas A. Christensen II 2022-10-13 15:26:59 -0500
• e2b22becf4
  Merge pull request #55 from MillironX/feature/bioalignments-3 Thomas A. Christensen II 2022-10-13 14:15:58 -0500
• 286e271e91 update docstring Jonathan Bieler 2022-10-13 15:17:20 +0200
• 93a6b60d26 added method for handling different bam index types Jonathan Bieler 2022-10-13 15:06:39 +0200
• 32e3213ee8
  
  Update CHANGELOG Thomas A. Christensen II 2022-10-10 16:48:49 -0500
• f7b9d9fa75
  
  Update tests to use new AlignmentAnchor structure Thomas A. Christensen II 2022-10-10 08:51:36 -0500
• 9720fd0fcd
  
  Bump BioAlignments version compat to 3 Thomas A. Christensen II 2022-10-10 08:45:26 -0500
• e6f542a368
  
  Change alignment getter for BAM.Record to use existing cigar constructor Thomas A. Christensen II 2022-10-10 08:51:20 -0500
• 946e77a734
  Merge pull request #52 from BioJulia/release/0.3.0 Thomas A. Christensen II 2022-10-10 15:55:49 -0500
• 0c4b3f5dd0
  Update .github/workflows/TagBot.yml Thomas A. Christensen II 2022-10-10 13:06:28 +0000
• 2e739e2d8d
  Update .github/workflows/CompatHelper.yml Thomas A. Christensen II 2022-10-10 13:06:17 +0000
• 8d9ccc91f2
  Update .github/workflows/CompatHelper.yml Thomas A. Christensen II 2022-10-10 13:06:09 +0000
• a7a8e53e4d
  Update .github/workflows/Documentation.yml Thomas A. Christensen II 2022-10-10 13:06:02 +0000
• 46fcf71f96
  
  Add CHANGELOG Thomas A. Christensen II 2022-10-08 16:27:19 -0500
• 5cbf9dfb1c
  
  Bump version number to 0.3.0 in Project.toml Thomas A. Christensen II 2022-10-08 15:21:06 -0500
• 5da017052b Add messages to assertions Ciarán O'Mara 2020-02-23 14:43:34 +1100
• 8424757cc2 Merge branch 'master' into develop Ciarán O'Mara 2022-08-15 15:34:24 +1000
• 4490e7c890 Merge branch 'hotfix/issue-31' Ciarán O'Mara 2022-08-15 15:32:07 +1000
• d37e9a04d8
  Merge pull request #48 from MillironX/feature/BioAlignmentsv2.2 Ciarán O'Mara 2022-08-15 15:30:19 +1000
• 0cc0405ca0 Increment BGZFStreams compatibility Ciarán O'Mara 2022-07-02 16:31:06 +1000
• 99aa013c2b Add tests for issue #31 Ciarán O'Mara 2022-08-15 12:30:27 +1000
• 7609f6e24d Increment version Ciarán O'Mara 2022-08-15 09:29:13 +1000
• 03d8e5e745
  
  Update minimum Julia version to 1.6 feature/BioAlignmentsv2.2 Thomas A. Christensen II 2022-07-11 07:29:08 -0500
• 675e5828b1
  Correct docstring Ciarán O'Mara 2022-07-09 13:37:21 +1000
• a7a76db3d4
  
  Update BAM.sequence to return BioSequences.LongDNA{4} Thomas A. Christensen II 2022-07-07 09:19:43 -0500
• 1660a24a0f
  
  Update SAM.sequence to return BioSequences.LongDNA{4} Thomas A. Christensen II 2022-07-07 09:18:26 -0500
• e560681afa
  
  Update BioAlignments to v2.2 and BioSequences to v3 Thomas A. Christensen II 2022-07-07 09:13:58 -0500
• 52d0ce21b0 Remove Gitter chat links Ciarán O’Mara 2021-12-31 13:34:21 +1100
• 42b1063f51
  
  Add support for meta-operations to BAM record operations-fix Thomas A. Christensen II 2022-01-27 11:15:48 -0600
• de252188e8
  
  Bring up-to-date with master branch of BioAlignments.jl alnpos-compat Thomas A. Christensen II 2022-01-27 11:11:45 -0600
• f64632dae4 build based on e5c553a gh-pages Documenter.jl 2021-12-31 02:37:30 +0000
• e5c553aa45 Remove Gitter chat links Ciarán O’Mara 2021-12-31 13:34:21 +1100
• 01b03aa5b6 build based on dc0992f Documenter.jl 2021-12-31 02:27:14 +0000
• dc0992ff54 Add LTS release to test matrix Ciarán O’Mara 2021-12-31 13:24:30 +1100
• a5e50afb8c build based on c7114bc Documenter.jl 2021-11-27 01:37:34 +0000
• c7114bce16
  Merge pull request #43 from jakobnissen/flagdocs Ciarán O'Mara 2021-11-27 12:35:13 +1100
• b2bc94eb2b Adjust BGZFStreams.ensure_buffered_data https://github.com/BioJulia/BGZFStreams.jl/issues/22 hotfix/issue-31 Ciarán O'Mara 2021-10-15 22:34:14 +1100
• 6bc08e15b2 Add tests for issue #31 Ciarán O'Mara 2021-10-24 01:22:00 +1100
• 9a09aabae2 build based on 30d61bd Documenter.jl 2021-10-22 13:26:44 +0000
• 30d61bd79c Remove mention of Gitter from README.md Jakob Nybo Nissen 2021-10-22 15:24:03 +0200
• a72fcf47cb Improve documentation of flag function Jakob Nybo Nissen 2021-10-22 10:48:07 +0200
• 55d338d262 Investigation hotfix/issue-31-virtualoffset Ciarán O’Mara 2021-07-16 20:10:41 +1000
• 7443237129 Adjust BGZFStreams.virtualoffset hotfix/issue-31-virtualoffset2 Ciarán O’Mara 2021-05-16 12:20:55 +1000
• c2348a30b1 build based on 18dae0d Documenter.jl 2021-07-06 04:52:52 +0000
• 18dae0d45d Comments Ciarán O’Mara 2021-06-27 20:41:58 +1000
• 9d2a70531a Return early Ciarán O’Mara 2021-07-03 22:45:47 +1000
• d370ebe28c Adjust BGZFStreams.virtualoffset Ciarán O’Mara 2021-05-16 12:20:55 +1000
• 742face886 Add tryread! check hotfix/issue-31-tryread Ciarán O’Mara 2021-04-02 01:00:24 +1100
• 055c36408c Add eof check hotfix/issue-31-eof Ciarán O’Mara 2021-07-03 22:50:31 +1000
• 0e6ef62e3e Add tests for issue #31 Ciarán O’Mara 2021-04-01 13:55:03 +1100
• 9ee35af43d build based on ccc9112 Documenter.jl 2021-06-29 03:28:28 +0000
• a933ac6ab2 GenomicInterval type pu/v0.3.0 Ciarán O’Mara 2021-06-28 21:17:06 +1000
• c3c2a9ceda Add messages to assertions Ciarán O'Mara 2020-02-23 14:43:34 +1100
• ccc91123d6 Comments Ciarán O’Mara 2021-06-27 20:41:58 +1000
• 8f26bbf4a7 Tidy state machines and improve error messages Ciarán O’Mara 2021-06-29 12:54:08 +1000
• fa10f3bfcf Readability Ciarán O’Mara 2021-06-24 00:53:17 +1000
• c56eb0851a Update Continuous Integration workflows Ciarán O’Mara 2021-04-28 11:48:47 +1000
• 29f02a21dd build based on 2bae036 zeptodoctor 2021-06-24 13:02:41 +0000
• 4246776c84 build based on 54729a2 zeptodoctor 2021-04-29 00:04:48 +0000
• c0f0d43d3a CompatHelper: bump compat for "Indexes" to "0.2" compathelper/new_version/2021-04-29-00-03-02-365-4269583037 github-actions[bot] 2021-04-29 00:03:06 +0000
• 46cd772205 build based on d6502f0 zeptodoctor 2021-04-28 02:01:26 +0000
• 85768c9354 build based on 46b6e36 zeptodoctor 2021-04-28 01:56:02 +0000
• fbde68cba0 build based on 33ccb05 zeptodoctor 2021-04-28 01:51:18 +0000
• f2ad40caf0 CompatHelper: bump compat for "Indexes" to "0.2" compathelper/new_version/2021-04-02-02-40-39-288-122334684 github-actions[bot] 2021-04-02 02:40:40 +0000
• f6e87dffa8 Add eof check feature/CodecBGZF-issue-31 Ciarán O’Mara 2021-04-02 01:00:24 +1100
• 48ceb8d20e Add tests for issue #31 Ciarán O’Mara 2021-04-01 13:55:03 +1100
• 4e00726e75 build based on 22667dc zeptodoctor 2021-04-01 02:11:40 +0000
• 5b64bb3530 build based on 5bd793b zeptodoctor 2021-04-01 01:45:13 +0000
• 9dec90fd9c Adjust test matrix feature/CodecBGZF Ciarán O’Mara 2021-03-31 10:48:04 +1100
• 30b27793ae Amendments Ciarán O’Mara 2021-03-31 10:40:36 +1100
• bb5807795b Switch to CodecBGZF Jakob Nybo Nissen 2021-02-28 13:06:17 +0100
• 5bd793bc5f Merge branch 'master' into develop Ciarán O’Mara 2021-04-01 12:37:54 +1100
• 22667dc7af Merge branch 'hotfix/issue-34' v0.2.7 Ciarán O’Mara 2021-04-01 12:37:54 +1100
• c423694f29 Cater for blank sam files hotfix/issue-34 Ciarán O’Mara 2021-04-01 11:48:02 +1100
• 64f371e1e4 Adjust for Automa 0.8.1 Ciarán O’Mara 2021-04-01 12:31:44 +1100
• aaf3710fbe Increment version Ciarán O’Mara 2021-03-27 00:28:44 +1100
• c629016740 build based on 6503d94 zeptodoctor 2021-03-26 13:14:40 +0000
• 96fb6ddf59 build based on 84f5000 zeptodoctor 2021-03-26 13:03:08 +0000
• fb18f0e912 build based on a51e911 zeptodoctor 2021-02-27 08:25:36 +0000
• 4f62586d94 build based on dfa5a32 zeptodoctor 2021-02-27 08:22:41 +0000
• 567e136fd2 build based on b086fef zeptodoctor 2020-10-19 15:02:23 +0000
• b086fefbd5 Make BAM record layout match BAM specs Jakob Nissen 2020-07-28 13:17:50 +0200
• e148903e04 build based on 8836b4d zeptodoctor 2020-10-19 14:52:12 +0000
• 8836b4dbb6
  Merge pull request #29 from CiaranOMara/feature/crosscheck Ciarán O'Mara 2020-10-20 01:50:13 +1100
• 295d17ddd9 build based on dde235f zeptodoctor 2020-10-19 14:40:22 +0000
• d38c2becf0 Minimal adjustements Ciarán O'Mara 2020-08-13 14:06:43 +1000
• 433b8d14e8 Begin crosschecks Ciarán O'Mara 2020-08-13 16:45:51 +1000
• 49b3cc6955 Increment version hotfix/field_access Ciarán O'Mara 2020-08-13 14:13:12 +1000
• dde235fbc8 improve BAM.quality performance Jonathan Bieler 2019-07-26 10:43:36 +0200