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  • 129425a (HEAD -> master, origin/master, origin/HEAD) bump x.y.z version to odd y following creation of RELEASE_3_16 branch by J Wokaty <jennifer.wokaty@sph.cuny.edu> 2022-11-01 11:06:06 -0400;
  • ca285bf (origin/RELEASE_3_16, RELEASE_3_16) bump x.y.z version to even y prior to creation of RELEASE_3_16 branch by J Wokaty <jennifer.wokaty@sph.cuny.edu> 2022-11-01 11:06:06 -0400;
  • 995d50e bump x.y.z version to odd y following creation of RELEASE_3_15 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2022-04-26 15:08:31 +0000;
  • 007dfe7 (origin/RELEASE_3_15, RELEASE_3_15) bump x.y.z version to even y prior to creation of RELEASE_3_15 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2022-04-26 15:08:31 +0000;
  • 40931fc bump x.y.z version to odd y following creation of RELEASE_3_14 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-10-26 15:59:49 +0000;
  • 43fe994 (origin/RELEASE_3_14, RELEASE_3_14) bump x.y.z version to even y prior to creation of RELEASE_3_14 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-10-26 15:59:49 +0000;
  • ef69ecd bump x.y.z version to odd y following creation of RELEASE_3_13 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-05-19 15:49:23 +0000;
  • c079c02 (origin/RELEASE_3_13, RELEASE_3_13) bump x.y.z version to even y prior to creation of RELEASE_3_13 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-05-19 15:49:23 +0000;
  • 231b966 bump x.y.z version to odd y following creation of RELEASE_3_12 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-10-27 10:42:22 -0400;
  • ee88eca (origin/RELEASE_3_12, RELEASE_3_12) bump x.y.z version to even y prior to creation of RELEASE_3_12 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-10-27 10:42:22 -0400;
  • b5098b3 bump x.y.z version to odd y following creation of RELEASE_3_11 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-04-27 18:26:27 +0000;
  • d38926b (origin/RELEASE_3_11, RELEASE_3_11) bump x.y.z version to even y prior to creation of RELEASE_3_11 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-04-27 18:26:27 +0000;
  • 78d7053 Merge branch 'RELEASE_3_10' (DAParam acyclic graph detection) by Martin Morgan <Martin.Morgan@RoswellPark.org> 2019-12-19 11:14:20 -0500;
  • 4862eed (origin/RELEASE_3_10) bugfix: DAGParam did not report acyclic graphs correctly by Martin Morgan <Martin.Morgan@RoswellPark.org> 2019-12-19 11:12:09 -0500;
  • 4b4db1e bump x.y.z version to odd y after creation of RELEASE_3_10 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-10-29 13:35:44 -0400;
  • 0ac0578 bump x.y.z version to even y prior to creation of RELEASE_3_10 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-10-29 13:08:21 -0400;
  • 80760cb bump x.y.z versions to odd y after creation of RELEASE_3_9 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-05-02 12:11:05 -0400;
  • 68c2fc5 (origin/RELEASE_3_9, RELEASE_3_9) bump x.y.z versions to even y prior to creation of RELEASE_3_9 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-05-02 11:53:27 -0400;
  • b917775 silence failed kills; this does not address the root problem by Martin Morgan <martin.morgan@roswellpark.org> 2019-03-06 09:51:10 -0500;
  • 2f6ac39 Merge branch 'RELEASE_3_8' by Martin Morgan <martin.morgan@roswellpark.org> 2019-03-06 05:49:50 -0500;
  • a94bed1 register S3 methods by Martin Morgan <martin.morgan@roswellpark.org> 2019-03-06 05:47:46 -0500;
  • 62f37cb (origin/RELEASE_3_8, RELEASE_3_8) version bump by Martin Morgan <martin.morgan@roswellpark.org> 2019-03-06 05:48:02 -0500;
  • e069d5b register S3 methods by Martin Morgan <martin.morgan@roswellpark.org> 2019-03-06 05:47:46 -0500;
  • 46b302c bump x.y.z versions to odd y after creation of RELEASE_3_8 branch by vobencha <vobencha@gmail.com> 2018-10-30 11:54:29 -0400;
  • c84080f bump x.y.z versions to even y prior to creation of RELEASE_3_8 branch by vobencha <vobencha@gmail.com> 2018-10-30 11:41:47 -0400;
  • 30dca18 bump x.y.z versions to odd y after creation of RELEASE_3_7 branch by vobencha <valerie.obenchain@roswellpark.org> 2018-04-30 10:41:38 -0400;
  • 1b60d46 (origin/RELEASE_3_7, RELEASE_3_7) bump x.y.z versions to even y prior to creation of RELEASE_3_7 branch by vobencha <valerie.obenchain@roswellpark.org> 2018-04-30 10:35:20 -0400;
  • d78475e bump x.y.z versions to odd y after creation of RELEASE_3_6 branch by Hervé Pagès <hpages@fredhutch.org> 2017-10-30 12:52:12 -0400;
  • ccb4a10 (origin/RELEASE_3_6, RELEASE_3_6) bump x.y.z versions to even y prior to creation of RELEASE_3_6 branch by Hervé Pagès <hpages@fredhutch.org> 2017-10-30 12:39:35 -0400;
  • 5347a71 bump x.y.z versions to odd y after creation of 3_5 branch by Herve Pages <hpages@fhcrc.org> 2017-04-24 19:50:57 +0000;
  • d9dbf24 (origin/RELEASE_3_5, RELEASE_3_5) Creating branch for BioC 3.5 release by Herve Pages <hpages@fhcrc.org> 2017-04-24 19:45:44 +0000;
  • c3d3b4e bump x.y.z versions to even y prior to creation of 3_5 branch by Herve Pages <hpages@fhcrc.org> 2017-04-24 19:25:24 +0000;
  • d094bda bump x.y.z versions to odd 'y' after creation of 3_4 branch by Herve Pages <hpages@fhcrc.org> 2016-10-17 19:10:43 +0000;
  • 26e39d4 (origin/RELEASE_3_4, RELEASE_3_4) Creating branch for BioC 3.4 release by Herve Pages <hpages@fhcrc.org> 2016-10-17 19:00:47 +0000;
  • 470cbea bump x.y.z versions to even 'y' prior to creation of 3_4 branch by Herve Pages <hpages@fhcrc.org> 2016-10-17 18:45:06 +0000;
  • 5f08a73 bump version after creating 3.3 branch by Dan Tenenbaum <dtenenba@fhcrc.org> 2016-05-03 21:30:44 +0000;
  • 56fc3e0 (origin/RELEASE_3_3, RELEASE_3_3) Creating branch for BioC 3.3 release. by Dan Tenenbaum <dtenenba@fhcrc.org> 2016-05-03 21:26:31 +0000;
  • 2a19681 Bump versions prior to creation of 3.3 branch by Dan Tenenbaum <dtenenba@fhcrc.org> 2016-05-03 21:20:18 +0000;
  • 416bebd cleanup: don't require() in package code by Martin Morgan <mtmorgan@fhcrc.org> 2016-01-26 22:23:47 +0000;
  • ab8b615 cleanup: update affiliation by Martin Morgan <mtmorgan@fhcrc.org> 2015-12-23 09:51:13 +0000;
  • 1e7baa2 Bumped version number of all packages after creation of 3.2 branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2015-10-13 19:59:53 +0000;
  • f0731bf (origin/RELEASE_3_2, RELEASE_3_2) Creating branch for BioC 3.2 release. by Dan Tenenbaum <dtenenba@fhcrc.org> 2015-10-13 19:57:33 +0000;
  • bd4273a Bumped versions of all packages prior to creating 3.2 branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2015-10-13 19:36:05 +0000;
  • 20de1e5 maintainer email address update by Martin Morgan <mtmorgan@fhcrc.org> 2015-06-02 23:33:12 +0000;
  • a3b1ec6 missing(...) replaces length(list(...)) == 0 by Martin Morgan <mtmorgan@fhcrc.org> 2015-05-02 22:17:20 +0000;
  • f918e26 Bump versions in trunk after creation of 3.1 branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2015-04-16 20:02:44 +0000;
  • b76bceb (origin/RELEASE_3_1, RELEASE_3_1) Creating branch for BioC 3.1 release. by Dan Tenenbaum <dtenenba@fhcrc.org> 2015-04-16 20:00:01 +0000;
  • dc62aa9 Bump versions prior to creating 3.1 branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2015-04-16 19:42:01 +0000;
  • 088a0d3 version bump by Herve Pages <hpages@fhcrc.org> 2014-12-09 08:06:33 +0000;
  • 1b1848c name the 'ignore.strand' arg when calling summarizeOverlaps() by Herve Pages <hpages@fhcrc.org> 2014-12-09 08:06:12 +0000;
  • 8819fcb Bumping versions after creating 3.0 release branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-10-13 21:47:41 +0000;
  • 44bd4b8 (origin/RELEASE_3_0) Creating branch for BioC 3.0 release. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-10-13 21:46:02 +0000;
  • 35219ae Bump package versions prior to creating the 3.0 branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-10-13 21:38:33 +0000;
  • 451dc1c Second version bump after creating 2.14 release branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-04-11 21:21:21 +0000;
  • 52f83b7 (origin/RELEASE_2_14, RELEASE_2_14) Creating 2.14 release branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-04-11 21:17:46 +0000;
  • 91cb236 First version bump prior to creating 2.14 branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-04-11 21:07:21 +0000;
  • 1f3197f explicitly close connections by Martin Morgan <mtmorgan@fhcrc.org> 2014-04-11 00:03:26 +0000;
  • 17ee550 Update vignette to reference summarizeOverlaps() instead of defunct countGenomicOverlaps(). by Valerie Obenchain <vobencha@fhcrc.org> 2013-12-15 20:27:15 +0000;
  • afd113f need to suggest new GenomicAlignments package by Herve Pages <hpages@fhcrc.org> 2013-11-12 01:08:42 +0000;
  • 273acd7 rename inst/doc to vignettes and bump version by Dan Tenenbaum <dtenenba@fhcrc.org> 2013-11-01 20:20:06 +0000;
  • 7ab3aa6 use GAlignments instead of GappedAlignments (now defunct) by Herve Pages <hpages@fhcrc.org> 2013-10-31 23:43:32 +0000;
  • 307ad43 bump version after release branch has been created by Dan Tenenbaum <dtenenba@fhcrc.org> 2013-10-14 21:47:19 +0000;
  • dd79936 (origin/RELEASE_2_13, RELEASE_2_13) Creating branch for BioC 2.13 release. by Dan Tenenbaum <dtenenba@fhcrc.org> 2013-10-14 21:43:43 +0000;
  • d04a183 bump versions prior to creating BioC 2.13 branch by Dan Tenenbaum <dtenenba@fhcrc.org> 2013-10-14 21:29:21 +0000;
  • 6bc3f3e Bump y in version x.y.z to odd number in devel by Dan Tenenbaum <dtenenba@fhcrc.org> 2013-04-03 22:06:11 +0000;
  • 42845c8 (origin/RELEASE_2_12, RELEASE_2_12) Creating branch for BioC 2.12 release. by Dan Tenenbaum <dtenenba@fhcrc.org> 2013-04-03 21:56:22 +0000;
  • 70830df bump y of x.y.z version number for BioC 2.12 release by Dan Tenenbaum <dtenenba@fhcrc.org> 2013-04-03 21:32:27 +0000;
  • 83451e4 add default to Seq$initialize arg to allow subclassing by Martin Morgan <mtmorgan@fhcrc.org> 2012-12-17 22:21:00 +0000;
  • 2d0750e bump package versions after creating 2.11 branch by Dan Tenenbaum <dtenenba@fhcrc.org> 2012-10-01 22:43:56 +0000;
  • a463d73 (origin/RELEASE_2_11, RELEASE_2_11) Creating branch for BioC 2.11 release. by Dan Tenenbaum <dtenenba@fhcrc.org> 2012-10-01 22:37:11 +0000;
  • d431b6b Bump all packages before creating 2.11 branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2012-10-01 22:16:24 +0000;
  • 3758c7f simplify presentation of documentation by Martin Morgan <mtmorgan@fhcrc.org> 2012-09-06 18:10:57 +0000;
  • c5e7aab DESCRIPTION and NAMESPACE updates, and version bump by Martin Morgan <mtmorgan@fhcrc.org> 2012-09-04 21:08:33 +0000;
  • 5b22cf0 DAGTeam class for evaluation on a DAG by Martin Morgan <mtmorgan@fhcrc.org> 2012-09-04 21:08:15 +0000;
  • 4464ce8 use Stream() for constructor, other code tidy by Martin Morgan <mtmorgan@fhcrc.org> 2012-09-04 21:07:34 +0000;
  • 52547bb more ParallelConnector removal by Martin Morgan <mtmorgan@fhcrc.org> 2012-09-04 21:05:30 +0000;
  • 437f830 remove ParallelConnector and related classes by Martin Morgan <mtmorgan@fhcrc.org> 2012-09-04 21:04:52 +0000;
  • 9ff3a97 use register() to get default ParallelParam; Team e.g. on Reducer man page by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-30 20:02:57 +0000;
  • 2b8b0dc Reducer-class to (periodically) collapse results by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-30 19:44:18 +0000;
  • 30a443e Team terminates on end of upstream by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-30 18:54:06 +0000;
  • f841355 Team works in Stream by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-28 19:14:37 +0000;
  • 6744af8 add ParallelParam class, Team generic & methods; doc tweaks by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-27 01:49:07 +0000;
  • 5978aaa Code, documentation re-arrangment / standardization by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-25 22:59:04 +0000;
  • 42746cf FunctionProducer, FunctionConsumer classes by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-25 22:58:00 +0000;
  • 76f39a8 l, sapply,Stream-methods by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-25 22:56:53 +0000;
  • 725f0fc updates to Seq class by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-25 19:49:53 +0000;
  • 3b12ee4 avoid link to (non-existent) mcparallel doc on Windows by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-25 04:59:56 +0000;
  • 63704ab more careful guess at Windows support for Team by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-25 04:57:12 +0000;
  • 17fb5e1 avoid importing mcparallel, mccollect, which are only exported on unix by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-23 23:11:24 +0000;
  • 320a244 move lapply,Producer-method to R, implement partial results by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-23 17:39:13 +0000;
  • fb18668 remove unnecessary PACKAGE by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-23 17:14:10 +0000;
  • 015ae83 lapply and sapply,Producer-method by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-22 03:44:51 +0000;
  • 144cb6a doc update for ConnectionProducer satisfies length() == 0 when done by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-22 03:43:45 +0000;
  • f6060c2 ConnectionProducer satisfies length() == 0 when done by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-22 03:42:05 +0000;
  • 37dad11 minor performance improvements by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-22 02:28:14 +0000;
  • f5ce962 update scan, readLines, and read.table producers by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-21 20:30:18 +0000;
  • bd49f34 remove 'yieldSize' from most functions to simplify interface by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-21 00:42:59 +0000;
  • f9142ec update unit test framework by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-20 21:43:09 +0000;
  • 7682e07 remove documentation for non-existent classes; tidy description by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-20 21:23:46 +0000;
  • 56611d6 use refClass method show() rather than S4 method by Martin Morgan <mtmorgan@fhcrc.org> 2012-08-20 17:25:08 +0000;