| 60850dc | Pjotr Prins | 16 December 2020, 10:18:06 UTC | Disable cmake, but leave the file with a message | 16 December 2020, 10:18:06 UTC |
| fc46a7f | Pjotr Prins | 16 December 2020, 10:12:05 UTC | Remove legacy version files and bump version | 16 December 2020, 10:12:05 UTC |
| d0113a1 | Pjotr Prins | 16 December 2020, 10:07:54 UTC | Added note | 16 December 2020, 10:07:54 UTC |
| 9773508 | Pjotr Prins | 16 December 2020, 10:05:16 UTC | Added optional --trim-complex-tail switch | 16 December 2020, 10:05:16 UTC |
| ce156da | Pjotr Prins | 13 December 2020, 13:19:12 UTC | Release v1.3.3 | 13 December 2020, 13:19:12 UTC |
| ec4db43 | Pjotr Prins | 13 December 2020, 13:14:08 UTC | Add github-ci badge | 13 December 2020, 13:14:08 UTC |
| 8b1ad8d | Pjotr Prins | 13 December 2020, 09:25:04 UTC | Github actions CI. Had to disable test and fix another not to depend on vcflib code base. | 13 December 2020, 13:08:22 UTC |
| 57bd60a | Pjotr Prins | 13 December 2020, 09:21:45 UTC | Tests | 13 December 2020, 09:21:45 UTC |
| 46d58ba | Pjotr Prins | 13 December 2020, 09:13:51 UTC | Split longer running test into two. Updated builds. | 13 December 2020, 09:13:57 UTC |
| a596804 | Pjotr Prins | 12 December 2020, 14:55:14 UTC | Trying badges | 12 December 2020, 14:55:14 UTC |
| 5efb7ee | Pjotr Prins | 12 December 2020, 14:49:05 UTC | Restoring commented out tests | 12 December 2020, 14:49:05 UTC |
| 7267c15 | Pjotr Prins | 12 December 2020, 13:19:04 UTC | Travis | 12 December 2020, 13:19:04 UTC |
| b538192 | Pjotr Prins | 12 December 2020, 13:09:31 UTC | Travis | 12 December 2020, 13:09:31 UTC |
| fb76ec9 | Pjotr Prins | 12 December 2020, 13:04:54 UTC | Getting ready for a release | 12 December 2020, 13:06:32 UTC |
| 02d0283 | Pjotr Prins | 12 December 2020, 11:03:17 UTC | Merge pull request #665 from pjotrp/master Moving to maven build system and removing dependencies | 12 December 2020, 11:03:17 UTC |
| ff7fdf2 | Pjotr Prins | 12 December 2020, 09:23:15 UTC | Applying Debian patch for Python2->3 migration. Thanks @tillea! Closes #569 | 12 December 2020, 10:58:25 UTC |
| 642e20a | Pjotr Prins | 11 December 2020, 08:49:22 UTC | Making tests work on travis and Guix | 12 December 2020, 10:58:25 UTC |
| 9ec4dad | Pjotr Prins | 10 December 2020, 12:32:53 UTC | Remove htslib from the source tree and build against stock htslib | 12 December 2020, 10:58:25 UTC |
| afa23fe | Pjotr Prins | 10 December 2020, 10:37:59 UTC | Compile lzma in for CRAM. bz2 is not working directly, but really should be in the upstream htslib library. | 12 December 2020, 10:58:25 UTC |
| a16e2bf | Pjotr Prins | 09 December 2020, 18:50:53 UTC | Travis CI fixes | 12 December 2020, 10:58:25 UTC |
| 376f511 | Pjotr Prins | 09 December 2020, 18:43:29 UTC | Remove Makefile Remove generated latex files | 12 December 2020, 10:58:25 UTC |
| f26e3d1 | Pjotr Prins | 09 December 2020, 18:38:41 UTC | CMake: note we moved to meson | 12 December 2020, 10:58:25 UTC |
| 662c6f3 | Pjotr Prins | 09 December 2020, 18:36:01 UTC | README | 12 December 2020, 10:58:25 UTC |
| 9007c15 | Pjotr Prins | 09 December 2020, 17:05:42 UTC | Test paths | 12 December 2020, 10:58:25 UTC |
| 13b4d87 | Pjotr Prins | 09 December 2020, 16:55:41 UTC | meson install bin | 12 December 2020, 10:58:25 UTC |
| d4d2db8 | Pjotr Prins | 09 December 2020, 16:32:45 UTC | Add tests to guix.scm | 12 December 2020, 10:58:25 UTC |
| e96887c | Pjotr Prins | 09 December 2020, 15:54:38 UTC | guix.scm: switch to meson | 12 December 2020, 10:58:25 UTC |
| 20ea85f | Pjotr Prins | 09 December 2020, 12:54:08 UTC | Tested with fresh checkout of vcflib | 12 December 2020, 10:58:25 UTC |
| 0fbbe64 | Pjotr Prins | 09 December 2020, 12:36:57 UTC | Reinstated bamleftalign build | 12 December 2020, 10:58:25 UTC |
| 7eb2bec | Pjotr Prins | 09 December 2020, 12:32:51 UTC | Moved htslib and added regression test | 12 December 2020, 10:58:25 UTC |
| 24f2b81 | Pjotr Prins | 09 December 2020, 11:03:06 UTC | Moved relevant SeqLib into contrib/SeqLib as repo local files | 12 December 2020, 10:58:25 UTC |
| 6676b93 | Pjotr Prins | 09 December 2020, 10:10:20 UTC | Add CRAM test and a hint in the README | 12 December 2020, 10:58:25 UTC |
| acf722d | Pjotr Prins | 09 December 2020, 09:57:21 UTC | Moving freebayes files that are not used to build freebayes itself | 12 December 2020, 10:58:25 UTC |
| c9917fb | Pjotr Prins | 09 December 2020, 09:33:05 UTC | Ignore patches | 12 December 2020, 10:58:25 UTC |
| 63af4fd | Pjotr Prins | 09 December 2020, 09:30:08 UTC | Add RELEASE notes file | 12 December 2020, 10:58:25 UTC |
| dedf534 | Pjotr Prins | 08 December 2020, 16:59:09 UTC | guix.scm: no need for vcflib! | 12 December 2020, 10:58:25 UTC |
| 75ba5a5 | Pjotr Prins | 08 December 2020, 16:58:35 UTC | - Removed confusing message on github - Added a note for slow running tests | 12 December 2020, 10:58:25 UTC |
| 2fc778a | Pjotr Prins | 08 December 2020, 15:13:05 UTC | bamleftalign builds with ninja | 12 December 2020, 10:58:25 UTC |
| a52c4a0 | Pjotr Prins | 08 December 2020, 14:34:20 UTC | Test travis to use ninja | 12 December 2020, 10:58:25 UTC |
| f1b1805 | Pjotr Prins | 08 December 2020, 14:22:25 UTC | Test travis to use ninja | 12 December 2020, 10:58:25 UTC |
| 8765d17 | Pjotr Prins | 08 December 2020, 14:19:25 UTC | Test travis to use ninja | 12 December 2020, 10:58:25 UTC |
| 533853b | Pjotr Prins | 08 December 2020, 14:08:55 UTC | Test travis to use ninja | 12 December 2020, 10:58:25 UTC |
| edbbd7e | Pjotr Prins | 08 December 2020, 14:05:56 UTC | Test travis to use ninja | 12 December 2020, 10:58:25 UTC |
| 38e06e5 | Pjotr Prins | 08 December 2020, 14:03:33 UTC | Adding version into REPO. It is a generated file, but no matter. | 12 December 2020, 10:58:25 UTC |
| 5527a20 | Pjotr Prins | 08 December 2020, 14:00:07 UTC | Test travis to use ninja | 12 December 2020, 10:58:25 UTC |
| fbd98e7 | Pjotr Prins | 08 December 2020, 13:51:58 UTC | Update travis to use ninja | 12 December 2020, 10:58:25 UTC |
| 084eff7 | Pjotr Prins | 08 December 2020, 13:40:03 UTC | Update travis to use ninja | 12 December 2020, 10:58:25 UTC |
| 3a20b00 | Pjotr Prins | 08 December 2020, 13:21:00 UTC | Update travis to use ninja | 12 December 2020, 10:58:25 UTC |
| c0305f6 | Pjotr Prins | 08 December 2020, 13:09:09 UTC | README.md | 12 December 2020, 10:58:25 UTC |
| 4f619bf | Pjotr Prins | 08 December 2020, 12:56:17 UTC | Meson build works in container: ninja -j 8 ninja test | 12 December 2020, 10:58:25 UTC |
| 257dc4a | Pjotr Prins | 08 December 2020, 09:56:01 UTC | All tests pass now in a guix container, except for one using vcfkeepinfo | 12 December 2020, 10:58:25 UTC |
| 2460001 | Pjotr Prins | 07 December 2020, 16:23:37 UTC | Added meson build - compiles freebayes in a Guix container | 12 December 2020, 10:58:25 UTC |
| f5385af | Pjotr Prins | 07 December 2020, 14:39:44 UTC | Add dependencies for tests and meson build system | 12 December 2020, 10:58:25 UTC |
| 8f1563f | Pjotr Prins | 07 December 2020, 12:31:34 UTC | git ignore CMake generated files | 12 December 2020, 10:58:25 UTC |
| c4d0a50 | Pjotr Prins | 28 November 2020, 11:15:37 UTC | README: Instructions for building with GNU Guix | 12 December 2020, 10:58:25 UTC |
| 2f25c89 | Pjotr Prins | 12 December 2020, 09:23:15 UTC | Applying Debian patch for Python2->3 migration. Thanks @tillea! Closes #569 | 12 December 2020, 10:57:12 UTC |
| 055e1ac | Pjotr Prins | 11 December 2020, 08:49:22 UTC | Making tests work on travis and Guix | 12 December 2020, 10:56:41 UTC |
| c11d021 | Pjotr Prins | 12 December 2020, 10:52:12 UTC | Merge pull request #632 from SebastianHollizeck/master WIP: set cram reference for the reader | 12 December 2020, 10:52:12 UTC |
| 9ce3d7e | Pjotr Prins | 10 December 2020, 12:32:53 UTC | Remove htslib from the source tree and build against stock htslib | 12 December 2020, 09:18:33 UTC |
| 01724a1 | Pjotr Prins | 10 December 2020, 10:37:59 UTC | Compile lzma in for CRAM. bz2 is not working directly, but really should be in the upstream htslib library. | 12 December 2020, 09:18:33 UTC |
| 0da0562 | Pjotr Prins | 09 December 2020, 18:50:53 UTC | Travis CI fixes | 12 December 2020, 09:18:33 UTC |
| 900cc93 | Pjotr Prins | 09 December 2020, 18:43:29 UTC | Remove Makefile Remove generated latex files | 12 December 2020, 09:18:33 UTC |
| 6fe123e | Pjotr Prins | 09 December 2020, 18:38:41 UTC | CMake: note we moved to meson | 12 December 2020, 09:18:33 UTC |
| d1a3d2b | Pjotr Prins | 09 December 2020, 18:36:01 UTC | README | 12 December 2020, 09:18:33 UTC |
| 6e30054 | Pjotr Prins | 09 December 2020, 17:05:42 UTC | Test paths | 12 December 2020, 09:18:33 UTC |
| 48a3934 | Pjotr Prins | 09 December 2020, 16:55:41 UTC | meson install bin | 12 December 2020, 09:18:33 UTC |
| ac760ea | Pjotr Prins | 09 December 2020, 16:32:45 UTC | Add tests to guix.scm | 12 December 2020, 09:18:33 UTC |
| a0d8d3a | Pjotr Prins | 09 December 2020, 15:54:38 UTC | guix.scm: switch to meson | 12 December 2020, 09:18:33 UTC |
| 23d6839 | Pjotr Prins | 09 December 2020, 12:54:08 UTC | Tested with fresh checkout of vcflib | 12 December 2020, 09:18:33 UTC |
| 69daa14 | Pjotr Prins | 09 December 2020, 12:36:57 UTC | Reinstated bamleftalign build | 12 December 2020, 09:18:33 UTC |
| 9462e4d | Pjotr Prins | 09 December 2020, 12:32:51 UTC | Moved htslib and added regression test | 12 December 2020, 09:18:33 UTC |
| 497ba2a | Pjotr Prins | 09 December 2020, 11:03:06 UTC | Moved relevant SeqLib into contrib/SeqLib as repo local files | 12 December 2020, 09:18:33 UTC |
| fde40df | Pjotr Prins | 09 December 2020, 10:10:20 UTC | Add CRAM test and a hint in the README | 12 December 2020, 09:18:33 UTC |
| 08c6809 | Pjotr Prins | 09 December 2020, 09:57:21 UTC | Moving freebayes files that are not used to build freebayes itself | 12 December 2020, 09:18:33 UTC |
| 3fb9869 | Pjotr Prins | 09 December 2020, 09:33:05 UTC | Ignore patches | 12 December 2020, 09:18:33 UTC |
| 3cb4313 | Pjotr Prins | 09 December 2020, 09:30:08 UTC | Add RELEASE notes file | 12 December 2020, 09:18:33 UTC |
| 4bbfba0 | Pjotr Prins | 08 December 2020, 16:59:09 UTC | guix.scm: no need for vcflib! | 12 December 2020, 09:18:33 UTC |
| eb42022 | Pjotr Prins | 08 December 2020, 16:58:35 UTC | - Removed confusing message on github - Added a note for slow running tests | 12 December 2020, 09:18:33 UTC |
| a7d7c86 | Pjotr Prins | 08 December 2020, 15:13:05 UTC | bamleftalign builds with ninja | 12 December 2020, 09:18:33 UTC |
| 31201ad | Pjotr Prins | 08 December 2020, 14:34:20 UTC | Test travis to use ninja | 12 December 2020, 09:18:33 UTC |
| 17f97c5 | Pjotr Prins | 08 December 2020, 14:22:25 UTC | Test travis to use ninja | 12 December 2020, 09:18:33 UTC |
| d3b846f | Pjotr Prins | 08 December 2020, 14:19:25 UTC | Test travis to use ninja | 12 December 2020, 09:18:33 UTC |
| f1217b0 | Pjotr Prins | 08 December 2020, 14:08:55 UTC | Test travis to use ninja | 12 December 2020, 09:18:33 UTC |
| c8f56fc | Pjotr Prins | 08 December 2020, 14:05:56 UTC | Test travis to use ninja | 12 December 2020, 09:18:33 UTC |
| 702638e | Pjotr Prins | 08 December 2020, 14:03:33 UTC | Adding version into REPO. It is a generated file, but no matter. | 12 December 2020, 09:18:33 UTC |
| ac035fa | Pjotr Prins | 08 December 2020, 14:00:07 UTC | Test travis to use ninja | 12 December 2020, 09:18:33 UTC |
| 2ac4525 | Pjotr Prins | 08 December 2020, 13:51:58 UTC | Update travis to use ninja | 12 December 2020, 09:18:33 UTC |
| 2d6faa8 | Pjotr Prins | 08 December 2020, 13:40:03 UTC | Update travis to use ninja | 12 December 2020, 09:18:33 UTC |
| e3df9ac | Pjotr Prins | 08 December 2020, 13:21:00 UTC | Update travis to use ninja | 12 December 2020, 09:18:33 UTC |
| 72ce4df | Pjotr Prins | 08 December 2020, 13:09:09 UTC | README.md | 12 December 2020, 09:18:33 UTC |
| 2663d33 | Pjotr Prins | 08 December 2020, 12:56:17 UTC | Meson build works in container: ninja -j 8 ninja test | 12 December 2020, 09:18:33 UTC |
| 4a8b5f1 | Pjotr Prins | 08 December 2020, 09:56:01 UTC | All tests pass now in a guix container, except for one using vcfkeepinfo | 12 December 2020, 09:18:33 UTC |
| 6bd510c | Pjotr Prins | 07 December 2020, 16:23:37 UTC | Added meson build - compiles freebayes in a Guix container | 12 December 2020, 09:18:33 UTC |
| 06652cd | Pjotr Prins | 07 December 2020, 14:39:44 UTC | Add dependencies for tests and meson build system | 12 December 2020, 09:18:33 UTC |
| e72cc1f | Pjotr Prins | 07 December 2020, 12:31:34 UTC | git ignore CMake generated files | 12 December 2020, 09:18:33 UTC |
| bc49667 | Pjotr Prins | 28 November 2020, 11:15:37 UTC | README: Instructions for building with GNU Guix | 12 December 2020, 09:18:33 UTC |
| 2e02fc3 | Pjotr Prins | 12 December 2020, 06:55:13 UTC | Update issue-tracker-bot.yaml | 12 December 2020, 06:55:13 UTC |
| c2815e7 | Pjotr Prins | 11 December 2020, 21:49:02 UTC | Merge pull request #474 from alanhoyle/patch-1 coverage_to_regions.py should take ref.fa.fai | 11 December 2020, 21:49:02 UTC |
| 88d952b | Pjotr Prins | 11 December 2020, 21:47:44 UTC | Merge pull request #549 from Nheyer/master Fix for the use of scientific notation in large gvcf chunks, and fixing typos | 11 December 2020, 21:47:44 UTC |
| 68fc8fc | Pjotr Prins | 11 December 2020, 18:32:26 UTC | Merge pull request #563 from leecbaker/gvcf_qa_qr_types Fix: integer fields QA and QR are printed as floats in GVCF | 11 December 2020, 18:32:26 UTC |
