| 092813c | chrisjackson | 17 July 2024, 01:58:08 UTC | Update to v2.2.0 | 17 July 2024, 01:58:08 UTC |
| 24e9652 | chrisjackson | 17 July 2024, 01:56:34 UTC | Update to v2.2.0 | 17 July 2024, 01:56:34 UTC |
| 974bb1a | chrisjackson | 17 July 2024, 01:53:46 UTC | Update to v2.2.0 | 17 July 2024, 01:53:46 UTC |
| cf99079 | chrisjackson | 17 July 2024, 01:52:46 UTC | Update to v2.2.0 | 17 July 2024, 01:52:46 UTC |
| d080ddb | chrisjackson | 17 July 2024, 01:26:55 UTC | Update to v2.2.0 | 17 July 2024, 01:26:55 UTC |
| c279c84 | chrisjackson | 17 July 2024, 01:00:23 UTC | Update to v2.2.0 | 17 July 2024, 01:00:23 UTC |
| 66fe3c1 | chrisjackson | 17 July 2024, 00:59:51 UTC | Update to v2.2.0 | 17 July 2024, 00:59:51 UTC |
| 7c2f897 | chrisjackson | 17 July 2024, 00:53:19 UTC | Update to v2.2.0 | 17 July 2024, 00:53:19 UTC |
| 66e18b0 | chrisjackson | 17 July 2024, 00:53:06 UTC | Update to v2.2.0 | 17 July 2024, 00:53:06 UTC |
| ff53e42 | chrisjackson | 16 July 2024, 23:39:38 UTC | Update to v2.2.0 | 16 July 2024, 23:39:38 UTC |
| 55fe81e | chrisjackson | 16 July 2024, 23:02:25 UTC | Update to v2.2.0 | 16 July 2024, 23:02:25 UTC |
| 98bc406 | chrisjackson | 16 July 2024, 23:00:25 UTC | Update to v2.2.0 | 16 July 2024, 23:00:25 UTC |
| 64a362f | chrisjackson | 16 July 2024, 22:53:59 UTC | Update to v2.2.0 | 16 July 2024, 22:53:59 UTC |
| ab80856 | chrisjackson | 16 July 2024, 22:52:18 UTC | Update to v2.2.0 | 16 July 2024, 22:52:18 UTC |
| d440b48 | chrisjackson | 16 July 2024, 21:24:29 UTC | Update to v2.2.0 | 16 July 2024, 21:24:29 UTC |
| c4c0bea | chrisjackson | 16 July 2024, 09:46:50 UTC | Update to v2.2.0 | 16 July 2024, 09:46:50 UTC |
| a5b5ead | chrisjackson | 16 July 2024, 09:38:28 UTC | Update to v2.2.0 | 16 July 2024, 09:38:28 UTC |
| 0c6cb85 | chrisjackson | 16 July 2024, 06:26:28 UTC | Update to v2.2.0 | 16 July 2024, 06:26:28 UTC |
| 35e1a14 | chrisjackson | 16 July 2024, 06:23:36 UTC | Update to v2.2.0 | 16 July 2024, 06:23:36 UTC |
| 9167c10 | chrisjackson | 16 July 2024, 06:23:14 UTC | Update to v2.2.0 | 16 July 2024, 06:23:14 UTC |
| 4b12850 | chrisjackson | 16 July 2024, 06:19:55 UTC | Update to v2.2.0 | 16 July 2024, 06:19:55 UTC |
| 33fa355 | chrisjackson | 16 July 2024, 06:18:48 UTC | Update to v2.2.0 | 16 July 2024, 06:18:48 UTC |
| 95a693d | chrisjackson | 16 July 2024, 03:31:38 UTC | Update to v2.2.0 | 16 July 2024, 03:31:38 UTC |
| d78f4c9 | chrisjackson | 16 July 2024, 02:46:26 UTC | Update to v2.2.0 | 16 July 2024, 02:46:26 UTC |
| 2f2bfc6 | chrisjackson | 16 July 2024, 02:16:55 UTC | Update to v2.2.0 | 16 July 2024, 02:16:55 UTC |
| 99dc370 | chrisjackson | 16 July 2024, 02:15:18 UTC | Update to v2.2.0 | 16 July 2024, 02:15:18 UTC |
| 40fbe43 | chrisjackson | 16 July 2024, 02:12:56 UTC | Update to v2.2.0 | 16 July 2024, 02:12:56 UTC |
| 33f6d42 | chrisjackson | 10 July 2024, 09:45:09 UTC | Update to v2.1.9 | 10 July 2024, 09:45:09 UTC |
| 8054953 | chrisjackson | 10 July 2024, 09:43:08 UTC | Update to v2.1.9 | 10 July 2024, 09:43:08 UTC |
| a636af7 | chrisjackson | 10 July 2024, 09:42:46 UTC | Update to v2.1.9 | 10 July 2024, 09:42:46 UTC |
| a31f413 | chrisjackson | 10 July 2024, 09:36:55 UTC | Update to v2.1.9 | 10 July 2024, 09:36:55 UTC |
| ff5852d | chrisjackson | 10 July 2024, 09:36:43 UTC | Update to v2.1.9 | 10 July 2024, 09:36:43 UTC |
| e99db88 | chrisjackson | 10 July 2024, 09:36:28 UTC | Update to v2.1.9 | 10 July 2024, 09:36:28 UTC |
| 09f2d0c | chrisjackson | 10 July 2024, 09:36:14 UTC | Update to v2.1.9 | 10 July 2024, 09:36:14 UTC |
| cf691a2 | chrisjackson | 10 July 2024, 09:35:57 UTC | Update to v2.1.9 | 10 July 2024, 09:35:57 UTC |
| 91b5343 | chrisjackson | 10 July 2024, 09:35:30 UTC | Update to v2.1.9 | 10 July 2024, 09:35:30 UTC |
| 4a4806b | chrisjackson | 10 July 2024, 09:34:53 UTC | Update to v2.1.9 | 10 July 2024, 09:34:53 UTC |
| 2cbffba | chrisjackson | 09 July 2024, 23:16:09 UTC | Update to v2.1.9 | 09 July 2024, 23:16:09 UTC |
| 7afc460 | chrisjackson | 09 July 2024, 06:47:36 UTC | Update to v2.1.9 | 09 July 2024, 06:47:36 UTC |
| 906cb50 | chrisjackson | 09 July 2024, 06:40:30 UTC | Update to v2.1.9 | 09 July 2024, 06:40:30 UTC |
| 614f085 | chrisjackson | 09 July 2024, 06:40:20 UTC | Update to v2.1.9 | 09 July 2024, 06:40:20 UTC |
| d318d4a | chrisjackson | 09 July 2024, 06:40:00 UTC | Update to v2.1.9 | 09 July 2024, 06:40:00 UTC |
| 3a9d189 | chrisjackson | 09 July 2024, 06:38:51 UTC | Update to v2.1.9 | 09 July 2024, 06:38:51 UTC |
| 377626e | chrisjackson | 09 July 2024, 02:33:55 UTC | Update to v2.1.9 | 09 July 2024, 02:33:55 UTC |
| 84a0193 | chrisjackson | 08 July 2024, 05:53:42 UTC | Update to v2.1.9 | 08 July 2024, 05:53:42 UTC |
| 8330b1a | chrisjackson | 08 July 2024, 03:50:23 UTC | Update to v2.1.9 | 08 July 2024, 03:50:23 UTC |
| 3b1bb18 | chrisjackson | 08 July 2024, 03:49:47 UTC | Update to v2.1.9 | 08 July 2024, 03:49:47 UTC |
| 9c9ee92 | chrisjackson | 08 July 2024, 03:49:25 UTC | Update to v2.1.9 | 08 July 2024, 03:49:25 UTC |
| 8200a60 | chrisjackson | 08 July 2024, 03:48:39 UTC | Update to v2.1.9 | 08 July 2024, 03:48:39 UTC |
| f41c04e | chrisjackson | 08 July 2024, 01:56:50 UTC | Update to v2.1.9 | 08 July 2024, 01:56:50 UTC |
| a7dcb97 | chrisjackson | 08 July 2024, 01:56:14 UTC | Update to v2.1.9 | 08 July 2024, 01:56:14 UTC |
| b3af123 | chrisjackson | 08 July 2024, 01:41:46 UTC | Update to v2.1.9 | 08 July 2024, 01:41:46 UTC |
| 030ed73 | chrisjackson | 08 July 2024, 01:41:16 UTC | Update to v2.1.9 | 08 July 2024, 01:41:16 UTC |
| 6ca4e4c | chrisjackson | 08 July 2024, 01:40:16 UTC | Update to v2.1.9 | 08 July 2024, 01:40:16 UTC |
| 8bca0cc | chrisjackson | 08 July 2024, 00:52:21 UTC | Update to v2.1.9 | 08 July 2024, 00:52:21 UTC |
| b5cb913 | chrisjackson | 08 July 2024, 00:51:45 UTC | Update to v2.1.9 | 08 July 2024, 00:51:45 UTC |
| d459e3c | chrisjackson | 08 July 2024, 00:51:00 UTC | Update to v2.1.9 | 08 July 2024, 00:51:00 UTC |
| bde5efc | chrisjackson | 06 July 2024, 21:15:43 UTC | Update to v2.1.9 | 06 July 2024, 21:15:43 UTC |
| 9fe7ee6 | chrisjackson | 06 July 2024, 21:09:56 UTC | Update to v2.1.9 | 06 July 2024, 21:09:56 UTC |
| bb583e0 | chrisjackson | 06 July 2024, 04:42:59 UTC | Update to v2.1.9 | 06 July 2024, 04:42:59 UTC |
| b818445 | chrisjackson | 05 July 2024, 08:35:24 UTC | Update to v2.1.9 | 05 July 2024, 08:35:24 UTC |
| 40728cf | chrisjackson | 05 July 2024, 06:47:03 UTC | Update to v2.1.9 | 05 July 2024, 06:47:03 UTC |
| b73ea3d | chrisjackson | 04 July 2024, 21:39:59 UTC | Update to v2.1.9 | 04 July 2024, 21:39:59 UTC |
| 0da552f | chrisjackson | 26 June 2024, 00:02:25 UTC | Typo and docstring update | 26 June 2024, 00:02:25 UTC |
| 63d2a29 | chrisjackson | 25 June 2024, 04:03:40 UTC | Merge remote-tracking branch 'origin/master' | 25 June 2024, 04:03:40 UTC |
| 0f8c2e1 | chrisjackson | 25 June 2024, 04:03:09 UTC | Update README.md | 25 June 2024, 04:03:09 UTC |
| 9e6b6d4 | chrisjackson | 25 June 2024, 03:59:38 UTC | Added new module filter_by_length.py and subcommand `hybpiper filter_by_length` | 25 June 2024, 03:59:38 UTC |
| 3eb2afc | chrisjackson | 12 June 2024, 03:57:37 UTC | Added new module filter_by_length.py and subcommand `hybpiper filter_by_length` | 12 June 2024, 03:57:37 UTC |
| 75e443b | chrisjackson | 12 June 2024, 03:57:22 UTC | Added new module filter_by_length.py and subcommand `hybpiper filter_by_length` | 12 June 2024, 03:57:22 UTC |
| 750d85b | chrisjackson | 11 June 2024, 04:00:30 UTC | Remove import of MafftCommandline in fix_targetfile.py; update target file fasta header regex | 11 June 2024, 04:00:30 UTC |
| a86dd18 | Chris Jackson | 29 May 2024, 23:50:44 UTC | Update README.md | 29 May 2024, 23:50:44 UTC |
| 9e09bd0 | Chris Jackson | 29 May 2024, 23:49:22 UTC | Update README.md | 29 May 2024, 23:49:22 UTC |
| ffff130 | Chris Jackson | 29 May 2024, 02:31:53 UTC | Update README.md | 29 May 2024, 02:31:53 UTC |
| 8feb124 | chrisjackson | 09 May 2024, 04:57:53 UTC | Update bioconda badge | 09 May 2024, 04:57:53 UTC |
| 3266ec0 | chrisjackson | 09 May 2024, 04:56:19 UTC | Update version in README.md | 09 May 2024, 04:56:19 UTC |
| 5c97719 | chrisjackson | 09 May 2024, 04:55:00 UTC | Update test dataset | 09 May 2024, 04:55:00 UTC |
| 5f0514c | chrisjackson | 09 May 2024, 03:24:49 UTC | Bugfix trimming to first codon with similarity when trimming Exonerate HSP hits | 09 May 2024, 03:24:49 UTC |
| cf94339 | chrisjackson | 11 April 2024, 07:05:08 UTC | Use importlib.metadata rather than pkg_resources to check package versions, due to deprecation of latter | 11 April 2024, 07:05:08 UTC |
| bdb09ba | chrisjackson | 11 April 2024, 06:18:55 UTC | Do not allow quotation marks in target file fasta headers (issue #123, #125) | 11 April 2024, 06:18:55 UTC |
| 01394c9 | chrisjackson | 11 April 2024, 05:56:00 UTC | Generate a warning rather than raising an error when no '*_genes_derived_from_putative_chimeric_stitched_contig.csv' found for a sample. | 11 April 2024, 05:56:00 UTC |
| bd5267f | chrisjackson | 11 April 2024, 05:25:22 UTC | stats and retrieve_sequences - do not allow slashes in sample names in namelist.txt | 11 April 2024, 05:25:22 UTC |
| cadd1eb | chrisjackson | 03 April 2024, 02:59:28 UTC | Add sys.exit() if dependencies not found | 03 April 2024, 02:59:28 UTC |
| 565e182 | chrisjackson | 19 July 2023, 04:24:28 UTC | Update for v2.1.6 | 19 July 2023, 04:24:28 UTC |
| a98e5a6 | chrisjackson | 19 July 2023, 04:01:22 UTC | Update for v2.1.6 | 19 July 2023, 04:01:22 UTC |
| de93f64 | chrisjackson | 19 July 2023, 04:00:09 UTC | Change default heatmap DPI to 100, add --no_xlabels and --no_ylabels flags | 19 July 2023, 04:00:09 UTC |
| d2d869d | chrisjackson | 19 July 2023, 03:59:05 UTC | Add TotalBasesRecovered to filter_by options | 19 July 2023, 03:59:05 UTC |
| cbf54d4 | chrisjackson | 19 July 2023, 03:58:16 UTC | Add TotalBasesRecovered columns to stats report | 19 July 2023, 03:58:16 UTC |
| 41a6f84 | chrisjackson | 19 July 2023, 03:53:14 UTC | bugfix break_on_hyphens | 19 July 2023, 03:53:14 UTC |
| 0b25700 | chrisjackson | 19 July 2023, 03:52:31 UTC | Update no_intronerate for standalone | 19 July 2023, 03:52:31 UTC |
| 18b43df | chrisjackson | 19 July 2023, 03:47:56 UTC | Update exonerate_contigs/intronerate error handling, update version handling. | 19 July 2023, 03:47:56 UTC |
| caf2c9d | chrisjackson | 19 July 2023, 00:13:07 UTC | Readjust figure size and DPI if auto-calculated size will be larger than 65536 pixels in either dimension | 19 July 2023, 00:13:07 UTC |
| 6645bec | chrisjackson | 19 July 2023, 00:12:59 UTC | Readjust figure size and DPI if auto-calculated size will be larger than 65536 pixels in either dimension | 19 July 2023, 00:12:59 UTC |
| 3a84bdf | chrisjackson | 18 July 2023, 22:43:47 UTC | Default heatmap DPI to 100, add --no_xlabels and --no_ylabels | 18 July 2023, 22:43:47 UTC |
| 93091c9 | chrisjackson | 18 July 2023, 22:43:00 UTC | Print/log version | 18 July 2023, 22:43:00 UTC |
| 89165c1 | chrisjackson | 18 July 2023, 22:42:38 UTC | Print/log version | 18 July 2023, 22:42:38 UTC |
| 358a56b | chrisjackson | 18 July 2023, 22:42:15 UTC | Print/log version | 18 July 2023, 22:42:15 UTC |
| 841fb67 | chrisjackson | 18 July 2023, 22:41:48 UTC | Update error handling for exonerate, update version | 18 July 2023, 22:41:48 UTC |
| a4cda75 | chrisjackson | 18 July 2023, 06:05:45 UTC | Change default DPI to 100 for heatmaps | 18 July 2023, 06:05:45 UTC |
| 898d08b | chrisjackson | 18 July 2023, 06:04:48 UTC | Add version.py module | 18 July 2023, 06:04:48 UTC |
| 01e6bff | chrisjackson | 18 July 2023, 06:04:29 UTC | import version from version.py module | 18 July 2023, 06:04:29 UTC |
