| 25184cf | Christoph Püthe | 29 January 2021, 16:16:24 UTC | add workflow name for github badge | 29 January 2021, 16:16:24 UTC |
| 2be742a | Christoph Püthe | 29 January 2021, 14:52:57 UTC | Merge pull request #294 from sanger-pathogens/dockerandci get CI and Docker build running | 29 January 2021, 14:52:57 UTC |
| 05f6b3c | puethe | 29 January 2021, 14:41:52 UTC | get CI and Docker build running | 29 January 2021, 14:41:52 UTC |
| aad6897 | nickjcroucher | 28 January 2021, 22:38:53 UTC | Merge pull request #293 from sanger-pathogens/fixdocker Update creation of Dockerfile | 28 January 2021, 22:38:53 UTC |
| ed3601f | nickjcroucher | 28 January 2021, 19:51:34 UTC | Further edit to RAxML selection function | 28 January 2021, 19:51:34 UTC |
| 4f06dbe | nickjcroucher | 28 January 2021, 19:41:37 UTC | Restore RAxML selection function | 28 January 2021, 19:41:37 UTC |
| afba6b5 | nickjcroucher | 28 January 2021, 19:28:30 UTC | Alter RAxML selection function | 28 January 2021, 19:28:30 UTC |
| be29846 | puethe | 28 January 2021, 18:12:45 UTC | working Dockerfile based on pytest | 28 January 2021, 18:12:45 UTC |
| 58c2009 | puethe | 28 January 2021, 17:31:13 UTC | workflow back to original | 28 January 2021, 17:31:13 UTC |
| c27e1da | puethe | 28 January 2021, 17:21:03 UTC | add coverage back | 28 January 2021, 17:21:03 UTC |
| db46ba7 | puethe | 28 January 2021, 17:06:50 UTC | pure pytest | 28 January 2021, 17:06:50 UTC |
| d89a468 | puethe | 28 January 2021, 15:50:52 UTC | improve choosing executable by processor | 28 January 2021, 15:50:52 UTC |
| 86f0856 | puethe | 28 January 2021, 14:35:32 UTC | try with sudo | 28 January 2021, 14:35:32 UTC |
| 3556567 | puethe | 28 January 2021, 12:25:17 UTC | get Docker working | 28 January 2021, 12:25:17 UTC |
| edbec91 | puethe | 27 January 2021, 17:51:51 UTC | update readme/changelog | 27 January 2021, 17:51:51 UTC |
| dad074e | Christoph Püthe | 27 January 2021, 17:18:34 UTC | Merge pull request #291 from nickjcroucher/master Upgrade to version 3.0 | 27 January 2021, 17:18:34 UTC |
| 2974f5f | nickjcroucher | 27 January 2021, 10:30:49 UTC | Tidy up installation and version parsing | 27 January 2021, 10:30:49 UTC |
| 1be6b5b | nickjcroucher | 27 January 2021, 10:15:13 UTC | Change install prefix | 27 January 2021, 10:15:13 UTC |
| 5c87c32 | nickjcroucher | 27 January 2021, 09:58:16 UTC | Try sudo install | 27 January 2021, 09:58:16 UTC |
| cae86c5 | nickjcroucher | 27 January 2021, 09:16:56 UTC | Add make install to testing | 27 January 2021, 09:16:56 UTC |
| 4474151 | nickjcroucher | 27 January 2021, 08:24:38 UTC | Merge version information | 27 January 2021, 08:24:38 UTC |
| a9c9026 | nickjcroucher | 25 January 2021, 21:23:30 UTC | Edit threads argument description | 25 January 2021, 21:24:42 UTC |
| abed3bc | nickjcroucher | 25 January 2021, 21:18:07 UTC | Append to PATH before installation | 25 January 2021, 21:18:07 UTC |
| 5577a74 | nickjcroucher | 25 January 2021, 20:34:28 UTC | Add to path for package search | 25 January 2021, 20:34:28 UTC |
| f355825 | nickjcroucher | 25 January 2021, 20:22:24 UTC | Remove version from __init__ | 25 January 2021, 20:22:24 UTC |
| 688425d | nickjcroucher | 25 January 2021, 19:40:56 UTC | Clarify menu options | 25 January 2021, 19:40:56 UTC |
| 35ee8fe | nickjcroucher | 19 January 2021, 22:38:56 UTC | Make raxmlng test more stable | 19 January 2021, 22:38:56 UTC |
| 8964a69 | nickjcroucher | 19 January 2021, 22:29:40 UTC | Remove downloaded files | 19 January 2021, 22:29:40 UTC |
| 35b99bb | nickjcroucher | 19 January 2021, 22:26:59 UTC | apt-get only run with Linux | 19 January 2021, 22:26:59 UTC |
| 51f3c46 | nickjcroucher | 19 January 2021, 21:51:56 UTC | Change menu options | 19 January 2021, 21:51:56 UTC |
| 77883a8 | nickjcroucher | 19 January 2021, 21:10:01 UTC | Improve memory management error message | 19 January 2021, 21:10:01 UTC |
| d8be9e1 | nickjcroucher | 19 January 2021, 19:49:15 UTC | Add missing dependencies to installation files | 19 January 2021, 19:49:15 UTC |
| aa75c84 | nickjcroucher | 19 January 2021, 19:45:29 UTC | Specify versions in environment.yml | 19 January 2021, 19:45:29 UTC |
| 2377005 | nickjcroucher | 19 January 2021, 19:40:12 UTC | Remove Makefile.in | 19 January 2021, 19:40:12 UTC |
| cf21522 | nickjcroucher | 19 January 2021, 19:28:44 UTC | Use shutil to move file | 19 January 2021, 19:28:44 UTC |
| f34b0dd | nickjcroucher | 07 January 2021, 16:56:22 UTC | Update help message | 07 January 2021, 16:56:22 UTC |
| e7b7fb4 | nickjcroucher | 06 January 2021, 09:26:16 UTC | Introduce bootstrapping tests | 06 January 2021, 09:26:16 UTC |
| 0dbe412 | nickjcroucher | 06 January 2021, 08:24:06 UTC | Change names of intermediate files | 06 January 2021, 08:24:06 UTC |
| 83f4316 | nickjcroucher | 05 January 2021, 21:46:13 UTC | Simplify code coverage upload | 05 January 2021, 21:46:13 UTC |
| 3e478b2 | nickjcroucher | 05 January 2021, 21:25:19 UTC | Update code for selecting RAxML algorithm based on CPU | 05 January 2021, 21:25:48 UTC |
| 12b9189 | nickjcroucher | 05 January 2021, 19:59:39 UTC | Multi-thread tests | 05 January 2021, 19:59:39 UTC |
| 7c3048e | nickjcroucher | 05 January 2021, 16:43:22 UTC | Fix clean up function | 05 January 2021, 16:43:22 UTC |
| eb3a880 | nickjcroucher | 05 January 2021, 16:33:47 UTC | Fix clean up function | 05 January 2021, 16:33:47 UTC |
| d72efa3 | nickjcroucher | 05 January 2021, 16:03:48 UTC | Refine clean up function | 05 January 2021, 16:03:48 UTC |
| 7895b7e | nickjcroucher | 05 January 2021, 15:36:49 UTC | Define working directory | 05 January 2021, 15:36:49 UTC |
| 2e21266 | nickjcroucher | 05 January 2021, 14:56:07 UTC | Exit when unable to find suitable RAxML software | 05 January 2021, 14:56:07 UTC |
| 6cc85a7 | nickjcroucher | 05 January 2021, 14:29:42 UTC | Test for RAxML-specific problems | 05 January 2021, 14:29:42 UTC |
| 30221f6 | nickjcroucher | 05 January 2021, 12:48:53 UTC | Fix clean up test | 05 January 2021, 12:48:53 UTC |
| 3180e27 | nickjcroucher | 05 January 2021, 12:40:52 UTC | Make clean up test verbose | 05 January 2021, 12:40:52 UTC |
| affad5f | nickjcroucher | 05 January 2021, 12:32:15 UTC | Extra clean up for tests | 05 January 2021, 12:32:15 UTC |
| 01ea19a | nickjcroucher | 05 January 2021, 12:03:41 UTC | Extra clean up for tests | 05 January 2021, 12:03:41 UTC |
| d0dcf8a | nickjcroucher | 05 January 2021, 11:36:58 UTC | Make tests give verbose outputs | 05 January 2021, 11:36:58 UTC |
| 68083f6 | nickjcroucher | 05 January 2021, 11:24:29 UTC | Further fixes to test data paths | 05 January 2021, 11:24:29 UTC |
| 817a1da | nickjcroucher | 05 January 2021, 11:01:33 UTC | Change handling of file paths in tests | 05 January 2021, 11:01:33 UTC |
| a32154c | nickjcroucher | 05 January 2021, 10:32:27 UTC | Change paths for testing files | 05 January 2021, 10:32:27 UTC |
| 5d220dd | nickjcroucher | 05 January 2021, 10:03:26 UTC | Change python testing to use consistent python version | 05 January 2021, 10:03:26 UTC |
| ebc52d4 | nickjcroucher | 05 January 2021, 09:22:40 UTC | Change coverage calculation for python code | 05 January 2021, 09:22:40 UTC |
| 496cb05 | nickjcroucher | 05 January 2021, 08:55:24 UTC | Fix code coverage command for python tests | 05 January 2021, 08:55:24 UTC |
| b7dac21 | nickjcroucher | 05 January 2021, 08:27:19 UTC | Change to python 3.x and fix ambiguous test | 05 January 2021, 08:27:19 UTC |
| 856a1cb | nickjcroucher | 05 January 2021, 06:21:28 UTC | Bump version | 05 January 2021, 06:21:28 UTC |
| 526500c | nickjcroucher | 05 January 2021, 06:20:44 UTC | Fix null pointer warning in test | 05 January 2021, 06:20:44 UTC |
| 76e6e0b | nickjcroucher | 05 January 2021, 06:12:18 UTC | Remove scripts dir reference from makefile | 05 January 2021, 06:12:18 UTC |
| 24379be | nickjcroucher | 04 January 2021, 22:39:36 UTC | Change version retrieval | 04 January 2021, 22:39:36 UTC |
| 1d2d105 | nickjcroucher | 04 January 2021, 22:28:07 UTC | Restructure runner script | 04 January 2021, 22:28:07 UTC |
| 0ad0a85 | nickjcroucher | 04 January 2021, 22:23:26 UTC | Remove obsolete scripts directory | 04 January 2021, 22:23:26 UTC |
| d5eccea | nickjcroucher | 04 January 2021, 22:22:26 UTC | Add model fitting tests | 04 January 2021, 22:22:26 UTC |
| 78dff3d | nickjcroucher | 04 January 2021, 16:50:40 UTC | Remove unneeded file | 04 January 2021, 16:50:40 UTC |
| 7555f05 | nickjcroucher | 04 January 2021, 16:49:39 UTC | Remove unnecessary import | 04 January 2021, 16:49:39 UTC |
| be6ae19 | nickjcroucher | 04 January 2021, 16:40:05 UTC | Fix raxmlng model fitting file names | 04 January 2021, 16:40:05 UTC |
| 5e35e9e | nickjcroucher | 04 January 2021, 15:33:57 UTC | Move run_gubbins.py | 04 January 2021, 15:33:57 UTC |
| 76fbea3 | nickjcroucher | 04 January 2021, 13:30:45 UTC | Remove codecov command | 04 January 2021, 13:30:45 UTC |
| b3313da | nickjcroucher | 04 January 2021, 13:26:25 UTC | Add installation of pytest-cov | 04 January 2021, 13:26:25 UTC |
| dbf1f77 | nickjcroucher | 04 January 2021, 13:19:00 UTC | Update codecov settings | 04 January 2021, 13:19:00 UTC |
| cbfec18 | nickjcroucher | 04 January 2021, 11:27:12 UTC | Change version handling | 04 January 2021, 11:27:12 UTC |
| 4d94df4 | nickjcroucher | 04 January 2021, 10:38:58 UTC | Change codecov installation on linux | 04 January 2021, 10:38:58 UTC |
| 7ff1ffb | nickjcroucher | 04 January 2021, 10:30:55 UTC | Fix description function | 04 January 2021, 10:30:55 UTC |
| a1d2f1a | nickjcroucher | 04 January 2021, 10:30:26 UTC | Change imports into common.py | 04 January 2021, 10:30:26 UTC |
| 60bace2 | nickjcroucher | 04 January 2021, 10:04:22 UTC | Update linux installation commands | 04 January 2021, 10:04:22 UTC |
| 156857c | nickjcroucher | 04 January 2021, 10:00:45 UTC | Remove pkg_resources error | 04 January 2021, 10:00:45 UTC |
| 3960c7b | nickjcroucher | 04 January 2021, 09:57:38 UTC | Restore working linux subunit installation | 04 January 2021, 09:57:38 UTC |
| 320c5b8 | nickjcroucher | 04 January 2021, 09:53:55 UTC | Fix environment.yml typo | 04 January 2021, 09:53:55 UTC |
| 256c58c | nickjcroucher | 04 January 2021, 09:43:20 UTC | Restore pkg_resources as dependency of subunit | 04 January 2021, 09:43:20 UTC |
| 1b91b8e | nickjcroucher | 04 January 2021, 09:36:08 UTC | Update regex search strings | 04 January 2021, 09:36:08 UTC |
| df93d33 | nickjcroucher | 04 January 2021, 09:29:08 UTC | Remove pkg_resources dependency | 04 January 2021, 09:29:08 UTC |
| cc4d718 | nickjcroucher | 04 January 2021, 09:00:46 UTC | Fix to Debian bug #971111 | 04 January 2021, 09:00:46 UTC |
| 2be3dbb | nickjcroucher | 03 January 2021, 22:19:34 UTC | Fix clean up test | 03 January 2021, 22:19:34 UTC |
| b20aa88 | nickjcroucher | 03 January 2021, 22:05:52 UTC | Update package metadata | 03 January 2021, 22:05:52 UTC |
| 0d97fd5 | nickjcroucher | 03 January 2021, 22:02:40 UTC | Fix prefix for RAxML reconstruction | 03 January 2021, 22:02:40 UTC |
| ee2b692 | nickjcroucher | 03 January 2021, 08:51:30 UTC | Pass extra arguments to IQtree builder in test | 03 January 2021, 08:51:30 UTC |
| 46a89a8 | nickjcroucher | 03 January 2021, 07:53:21 UTC | Move test file | 03 January 2021, 07:53:21 UTC |
| 5b6c8b7 | nickjcroucher | 02 January 2021, 07:34:57 UTC | Update bifurcation test result | 02 January 2021, 07:34:57 UTC |
| ce424ab | nickjcroucher | 02 January 2021, 07:14:38 UTC | Update comparator for midpoint rooting tests | 02 January 2021, 07:14:38 UTC |
| 72dcaea | nickjcroucher | 02 January 2021, 06:55:33 UTC | Make test tree names consistent | 02 January 2021, 06:55:33 UTC |
| 5c9acbd | nickjcroucher | 01 January 2021, 22:50:11 UTC | Change tree_method file names | 01 January 2021, 22:50:11 UTC |
| 113d85b | nickjcroucher | 01 January 2021, 17:56:02 UTC | Update test tree builders | 01 January 2021, 17:56:02 UTC |
| f9c0c52 | nickjcroucher | 01 January 2021, 17:12:29 UTC | Inactivate test for 3 sequences in alignment | 01 January 2021, 17:12:29 UTC |
| f00ace0 | nickjcroucher | 01 January 2021, 17:04:53 UTC | Update expected file outputs | 01 January 2021, 17:04:53 UTC |
| 910e463 | nickjcroucher | 01 January 2021, 17:04:18 UTC | Remove obsolete tests | 01 January 2021, 17:04:18 UTC |
| 966f78a | nickjcroucher | 01 January 2021, 16:19:22 UTC | Test how many errors are due to version not being established | 01 January 2021, 16:19:22 UTC |
| 6b4883d | nickjcroucher | 01 January 2021, 16:11:24 UTC | Merge pull request #12 from nickjcroucher/ci_switch Change CI to Github Actions | 01 January 2021, 16:11:24 UTC |
