| a5a832b | Christopher McIntyre | 29 April 2017, 20:15:13 UTC | Fix #51 (#52) * Change setup.py pkg_path from absolute to relative | 29 April 2017, 20:15:13 UTC |
| 1b84c97 | cjw85 | 04 April 2017, 16:38:48 UTC | Add prerequisites to training. | 04 April 2017, 16:38:48 UTC |
| 03f3882 | cjw85 | 03 April 2017, 08:10:17 UTC | Remove extraneous currennt call. | 03 April 2017, 08:10:17 UTC |
| 98cf00b | sry002 | 28 March 2017, 10:19:49 UTC | disable q score correction (#46) | 28 March 2017, 10:19:49 UTC |
| d549f5a | Scott Gigante | 27 March 2017, 09:12:13 UTC | allow nanonettrain to save numpy network on termination of currennt (#45) Nice! This is something we never really thought about. | 27 March 2017, 09:12:13 UTC |
| 4320e27 | sry002 | 21 March 2017, 15:01:40 UTC | modify indexing within qscore aggregation (#44) | 21 March 2017, 15:01:40 UTC |
| 39bcb67 | Scott Gigante | 20 February 2017, 13:19:15 UTC | Allow nanonetcall to use networks trained on non-canonical alphabets (#38) * Allow nanonetcall to use networks trained on non-canonical alphabets * Fix typo in base ordering * added sample labelled files and model * remove dependence on base identity * reverted accidental changes * raise exception on opencl with more than 4 bases * return removed whitespace | 20 February 2017, 13:19:15 UTC |
| 0847153 | Chris Wright | 03 January 2017, 09:25:00 UTC | Revert "Resolves #19 Add simulation" This reverts commit b2a9defd837e0be1400e0a9ee17d6750d839c267. | 03 January 2017, 09:25:00 UTC |
| 49e241d | Chris Wright | 15 December 2016, 17:41:28 UTC | Better tracebacks with multiprocessing | 15 December 2016, 17:41:28 UTC |
| 8470b56 | Chris Wright | 15 December 2016, 17:40:59 UTC | Filter warnings | 15 December 2016, 17:40:59 UTC |
| f421db1 | Chris Wright | 15 December 2016, 15:36:37 UTC | Move back import | 15 December 2016, 15:36:37 UTC |
| 5311576 | Chris Wright | 15 December 2016, 11:59:01 UTC | add --debug | 15 December 2016, 11:59:01 UTC |
| 069fa6a | Chris Wright | 15 December 2016, 11:41:09 UTC | Add logging to help debug OpenCL 2d errors | 15 December 2016, 11:41:09 UTC |
| 7439009 | Chris Wright | 21 November 2016, 11:13:29 UTC | Fix up default params | 21 November 2016, 11:13:29 UTC |
| 1921686 | Chris Wright | 15 November 2016, 19:40:31 UTC | Merge branch 'master' of github.com:nanoporetech/nanonet | 15 November 2016, 19:40:31 UTC |
| d435671 | Chris Wright | 15 November 2016, 18:14:37 UTC | Add R9.4 models and parameters | 15 November 2016, 18:14:37 UTC |
| 1001d9e | cjw85 | 31 October 2016, 16:19:20 UTC | Update README.md | 31 October 2016, 16:19:20 UTC |
| e8bb655 | Ryan Wick | 04 October 2016, 07:48:03 UTC | Fix typos in 2D write events (#21) | 04 October 2016, 07:48:03 UTC |
| b2a9def | Chris Wright | 27 September 2016, 14:06:31 UTC | Resolves #19 Add simulation | 27 September 2016, 14:06:31 UTC |
| f84f6dc | Chris Wright | 27 September 2016, 14:05:22 UTC | Merge branch 'master' of github.com:nanoporetech/nanonet | 27 September 2016, 14:05:22 UTC |
| fa4c4d3 | cjw85 | 27 September 2016, 10:36:35 UTC | update readme preamble | 27 September 2016, 10:36:35 UTC |
| 3917b3f | cjw85 | 27 September 2016, 10:31:41 UTC | update readme copyright text | 27 September 2016, 10:31:41 UTC |
| 16e4ad5 | Chris Wright | 27 September 2016, 10:27:41 UTC | Add open source licensing | 27 September 2016, 10:27:41 UTC |
| 606ea33 | Chris Wright | 20 September 2016, 10:39:09 UTC | Merge branch 'developer' | 20 September 2016, 10:39:09 UTC |
| 8a2f846 | Chris Wright | 20 September 2016, 10:37:56 UTC | Resolves #18 Pick up best network, not final | 20 September 2016, 10:37:56 UTC |
| 9dbc430 | Chris Wright | 09 August 2016, 16:01:04 UTC | Start watching before processing existing files | 09 August 2016, 16:11:23 UTC |
| 60e3747 | Chris Wright | 09 August 2016, 15:53:56 UTC | A little support for watcher option Conflicts: nanonet/nanonetcall.py | 09 August 2016, 16:10:27 UTC |
| 121899a | Chris Wright | 02 August 2016, 08:26:47 UTC | Merge branch 'softmax_bugfix' into 'master' PROM-803 Softmax occasionally returning wrong results See merge request !10 | 02 August 2016, 08:26:47 UTC |
| d170ab4 | Chris Wright | 02 August 2016, 08:26:31 UTC | Merge branch 'lstm_bug' into 'master' PROM-805 - lstm accumulators bug This would be a bug if work group size was != self.iW.shape[1] which isn't currently the case. See merge request !11 | 02 August 2016, 08:26:31 UTC |
| f815da8 | Chris Wright | 29 July 2016, 16:25:54 UTC | Merge branch 'developer' Conflicts: nanonet/__init__.py | 29 July 2016, 16:25:54 UTC |
| 8c6ed8e | Janusz Rupar | 27 July 2016, 16:06:29 UTC | PROM-805 - lstm accumulators bug | 27 July 2016, 16:06:29 UTC |
| 8463d47 | Janusz Rupar | 27 July 2016, 13:25:03 UTC | PROM-803 Softmax occasionally returning wrong results | 27 July 2016, 13:25:03 UTC |
| bdea76f | Chris Wright | 22 July 2016, 22:14:36 UTC | Resolves #12 build windows .whl | 22 July 2016, 22:14:36 UTC |
| 89d8887 | cjw85 | 22 July 2016, 15:56:55 UTC | Support Mingw-w64 compiler on Windows (#11) * compilation with mingw64 * A bit more flexible build * Fix base counting bug * Add instructions for mingw-w64 compilation * Resolves #9 Cleanup mingw build * Forgot new file * Fixup setup.py * Fixup setup.py | 22 July 2016, 15:56:55 UTC |
| f546b21 | cjw85 | 21 July 2016, 15:31:58 UTC | Merge pull request #10 from nanoporetech/qualities Calculation of qscores | 21 July 2016, 15:31:58 UTC |
| 93a2dbb | cwright | 21 July 2016, 15:30:31 UTC | Merge remote-tracking branch 'github-dev/qualities' into developer | 21 July 2016, 15:30:31 UTC |
| 041e78f | Chris Wright | 15 July 2016, 15:32:30 UTC | disable memoize | 15 July 2016, 15:32:30 UTC |
| 45713c8 | Chris Wright | 15 July 2016, 15:18:17 UTC | memoize opencl proxy, placeholder for threading 1Ds in 2D | 15 July 2016, 15:18:17 UTC |
| d04b9a4 | cjw85 | 14 July 2016, 08:15:25 UTC | update readme with explicit instruction for opencl2d | 14 July 2016, 08:15:25 UTC |
| d1036f3 | Chris Wright | 13 July 2016, 15:27:25 UTC | Quality scores for 2D and complement | 13 July 2016, 15:27:25 UTC |
| 9bf2af2 | Chris Wright | 13 July 2016, 10:06:29 UTC | Change qscore method and calibrate | 13 July 2016, 10:06:29 UTC |
| 48693a3 | Chris Wright | 12 July 2016, 10:14:04 UTC | Add qualstring calculation | 12 July 2016, 10:14:04 UTC |
| cfb7224 | cwright | 08 July 2016, 21:58:13 UTC | Make tests work | 08 July 2016, 21:58:13 UTC |
| 0c3f007 | cjw85 | 07 July 2016, 09:13:03 UTC | Merge pull request #7 from nanoporetech/osx_2d_ocl Osx 2d ocl | 07 July 2016, 09:13:03 UTC |
| 711502c | Chris Wright | 07 July 2016, 09:23:01 UTC | Clean up | 07 July 2016, 09:23:01 UTC |
| 1be27dd | Chris Wright | 07 July 2016, 08:50:12 UTC | Fix for linux | 07 July 2016, 08:50:12 UTC |
| 56dd5e2 | cwright | 06 July 2016, 21:54:41 UTC | Get 2D opencl running on osx | 06 July 2016, 21:54:41 UTC |
| c65775f | cwright | 06 July 2016, 21:52:54 UTC | fix include for clang | 06 July 2016, 21:52:54 UTC |
| ff71767 | cwright | 06 July 2016, 14:53:18 UTC | Correct includes on windows | 06 July 2016, 14:53:18 UTC |
| f8a4026 | cjw85 | 01 July 2016, 12:38:36 UTC | add note about environment variable for Windows. | 01 July 2016, 12:38:36 UTC |
| a0ca9f9 | Chris Wright | 01 July 2016, 12:11:02 UTC | Merge branch 'developer' | 01 July 2016, 12:11:02 UTC |
| 4e78d56 | cjw85 | 01 July 2016, 10:28:22 UTC | update reference to supplementary install doc | 01 July 2016, 10:28:22 UTC |
| f9c0fb6 | cjw85 | 01 July 2016, 10:27:37 UTC | Rename INSTALLATION.md to TRAIN_INSTALL.md | 01 July 2016, 10:27:37 UTC |
| 75b5ed2 | cjw85 | 01 July 2016, 10:23:02 UTC | Correct typo in docs. | 01 July 2016, 10:23:02 UTC |
| 832e70f | cjw85 | 01 July 2016, 10:21:48 UTC | Instructions for compiling optional components | 01 July 2016, 10:21:48 UTC |
| 76feb86 | Chris Wright | 01 July 2016, 09:19:09 UTC | Fix int header includes | 01 July 2016, 09:19:09 UTC |
| 29f17bf | cjw85 | 30 June 2016, 22:00:01 UTC | Merge pull request #6 from nanoporetech/2dcaller 2dcaller | 30 June 2016, 22:00:01 UTC |
| aec9131 | cjw85 | 30 June 2016, 21:56:50 UTC | Merge pull request #5 from nanoporetech/2dcaller_win 2dcaller win | 30 June 2016, 21:56:50 UTC |
| 71745b2 | Chris Wright | 30 June 2016, 21:54:43 UTC | Revert a few bits | 30 June 2016, 21:54:43 UTC |
| 0339859 | Chris Wright | 30 June 2016, 21:39:57 UTC | Tidy up setup.py, start to get 2D opencl working on windows | 30 June 2016, 21:39:57 UTC |
| 1da4ac7 | Chris Wright | 30 June 2016, 20:19:09 UTC | Merge branch '2dcaller' of http://github.com/nanoporetech/nanonet-dev into 2dcaller_win | 30 June 2016, 20:19:09 UTC |
| 2aff81f | Chris Wright | 30 June 2016, 20:15:39 UTC | Merge remote-tracking branch 'origin' into 2dcaller_win | 30 June 2016, 20:15:39 UTC |
| 510f1c1 | Chris Wright | 30 June 2016, 07:31:03 UTC | Get 2d caller to running on windows | 30 June 2016, 07:31:03 UTC |
| daf4cf9 | Chris Wright | 23 June 2016, 15:54:13 UTC | Fix ptr error in 2d opencl | 23 June 2016, 15:54:13 UTC |
| 9528f13 | Chris Wright | 23 June 2016, 08:45:50 UTC | Fix previous commit breakages | 23 June 2016, 08:45:50 UTC |
| 7af3b67 | cjw85 | 22 June 2016, 21:08:19 UTC | Patch up logic so results dict populated correctly | 22 June 2016, 21:08:19 UTC |
| 419c0d7 | Chris Wright | 22 June 2016, 11:25:34 UTC | Merge branch 'developer' | 22 June 2016, 11:25:34 UTC |
| b020ec1 | Chris Wright | 22 June 2016, 11:19:30 UTC | remove comments | 22 June 2016, 11:19:30 UTC |
| 6817747 | Chris Wright | 22 June 2016, 11:13:11 UTC | Merge branch 'developer' of https://github.com/nanoporetech/nanonet-dev | 22 June 2016, 11:13:11 UTC |
| 10a921d | Chris Wright | 20 June 2016, 16:31:57 UTC | Remove errant print | 20 June 2016, 16:31:57 UTC |
| 807ad74 | Chris Wright | 20 June 2016, 16:04:11 UTC | First go at 2D basecaller | 20 June 2016, 16:04:11 UTC |
| 401a8ad | cjw85 | 19 June 2016, 20:29:22 UTC | Merge pull request #4 from nanoporetech/opencl Opencl | 19 June 2016, 20:29:22 UTC |
| c96d9e7 | Chris Wright | 19 June 2016, 20:20:45 UTC | refactor so opencl is optional | 19 June 2016, 20:20:45 UTC |
| 2a7b522 | Chris Wright | 16 June 2016, 12:03:48 UTC | force unordered map | 16 June 2016, 12:03:48 UTC |
| e229d96 | Chris Wright | 16 June 2016, 09:53:00 UTC | bump dep version | 16 June 2016, 09:53:00 UTC |
| 240987a | cwright | 16 June 2016, 09:37:22 UTC | update myriad version to that which supports windows | 16 June 2016, 09:37:22 UTC |
| a53ed0b | Chris Wright | 15 June 2016, 13:15:47 UTC | Remove extra timing debug and fix lazy evaluation bug | 15 June 2016, 13:15:47 UTC |
| 479a221 | Chris Wright | 15 June 2016, 12:58:12 UTC | Choose appropriate scheduler | 15 June 2016, 12:58:12 UTC |
| f94fa7b | Chris Wright | 14 June 2016, 22:56:02 UTC | Speed up transition estimation | 14 June 2016, 22:56:02 UTC |
| c4d003b | Chris Wright | 10 June 2016, 23:02:43 UTC | correct typo | 10 June 2016, 23:02:43 UTC |
| 4070eb4 | Chris Wright | 10 June 2016, 23:00:14 UTC | Get JobQueue working on windows | 10 June 2016, 23:00:14 UTC |
| 8d531f4 | cwright | 10 June 2016, 08:22:54 UTC | Resolves #3 | 10 June 2016, 08:22:54 UTC |
| fd0ced2 | cwright | 09 June 2016, 22:18:49 UTC | Event writing working again | 09 June 2016, 22:18:49 UTC |
| d809d23 | cwright | 09 June 2016, 21:45:55 UTC | Refactor worker process functions | 09 June 2016, 21:45:55 UTC |
| 002880a | cwright | 09 June 2016, 21:45:34 UTC | Clean shutdown on keyboard interrupt | 09 June 2016, 21:45:34 UTC |
| e36f2fe | cwright | 09 June 2016, 16:50:26 UTC | Only list GPU devices | 09 June 2016, 16:50:26 UTC |
| a938357 | cwright | 09 June 2016, 10:23:32 UTC | Dont append to fix_args for all opencl devices | 09 June 2016, 10:23:32 UTC |
| 71be1e7 | cwright | 09 June 2016, 09:10:44 UTC | Use GPU and CPU together | 09 June 2016, 09:10:44 UTC |
| 9a64769 | cwright | 08 June 2016, 21:42:12 UTC | Switch out tang_imap for new myriad queue | 08 June 2016, 21:42:12 UTC |
| 45c1f64 | Chris Wright | 08 June 2016, 14:47:46 UTC | created file lists in a lazy manner | 08 June 2016, 14:47:46 UTC |
| 4ca8080 | cwright | 07 June 2016, 21:21:16 UTC | Mainly tidying, make work on OSX | 07 June 2016, 21:21:16 UTC |
| 832898e | Janusz Rupar | 07 June 2016, 08:39:11 UTC | Merge branch 'master' into opencl Conflicts: nanonet/decoding.py nanonet/nanonetcall.py nanonet/nn.py To resolve conflicts new LSTM OpenCL implementation has been added based on current python implementation + np.float64 => np.float32 conversions removed as they are not needed now | 07 June 2016, 08:39:11 UTC |
| fd0c8ab | Janusz Rupar | 02 June 2016, 14:13:21 UTC | add pyopencl dependency | 02 June 2016, 14:13:21 UTC |
| d7cd8b2 | Chris Wright | 01 June 2016, 13:30:18 UTC | Merge branch 'master' of https://github.com/nanoporetech/nanonet | 01 June 2016, 13:30:18 UTC |
| 5e97d31 | Chris Wright | 01 June 2016, 13:27:42 UTC | Merge branch 'update_model' | 01 June 2016, 13:27:42 UTC |
| 12b402d | Chris Wright | 01 June 2016, 13:26:38 UTC | Update model to current baseline | 01 June 2016, 13:26:38 UTC |
| a6617e0 | Chris Wright | 01 June 2016, 10:20:13 UTC | Merge branch 'georg' into 'master' Fix bug in LSTM state update found by Georg See merge request !8 | 01 June 2016, 10:20:13 UTC |
| 8429880 | Tim Massingham | 01 June 2016, 10:16:32 UTC | Fix bug in LSTM state update found by Georg | 01 June 2016, 10:16:32 UTC |
| 976a281 | Tim Massingham | 01 June 2016, 10:06:18 UTC | Merge branch 'cleanup' into 'master' Cleanup Remove fast tanh code, and a unused currennt function. See merge request !7 | 01 June 2016, 10:06:18 UTC |
| b33b4ac | Chris Wright | 01 June 2016, 09:58:47 UTC | Remove function to construct currennt basecalling input | 01 June 2016, 09:58:47 UTC |
