| 9652c14 | Arnaud Belcour | 12 September 2019, 15:37:31 UTC | Fix issue with m2m test. | 12 September 2019, 15:37:31 UTC |
| 6998868 | Arnaud Belcour | 02 September 2019, 09:10:59 UTC | Update doc with padmet files creation. | 02 September 2019, 09:10:59 UTC |
| 9a13d75 | Arnaud Belcour | 02 September 2019, 08:58:06 UTC | Add test for padmet creation. | 02 September 2019, 08:58:06 UTC |
| f4af68a | Arnaud Belcour | 01 September 2019, 19:33:33 UTC | Add argument to create padmet files. | 01 September 2019, 19:33:33 UTC |
| fc53068 | cfrioux | 01 September 2019, 15:15:27 UTC | add line breaks in asp instance for ease human reading if needed | 01 September 2019, 15:15:27 UTC |
| bd13350 | cfrioux | 31 August 2019, 17:15:45 UTC | update requirements w new msicoto version | 31 August 2019, 17:15:45 UTC |
| 2b5729d | Clémence Frioux | 31 August 2019, 16:17:04 UTC | Update requirements w newest version of Menetools | 31 August 2019, 16:17:04 UTC |
| f0aaa8e | cfrioux | 31 August 2019, 15:47:33 UTC | update version number | 31 August 2019, 15:47:33 UTC |
| b9a910d | cfrioux | 31 August 2019, 15:37:22 UTC | improved display of output and fixed pb with quotes for target sbml creation | 31 August 2019, 15:37:22 UTC |
| 91dd836 | cfrioux | 31 August 2019, 14:47:10 UTC | added small precisions to the logs | 31 August 2019, 14:47:10 UTC |
| c383720 | cfrioux | 31 August 2019, 14:29:09 UTC | print union and intersection of iscope | 31 August 2019, 14:29:09 UTC |
| 5be34a7 | Arnaud Belcour | 31 July 2019, 14:40:06 UTC | Add article data taxon_id.tsv. | 31 July 2019, 14:40:06 UTC |
| 3bdb5ec | Arnaud Belcour | 31 July 2019, 14:05:13 UTC | Fix typos in doc. | 31 July 2019, 14:05:13 UTC |
| d35f376 | Arnaud Belcour | 31 July 2019, 13:20:04 UTC | Update requirements.txt. | 31 July 2019, 13:20:04 UTC |
| 9ac64a7 | Arnaud Belcour | 31 July 2019, 13:11:43 UTC | Use workflow_data in tutorial instead of test data. | 31 July 2019, 13:11:43 UTC |
| dc47223 | Arnaud Belcour | 31 July 2019, 13:09:41 UTC | Recon test is now compatible with Pathway-Tools 23.0. | 31 July 2019, 13:09:41 UTC |
| ab7554d | Arnaud Belcour | 24 July 2019, 10:01:22 UTC | Fix copy of ptools-local folder in Singularity. | 24 July 2019, 10:01:22 UTC |
| c4b9c55 | Arnaud Belcour | 23 July 2019, 15:46:02 UTC | Remove OSX in Travis because compilation is too long. | 23 July 2019, 15:46:02 UTC |
| b44dbce | Arnaud Belcour | 23 July 2019, 15:43:29 UTC | Use Ubuntu 18.04 with Python 3.6 for Docker and Singularity (issue #5). | 23 July 2019, 15:43:29 UTC |
| 642fdd6 | Arnaud Belcour | 09 July 2019, 17:28:23 UTC | Try to fix python version used (Travis CI). | 09 July 2019, 17:28:23 UTC |
| 65479e8 | Arnaud Belcour | 09 July 2019, 17:21:38 UTC | Fix indent. | 09 July 2019, 17:21:38 UTC |
| 38fcc2c | Arnaud Belcour | 09 July 2019, 17:19:32 UTC | Try to fix travis.yml. | 09 July 2019, 17:19:32 UTC |
| f994b53 | Arnaud Belcour | 09 July 2019, 17:15:41 UTC | Try to fix Travis CI osx. | 09 July 2019, 17:15:41 UTC |
| b17f3ce | Arnaud Belcour | 09 July 2019, 14:28:45 UTC | Add osx to Travis CI. | 09 July 2019, 14:28:45 UTC |
| f8a04e4 | Arnaud Belcour | 06 June 2019, 15:11:21 UTC | Update Readme. | 06 June 2019, 15:11:21 UTC |
| 55fc792 | Arnaud Belcour | 06 June 2019, 13:58:52 UTC | Fix python3.6 in conda. | 06 June 2019, 13:58:52 UTC |
| 7fc8d89 | Arnaud Belcour | 06 June 2019, 13:46:46 UTC | In RTD environment, install package with pip. | 06 June 2019, 13:46:46 UTC |
| 5fe6008 | Arnaud Belcour | 06 June 2019, 13:39:37 UTC | Remove setup_py_install. | 06 June 2019, 13:39:37 UTC |
| a7aa6ca | Arnaud Belcour | 06 June 2019, 13:35:00 UTC | Try to fix doc by using conda. | 06 June 2019, 13:35:00 UTC |
| 8a521da | Arnaud Belcour | 06 June 2019, 12:29:34 UTC | Mock biopython and clyngor. | 06 June 2019, 12:29:34 UTC |
| c4c6edf | Clémence Frioux | 06 June 2019, 10:45:12 UTC | Merge pull request #3 from AuReMe/clyngor Enable the use of latest versions of dependencies | 06 June 2019, 10:45:12 UTC |
| 966e0cf | Clémence Frioux | 06 June 2019, 10:39:27 UTC | Merge branch 'master' into clyngor | 06 June 2019, 10:39:27 UTC |
| 3a59abc | Arnaud Belcour | 03 June 2019, 20:44:58 UTC | Try to fix Travis build. | 03 June 2019, 20:44:58 UTC |
| cdd9e93 | Arnaud Belcour | 03 June 2019, 20:37:48 UTC | Install m2m with setup.py develop in Travis build. | 03 June 2019, 20:37:48 UTC |
| d6edcef | cfrioux | 03 June 2019, 17:19:45 UTC | clean and prepare release for use of clyngor | 03 June 2019, 17:19:45 UTC |
| f5ebb1d | Arnaud Belcour | 03 June 2019, 15:04:17 UTC | First try to fix m2m with clyngor. | 03 June 2019, 15:04:17 UTC |
| 04e16a0 | cfrioux | 03 June 2019, 14:46:37 UTC | first changes towards the support of clyngor | 03 June 2019, 14:46:37 UTC |
| 2fecdd6 | Clémence Frioux | 01 June 2019, 09:02:26 UTC | Update README.md | 01 June 2019, 09:02:26 UTC |
| a63220b | cfrioux | 31 May 2019, 21:17:45 UTC | force miscoto version and update version of m2m | 31 May 2019, 21:17:45 UTC |
| 0b8cbd6 | cfrioux | 31 May 2019, 17:35:44 UTC | force a version of menetools and update version of m2m | 31 May 2019, 17:35:44 UTC |
| 12922da | cfrioux | 23 May 2019, 15:01:49 UTC | require latest miscoto version, add requirements in setup.py | 23 May 2019, 15:01:49 UTC |
| 833fb01 | cfrioux | 18 April 2019, 10:04:35 UTC | fix typo | 18 April 2019, 10:04:35 UTC |
| b8d2436 | Arnaud Belcour | 18 April 2019, 08:35:57 UTC | Test removing dependencies in setup.py | 18 April 2019, 08:35:57 UTC |
| c06fdc3 | Arnaud Belcour | 18 April 2019, 08:26:20 UTC | Try another way to mock numpy. | 18 April 2019, 08:26:20 UTC |
| c912184 | Arnaud Belcour | 18 April 2019, 08:15:25 UTC | Mock numpy and hide static. | 18 April 2019, 08:15:25 UTC |
| 6fda4b4 | Arnaud Belcour | 16 April 2019, 09:25:57 UTC | Try to fix mock. | 16 April 2019, 09:25:57 UTC |
| 8507e08 | Arnaud Belcour | 16 April 2019, 09:14:12 UTC | Try to fix import issue with readthedocs. | 16 April 2019, 09:14:12 UTC |
| 7cc2b7c | Arnaud Belcour | 16 April 2019, 09:06:34 UTC | Merge branch 'master' of github.com:AuReMe/metage2metabo | 16 April 2019, 09:06:34 UTC |
| c22b1a5 | Arnaud Belcour | 16 April 2019, 09:04:15 UTC | Move to version 0.0.8. Fix issue with __main__.py in Doc. Fix issue when only m2m is called. Add m2m test argument, move data folder according to this. | 16 April 2019, 09:04:15 UTC |
| 1641fcb | cfrioux | 04 April 2019, 05:45:28 UTC | Precise pathway tools requirements Pathway Tools is not required for all commands, only recon and workflow | 04 April 2019, 05:45:28 UTC |
| 0c667b7 | Arnaud Belcour | 03 April 2019, 12:17:18 UTC | Compatibility patch for new version of padmet-utils. | 03 April 2019, 12:17:18 UTC |
| adba131 | Arnaud Belcour | 01 April 2019, 14:14:28 UTC | Fix Readme TOC. | 01 April 2019, 14:14:28 UTC |
| bea7b64 | Arnaud Belcour | 01 April 2019, 14:05:18 UTC | Add Docker/Singularity part in Readme. | 01 April 2019, 14:05:18 UTC |
| 8620012 | cfrioux | 01 April 2019, 13:55:54 UTC | upgrade version number | 01 April 2019, 13:55:54 UTC |
| 71baaed | cfrioux | 01 April 2019, 13:55:28 UTC | add argument type for sbml level parser to overcome error | 01 April 2019, 13:55:28 UTC |
| 899a450 | cfrioux | 01 April 2019, 11:34:22 UTC | Merge branch 'master' of https://github.com/AuReMe/metage2metabo | 01 April 2019, 11:34:22 UTC |
| 1e407eb | cfrioux | 01 April 2019, 11:34:18 UTC | remove special character in log | 01 April 2019, 11:34:18 UTC |
| 6c45fd4 | cfrioux | 01 April 2019, 07:28:03 UTC | remove typo in README | 01 April 2019, 07:28:03 UTC |
| 8c1d3f7 | cfrioux | 01 April 2019, 06:53:52 UTC | add new recon option in tuto | 01 April 2019, 06:53:52 UTC |
| 80c8783 | cfrioux | 01 April 2019, 06:22:35 UTC | update doc and README with commands latest help message | 01 April 2019, 06:22:35 UTC |
| 7388e16 | cfrioux | 29 March 2019, 13:03:41 UTC | add noorphan option for recon and workflow | 29 March 2019, 13:03:41 UTC |
| bc5c9ab | cfrioux | 29 March 2019, 07:10:25 UTC | add details on scope computation | 29 March 2019, 07:10:25 UTC |
| 7c6ddad | Arnaud Belcour | 28 March 2019, 16:12:19 UTC | Move to version 0.0.4. Fix package name in pip install. | 28 March 2019, 16:12:19 UTC |
| 6611544 | cfrioux | 28 March 2019, 14:56:05 UTC | add runtimes for each step | 28 March 2019, 14:56:05 UTC |
| 61bf203 | cfrioux | 28 March 2019, 13:13:08 UTC | prevent error if no sbmls in inputs dir | 28 March 2019, 13:13:08 UTC |
| ab9501d | cfrioux | 28 March 2019, 12:38:44 UTC | add sentence in tuto | 28 March 2019, 12:38:44 UTC |
| 02e4781 | cfrioux | 28 March 2019, 12:36:00 UTC | fix syntax tuto | 28 March 2019, 12:36:00 UTC |
| c1a9fbb | cfrioux | 28 March 2019, 11:11:15 UTC | fix syntax tuto | 28 March 2019, 11:11:15 UTC |
| d215271 | cfrioux | 28 March 2019, 10:56:35 UTC | finish workflow tuto and add its data in test | 28 March 2019, 10:56:35 UTC |
| 02a4de7 | cfrioux | 28 March 2019, 10:27:12 UTC | add running time at the end of the programm | 28 March 2019, 10:27:12 UTC |
| e3e28f1 | cfrioux | 28 March 2019, 08:28:56 UTC | Update README.md | 28 March 2019, 08:28:56 UTC |
| f227a9a | cfrioux | 28 March 2019, 08:23:02 UTC | forgot image for supp information | 28 March 2019, 08:23:02 UTC |
| 32099da | cfrioux | 28 March 2019, 08:21:22 UTC | add supp info and add references in doc | 28 March 2019, 08:21:22 UTC |
| 89c4479 | cfrioux | 27 March 2019, 14:47:29 UTC | fix typos tuto | 27 March 2019, 14:47:29 UTC |
| 22ce155 | cfrioux | 27 March 2019, 14:18:45 UTC | add host doc in tuto, fix a typo in level2 sbml name for conversion | 27 March 2019, 14:18:45 UTC |
| 77dc5ea | cfrioux | 27 March 2019, 13:12:23 UTC | continue tuto | 27 March 2019, 13:12:23 UTC |
| bf66301 | Arnaud Belcour | 27 March 2019, 10:48:15 UTC | Fix typos. | 27 March 2019, 10:48:15 UTC |
| 5fdf1bb | Arnaud Belcour | 27 March 2019, 09:00:27 UTC | Fix issue with sbml_level in workflow. | 27 March 2019, 09:00:27 UTC |
| a3fb2be | cfrioux | 27 March 2019, 07:49:46 UTC | add average size of scopes in iscope, continue tutorial | 27 March 2019, 07:49:46 UTC |
| f6e199f | cfrioux | 26 March 2019, 16:06:06 UTC | fix typos and start tutorial | 26 March 2019, 16:06:06 UTC |
| 5776a3a | Arnaud Belcour | 26 March 2019, 12:56:59 UTC | Update doc and Singularity. | 26 March 2019, 12:56:59 UTC |
| 6b4c56c | Arnaud Belcour | 26 March 2019, 09:23:16 UTC | Add before_script in travis.yml. | 26 March 2019, 09:23:16 UTC |
| 2eb9bd1 | Arnaud Belcour | 26 March 2019, 09:09:23 UTC | Add new tests in travis.yml. | 26 March 2019, 09:09:23 UTC |
| a8ecf38 | cfrioux | 26 March 2019, 08:45:53 UTC | remove useless import | 26 March 2019, 08:45:53 UTC |
| af23ec8 | cfrioux | 26 March 2019, 08:44:57 UTC | add metabolic data for tests | 26 March 2019, 08:44:57 UTC |
| d7fe335 | Arnaud Belcour | 26 March 2019, 08:32:13 UTC | Add sbml_level variable in pgdb_to_sbml multiprocessing. | 26 March 2019, 08:32:13 UTC |
| 6245932 | cfrioux | 26 March 2019, 08:14:28 UTC | create tests for mincom and fix a typo in logs description for mincom | 26 March 2019, 08:14:28 UTC |
| 349cc58 | cfrioux | 26 March 2019, 07:42:16 UTC | prepare option for SBML level choice in recon, add todos in sbml management to finish | 26 March 2019, 07:42:16 UTC |
| 29b9abb | cfrioux | 26 March 2019, 07:41:05 UTC | Merge branch 'master' of https://github.com/AuReMe/metage2metabo | 26 March 2019, 07:41:05 UTC |
| 7f5eca7 | cfrioux | 26 March 2019, 07:33:09 UTC | fix typo | 26 March 2019, 07:33:09 UTC |
| 7aa01a8 | cfrioux | 26 March 2019, 07:32:53 UTC | add a --quiet option and use it for tests | 26 March 2019, 07:32:53 UTC |
| 7ff4b91 | Arnaud Belcour | 25 March 2019, 17:02:29 UTC | Remove libsbml warnings from test in travis. Add Doc for Docker and Singularity. | 25 March 2019, 17:02:29 UTC |
| c1a3638 | cfrioux | 25 March 2019, 16:04:01 UTC | test addedvalue subcommand | 25 March 2019, 16:04:01 UTC |
| 8767d8a | cfrioux | 25 March 2019, 15:54:23 UTC | add a todo for mincom json export | 25 March 2019, 15:54:23 UTC |
| 477701b | cfrioux | 25 March 2019, 15:38:34 UTC | Merge branch 'master' of https://github.com/AuReMe/metage2metabo | 25 March 2019, 15:38:34 UTC |
| bf61af3 | cfrioux | 25 March 2019, 15:15:12 UTC | produce a json with the output of miscoto_scope for m2m cscope | 25 March 2019, 15:15:12 UTC |
| 31bdef9 | cfrioux | 25 March 2019, 12:03:18 UTC | Update README.md | 25 March 2019, 12:03:18 UTC |
| cca6e60 | cfrioux | 25 March 2019, 11:49:12 UTC | add a python packages requirements file | 25 March 2019, 11:49:12 UTC |
| 3e2c877 | Arnaud Belcour | 25 March 2019, 09:21:23 UTC | Update Readme and rename test data folder. | 25 March 2019, 09:21:23 UTC |
| 3c7275b | Arnaud Belcour | 25 March 2019, 08:57:35 UTC | Add a test function. | 25 March 2019, 08:57:35 UTC |
