Commit Graph

8b85389 (HEAD -> master) Merge pull request #48 from jajupmochi/v0.2.x by linlin 2022-06-24 17:48:55 +0200
ed78e65 (v0.2.x) [Features] Add model seletion methods with validation set: KFoldWithValid, RepeatedKFoldWithValid, BaseCrossValidatorWithValid. Required version of scikit-learn is upgraded to 1.1.0, to support the input_name argument of sklearn.utils.check_array used in gklearn.model_selection._split.py. by jajupmochi 2022-06-24 17:48:16 +0200
b36eaae [Features] Add model seletion methods with validation set: KFoldWithValid, RepeatedKFoldWithValid, BaseCrossValidatorWithValid. Required version of scikit-learn is upgraded to 1.1.0, to support the input_name argument of sklearn.utils.check_array used in gklearn.model_selection._split.py. by jajupmochi 2022-06-24 17:46:28 +0200
5eb9065 [Features] Add model seletion methods with validation set: , , . Required version of scikit-learn is upgraded to 1.1.0, to support the argument of used in . by jajupmochi 2022-06-24 17:45:16 +0200
a76335e [Features][API Changes] Update kernel classes. by jajupmochi 2022-05-06 14:15:03 +0200
5e37d44 [Major Features] Add GEDModel which is compatibale with . by jajupmochi 2022-05-06 14:12:31 +0200
a7e1891 [Fix] Change the output directory name. by jajupmochi 2022-03-18 10:24:21 +0100
1946d46 [Feature] Allow to permutate nodes in graphs when using bipartite to estimate GED. This feature is implementated in the method in Python, which invokes GEDLIB in C++ by Cython. by jajupmochi 2022-03-14 15:49:27 +0100
08ee17d [CI] Add tests on Python 3.9. by jajupmochi 2022-02-14 20:23:41 +0100
4574764 [CI] Fix travis badge link. by jajupmochi 2022-02-14 20:20:19 +0100
0af5709 Update README.md by linlin 2022-02-12 11:46:18 +0100
074a3f3 Merge pull request #47 from gitter-badger/gitter-badge by linlin 2022-02-12 11:44:34 +0100
375cc34 Add Gitter badge by The Gitter Badger 2022-02-12 10:42:35 +0000
42acfd0 [Fix] Fix laplacian_kernel and cosine_kernel between pairs of numpy vectors. by jajupmochi 2021-12-02 16:52:41 +0100
dd58f60 [Feature] Add kronecker_delta_kernel function between a pair of numpy vectors. by jajupmochi 2021-12-02 16:29:57 +0100
e1fe40d Merge pull request #46 from jajupmochi/v0.2.x by linlin 2021-11-30 17:07:27 +0100
7d3e929 [Feature] Add several new kernels between vectors. by jajupmochi 2021-11-30 15:48:52 +0100
92fd38c [CI] Migrate from travis.org to travis.com. by jajupmochi 2021-06-25 18:58:41 +0200
310b01c [Major Feature] WLSubtree kernel can now deal with symbolic edge labels (for Gram matrix computation without parallelization). Meanwhile, the dummy labels are no longer added a priori. by jajupmochi 2021-06-25 18:36:20 +0200
2e0105c [Fix] Typos in README.md. by jajupmochi 2021-06-25 18:28:50 +0200
bd8bf2b [Enhancement] Add more verbose for the WL kernel. by jajupmochi 2021-06-09 17:25:27 +0200
609c8c1 [Enhancement] Allow deciding whether or not to make a copy of input graphs in GraphKernel class. by jajupmochi 2021-06-09 17:16:51 +0200
785a5c1 [To finish] Remove dummy labels in treelet kernel (for the contest.) by jajupmochi 2021-06-04 22:31:26 +0200
231c050 [To finish] Remove dummy labels in treelet kernel (for the contest.) by jajupmochi 2021-06-03 01:29:26 +0200
23a9384 [[Enhancement] gklearn.utils.normalize_gram_matrix function now raises… by jajupmochi 2021-05-25 14:19:37 +0200
4fd314d [Fix] Fixed the bug that gklearn.utils.kernels.gaussiankernel can not handle lists as inputs. by jajupmochi 2021-05-22 23:26:51 +0200
1800923 [API change] gklearn.utils.kernels.gaussiankernel function no longer transforms inputs to numpy.array of float values. This may be faster, but may cause some errors to the previous codes. by jajupmochi 2021-05-22 12:30:49 +0200
70a11df [Enhancement] gklearn.utils.normalize_gram_matrix function now raises an excepetion if the diagonal includes negative values.\n[Enhancement] gklearn.utils.get_graph_kernel_by_name function now accepts strings of kernel names the same as the keys of gklearn.kernels.GRAPH_KERNELS and supports more graph kernels. by jajupmochi 2021-05-22 12:26:40 +0200
b843707 [Enhancement] gklearn.dataset.Dataset class can now automatically get the task type of the given dataset (regression or classification). by jajupmochi 2021-05-22 12:12:58 +0200
ce63995 [CI] Ignore downloaded datasets. by jajupmochi 2021-05-22 12:09:00 +0200
325f51c [Feature] Add the gklearn.model_learning.dichotomous_permutation function. by jajupmochi 2021-05-22 12:01:39 +0200
ed17010 [Major Feature][Todo] Add model_learning module, including a new NestedCV class and a Workflow class for graph kernel computation. by jajupmochi 2021-05-22 11:59:05 +0200
bb36d0f [Major Feature] Graph kernel classes now can compute kernel matrix between two different list of graphs using fit/transform methods which uses the same scheme as the scikit-learn library! by jajupmochi 2021-05-21 17:51:33 +0200
d08eddc [Enhancement] The global variable now uses kernel classes as values. by jajupmochi 2021-05-21 17:32:18 +0200
6799532 [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-05-10 10:39:27 +0200
81a881b [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-05-04 12:18:13 +0200
14bd9db [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-05-04 11:33:40 +0200
29bcfe4 [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-03-30 11:23:56 +0200
13c0fb3 [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-03-12 11:37:41 +0100
6e89824 [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-02-15 11:47:17 +0100
27de245 [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-02-09 10:09:30 +0100
25e10c8 [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-02-02 17:14:57 +0100
cba8047 [Exp] Update computation of ged stability. by jajupmochi 2021-02-02 17:13:11 +0100
59687d1 [Exp] Add taskhub to run exps all in once. by jajupmochi 2021-01-26 10:31:42 +0100
74bab60 [Exp] Add taskhub to run exps all in once. by jajupmochi 2021-01-26 10:26:24 +0100
13ac6d9 [Exp] Add taskhub to run exps all in once. by jajupmochi 2021-01-26 10:20:24 +0100
756371a [Exp] Add taskhub to run exps all in once. by jajupmochi 2021-01-26 10:16:35 +0100
ac78c85 [Exp] Add taskhub to run exps all in once. by jajupmochi 2021-01-26 10:14:59 +0100
07478a5 [Exp] Add taskhub to run exps all in once. by jajupmochi 2021-01-26 10:10:59 +0100
e991f59 [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-01-26 10:09:54 +0100
71df9f5 [Update] Move the import of control out of the __init__(). by jajupmochi 2021-01-26 09:45:37 +0100
cd98b12 Merge pull request #45 from jajupmochi/v0.2.x by linlin 2021-01-25 23:27:51 +0100
47951de [Update] Move the import of control into the __init__(). by jajupmochi 2021-01-25 23:27:12 +0100
684d26b [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-01-23 18:32:16 +0100
830f96a Merge pull request #44 from jajupmochi/v0.2.x by linlin 2021-01-18 10:35:33 +0100
b72fb5d [Doc] Update citation. by jajupmochi 2021-01-18 10:33:38 +0100
bfe64a1 [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-01-17 12:18:54 +0100
6332e56 [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-01-15 11:58:11 +0100
4bfde8d [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-01-15 11:46:14 +0100
59a36aa [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-01-12 20:41:04 +0100
a638bfa [Exp] FCSP: 1. Use no more than 10 tlong tasks. 2. use ljia instead of explicit name. 3. My first SCI journal paper is accepted! by jajupmochi 2021-01-12 15:24:13 +0100
8c6168b [Exp] Update special tasks. by jajupmochi 2021-01-08 10:04:02 +0100
e5b9777 [Fix bugs] length in get_iters in compute_geds(). by jajupmochi 2021-01-05 21:11:03 +0100
f282e93 [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-01-05 20:34:46 +0100
367c8e4 [Exp] Update exceptions in fcsp exps. by jajupmochi 2021-01-05 20:28:15 +0100
c3c3921 [Exp] Remove #SBATCH --exclusive in the fcsp exps. by jajupmochi 2021-01-05 16:49:47 +0100
1009d5d [Exp] Fix typo bug in gklearn/experiments/ged/stability/group_results.py. by jajupmochi 2021-01-05 16:30:40 +0100
85c17b0 [Exp] GED stability: add marker file, use edge labels in datasets, test Acyclic and Alkane. by jajupmochi 2021-01-05 15:19:25 +0100
743d610 [Update] Use get_iters istof tqdm when computing GEDs. by jajupmochi 2021-01-05 15:13:00 +0100
0b7f281 [Add] __init__.py for exps. by jajupmochi 2021-01-03 20:48:27 +0100
d61db07 [Update] Change an excepetion output msg in DataLoader. by jajupmochi 2021-01-03 20:47:05 +0100
62145db [exp] fcsp: add program for slurm and the exps for space complexity. by jajupmochi 2021-01-03 20:44:01 +0100
e93ab87 [update] Dataset class: Remove null graphs after loading the dataset. by jajupmochi 2021-01-03 20:41:59 +0100
349d7a7 Use get_iters function instead of tqdm in StructuralSP. by jajupmochi 2021-01-03 15:17:26 +0100
6326e22 Put deprecation warning of gklearn.utils.Dataset inside the __init__(). by jajupmochi 2021-01-03 15:15:44 +0100
9559839 Add pairwise_ged function. by jajupmochi 2021-01-03 15:12:57 +0100
920ebda Hide deprecation warning in graph_file.py. by jajupmochi 2021-01-03 15:08:03 +0100
819b256 Add GED fit distance experiments result figure. by jajupmochi 2021-01-01 18:39:42 +0100
09e1d02 Update GED fit distance experiments README. by jajupmochi 2021-01-01 16:26:12 +0100
44bdcd6 Merge pull request #43 from jajupmochi/v0.2.x by linlin 2021-01-01 16:22:55 +0100
47b13b4 Add GED fit distance experiments. by jajupmochi 2021-01-01 16:21:22 +0100
e9154d5 Merge pull request #42 from jajupmochi/v0.2.x by linlin 2020-12-30 19:17:38 +0100
8dce8d8 Fix bugs to load all predefined datasets except for Tox21_... and alchemy_.... by jajupmochi 2020-12-30 18:47:19 +0100
0373be0 Modify function to load .cml graph data where an outer cml element is added to the data file (dataset ACE). by jajupmochi 2020-12-30 11:54:05 +0100
11a1b46 Add support for .cml graph data (dataset Chical). by jajupmochi 2020-12-30 11:35:57 +0100
d270639 Merge pull request #40 from jajupmochi/v0.2.x by linlin 2020-12-26 18:23:13 +0100
37158bf Update tqdm in parallel. by jajupmochi 2020-12-26 18:09:48 +0100
cb964cf Set tqdm usages in all graph kernels with self-defined intervals so that it will print less lines when writing to a file. by jajupmochi 2020-12-26 18:08:41 +0100
c2a219c Fix bugs in pairwise computationWL subtree kernel. by jajupmochi 2020-12-26 16:00:09 +0100
7d5a0a8 Add deeper traceback for exceptions in test_graph_kernel.py. by jajupmochi 2020-12-26 13:31:38 +0100
6e2b2fa Fix a bug in WL subtree kernel. by jajupmochi 2020-12-26 13:23:37 +0100
3cfe230 Fix paths when using pre-given datasets in test_graph_kernels.py. by jajupmochi 2020-12-26 12:35:21 +0100
adb8216 Update test datasets, use pre-given datasets in test_graph_kernels.py. by jajupmochi 2020-12-26 12:21:15 +0100
5beedf4 Rearrange imports in data_fetcher.py. by jajupmochi 2020-12-26 11:46:49 +0100
edc1890 Use dataset.Dataset in the tests of graph kernel classes. by jajupmochi 2020-12-26 11:31:47 +0100
e84bc76 Add parallelization to WL subtree kernel. by jajupmochi 2020-12-26 11:19:31 +0100
79cb3a5 Add test of equality of graph kernel results for different parameters. by jajupmochi 2020-12-20 14:54:09 +0100
41015c2 Check and update datasets for exp of comparing fcsp. by jajupmochi 2020-12-14 15:36:12 +0100
cdcccb2 Update get_graph_kernel_by_name(). by jajupmochi 2020-12-14 12:07:50 +0100
3c8f099 Add fcsp experiments. by jajupmochi 2020-12-14 12:03:32 +0100

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