diff --git a/.gitignore b/.gitignore index f5488d5..d9dde27 100644 --- a/.gitignore +++ b/.gitignore @@ -11,3 +11,4 @@ dist/* .pytest_cache/* venv/ docs/_build +docs/sg_execution_times.rst diff --git a/README.md b/README.md index 0e6ff8b..9689196 100644 --- a/README.md +++ b/README.md @@ -59,12 +59,12 @@ This will work on clean systems, but if you encounter issues you may need to run

Requirements

+ python>=3.6 -+ pandas>=0.18.0 -+ seaborn>=0.7.1 -+ matplotlib>=1.5.1 -+ scipy>=0.17.1 -+ numpy>=1.10.4 -+ future ++ pandas>=2.0.0 ++ seaborn>=0.12.0 ++ matplotlib>=3.5.0 ++ scipy>=1.10.0 ++ numpy>=2.0.0 ++ joblib>=1.3.0 + pytest (for development) If installing from github (instead of pip), you must also install the requirements: diff --git a/benchmark_cluster.py b/benchmark_cluster.py new file mode 100644 index 0000000..34a214a --- /dev/null +++ b/benchmark_cluster.py @@ -0,0 +1,37 @@ +import quail +import time +import numpy as np +import pandas as pd + +def run_benchmark(): + print("Generating data...") + # 20 subjects, 10 lists each, 16 items + n_subj = 20 + n_lists = 10 + list_len = 16 + + # Create random items + # Pres: ints + pres = [[[str(k) for k in range(list_len)] for j in range(n_lists)] for i in range(n_subj)] + # Rec: random shuffle of pres + rec = [[[str(k) for k in np.random.permutation(range(list_len))] for j in range(n_lists)] for i in range(n_subj)] + + # Features: Scalar 'val' + features = [{'item': str(k), 'val': float(k)} for k in range(list_len)] + # Expand features to 3D + pres_feat = [[features for j in range(n_lists)] for i in range(n_subj)] + + egg = quail.Egg(pres=pres, rec=rec, features=pres_feat) + + print("Starting fingerprint analysis...") + start = time.time() + # Compute fingerprint with permutations (expensive part) + # 10 perms + res = egg.analyze('fingerprint', n_perms=10, permute=True, parallel=False) + end = time.time() + + print(f"Analysis complete in {end - start:.2f} seconds.") + print(f"Result shape: {res.data.shape}") + +if __name__ == '__main__': + run_benchmark() diff --git a/docs/_build/doctrees/api.doctree b/docs/_build/doctrees/api.doctree index ee1e291..a21e92e 100644 Binary files a/docs/_build/doctrees/api.doctree and b/docs/_build/doctrees/api.doctree differ diff --git a/docs/_build/doctrees/auto_examples/crack_egg.doctree b/docs/_build/doctrees/auto_examples/crack_egg.doctree index a7bf222..22f29b4 100644 Binary files a/docs/_build/doctrees/auto_examples/crack_egg.doctree and b/docs/_build/doctrees/auto_examples/crack_egg.doctree differ diff --git a/docs/_build/doctrees/auto_examples/create_egg.doctree b/docs/_build/doctrees/auto_examples/create_egg.doctree index 666c8b0..0ec1a5e 100644 Binary files a/docs/_build/doctrees/auto_examples/create_egg.doctree and b/docs/_build/doctrees/auto_examples/create_egg.doctree differ diff --git a/docs/_build/doctrees/auto_examples/create_multisubject_egg.doctree b/docs/_build/doctrees/auto_examples/create_multisubject_egg.doctree index 30aef90..a845d08 100644 Binary files a/docs/_build/doctrees/auto_examples/create_multisubject_egg.doctree and b/docs/_build/doctrees/auto_examples/create_multisubject_egg.doctree differ diff --git a/docs/_build/doctrees/auto_examples/decode_speech.doctree b/docs/_build/doctrees/auto_examples/decode_speech.doctree index 10579c6..b355db4 100644 Binary files a/docs/_build/doctrees/auto_examples/decode_speech.doctree and b/docs/_build/doctrees/auto_examples/decode_speech.doctree differ diff --git a/docs/_build/doctrees/auto_examples/fingerprint_optimalpresenter.doctree b/docs/_build/doctrees/auto_examples/fingerprint_optimalpresenter.doctree index 6f3f12e..5c89552 100644 Binary files a/docs/_build/doctrees/auto_examples/fingerprint_optimalpresenter.doctree and b/docs/_build/doctrees/auto_examples/fingerprint_optimalpresenter.doctree differ diff --git a/docs/_build/doctrees/auto_examples/index.doctree b/docs/_build/doctrees/auto_examples/index.doctree index 8630c0e..353c9b3 100644 Binary files a/docs/_build/doctrees/auto_examples/index.doctree and b/docs/_build/doctrees/auto_examples/index.doctree differ diff --git a/docs/_build/doctrees/auto_examples/plot_accuracy.doctree b/docs/_build/doctrees/auto_examples/plot_accuracy.doctree index 8462e23..cbf5950 100644 Binary files a/docs/_build/doctrees/auto_examples/plot_accuracy.doctree and b/docs/_build/doctrees/auto_examples/plot_accuracy.doctree differ diff --git a/docs/_build/doctrees/auto_examples/plot_existing_axes.doctree b/docs/_build/doctrees/auto_examples/plot_existing_axes.doctree index 4ea4031..2c39509 100644 Binary files a/docs/_build/doctrees/auto_examples/plot_existing_axes.doctree and b/docs/_build/doctrees/auto_examples/plot_existing_axes.doctree differ diff --git a/docs/_build/doctrees/auto_examples/plot_fingerprint.doctree b/docs/_build/doctrees/auto_examples/plot_fingerprint.doctree index 2a70bb8..3f9b246 100644 Binary files a/docs/_build/doctrees/auto_examples/plot_fingerprint.doctree and b/docs/_build/doctrees/auto_examples/plot_fingerprint.doctree differ diff --git a/docs/_build/doctrees/auto_examples/plot_lagcrp.doctree b/docs/_build/doctrees/auto_examples/plot_lagcrp.doctree index a8b7523..44ff65d 100644 Binary files a/docs/_build/doctrees/auto_examples/plot_lagcrp.doctree and b/docs/_build/doctrees/auto_examples/plot_lagcrp.doctree differ diff --git a/docs/_build/doctrees/auto_examples/plot_pfr.doctree b/docs/_build/doctrees/auto_examples/plot_pfr.doctree index 50c11c0..e9235f6 100644 Binary files a/docs/_build/doctrees/auto_examples/plot_pfr.doctree and b/docs/_build/doctrees/auto_examples/plot_pfr.doctree differ diff --git a/docs/_build/doctrees/auto_examples/plot_pnr.doctree b/docs/_build/doctrees/auto_examples/plot_pnr.doctree index 96c5bd1..5505ed3 100644 Binary files a/docs/_build/doctrees/auto_examples/plot_pnr.doctree and b/docs/_build/doctrees/auto_examples/plot_pnr.doctree differ diff --git a/docs/_build/doctrees/auto_examples/plot_spc.doctree b/docs/_build/doctrees/auto_examples/plot_spc.doctree index f942a10..0b88b92 100644 Binary files a/docs/_build/doctrees/auto_examples/plot_spc.doctree and b/docs/_build/doctrees/auto_examples/plot_spc.doctree differ diff --git a/docs/_build/doctrees/auto_examples/plot_tempclust.doctree b/docs/_build/doctrees/auto_examples/plot_tempclust.doctree deleted file mode 100644 index 1a92b24..0000000 Binary files a/docs/_build/doctrees/auto_examples/plot_tempclust.doctree and /dev/null differ diff --git a/docs/_build/doctrees/auto_examples/plot_temporal.doctree b/docs/_build/doctrees/auto_examples/plot_temporal.doctree index 127c211..0264942 100644 Binary files a/docs/_build/doctrees/auto_examples/plot_temporal.doctree and b/docs/_build/doctrees/auto_examples/plot_temporal.doctree differ diff --git a/docs/_build/doctrees/auto_examples/recmat2egg.doctree b/docs/_build/doctrees/auto_examples/recmat2egg.doctree index 685cd78..f072511 100644 Binary files a/docs/_build/doctrees/auto_examples/recmat2egg.doctree and b/docs/_build/doctrees/auto_examples/recmat2egg.doctree differ diff --git a/docs/_build/doctrees/environment.pickle b/docs/_build/doctrees/environment.pickle index 048fc31..b8a36f1 100644 Binary files a/docs/_build/doctrees/environment.pickle and b/docs/_build/doctrees/environment.pickle differ diff --git a/docs/_build/doctrees/index.doctree b/docs/_build/doctrees/index.doctree index 005abed..3ac229b 100644 Binary files a/docs/_build/doctrees/index.doctree and b/docs/_build/doctrees/index.doctree differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_11_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_11_0.png deleted file mode 100644 index 921703e..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_11_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_11_1.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_11_1.png deleted file mode 100644 index bcda101..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_11_1.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_14_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_14_0.png deleted file mode 100644 index 1e6f0ef..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_14_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_16_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_16_0.png deleted file mode 100644 index 10151d0..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_16_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_18_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_18_0.png deleted file mode 100644 index f203eaa..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_18_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_20_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_20_0.png deleted file mode 100644 index 1d819ea..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_20_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_20_1.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_20_1.png deleted file mode 100644 index 1be6ddc..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_20_1.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_23_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_23_0.png deleted file mode 100644 index 06ee0b5..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_23_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_23_1.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_23_1.png deleted file mode 100644 index 70840f6..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_23_1.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_0.png deleted file mode 100644 index 2fcc599..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_1.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_1.png deleted file mode 100644 index 6ef4942..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_1.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_2.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_2.png deleted file mode 100644 index d53c958..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_2.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_3.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_3.png deleted file mode 100644 index d7a2c79..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_3.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_0.png deleted file mode 100644 index 20a29af..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_1.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_1.png deleted file mode 100644 index a0cd659..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_1.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_2.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_2.png deleted file mode 100644 index 515e183..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_2.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_3.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_3.png deleted file mode 100644 index e10e27b..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_3.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_5_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_5_0.png deleted file mode 100644 index 414e7b8..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_5_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_7_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_7_0.png deleted file mode 100644 index 620981b..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_7_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_9_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_9_0.png deleted file mode 100644 index 3f48b4f..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_9_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_14_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_14_0.png deleted file mode 100644 index 2af412e..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_14_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_14_1.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_14_1.png deleted file mode 100644 index 0822a09..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_14_1.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_19_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_19_0.png deleted file mode 100644 index 7cf2a16..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_19_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_19_1.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_19_1.png deleted file mode 100644 index 9da2cec..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_19_1.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_23_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_23_0.png deleted file mode 100644 index 7157b9c..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_23_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_23_1.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_23_1.png deleted file mode 100644 index 95b80dc..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_23_1.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_27_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_27_0.png deleted file mode 100644 index 42d60a5..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_27_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_27_1.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_27_1.png deleted file mode 100644 index 13b34b3..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_27_1.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_29_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_29_0.png deleted file mode 100644 index c1b954c..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_29_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_29_1.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_29_1.png deleted file mode 100644 index 90d306b..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_29_1.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_35_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_35_0.png deleted file mode 100644 index e323955..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_35_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_35_1.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_35_1.png deleted file mode 100644 index 5f68ba0..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_35_1.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_37_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_37_0.png deleted file mode 100644 index a35777f..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_37_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_39_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_39_0.png deleted file mode 100644 index b7a7719..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_39_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_optimal_presenter-checkpoint_2_0.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_optimal_presenter-checkpoint_2_0.png deleted file mode 100644 index 33f481e..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_optimal_presenter-checkpoint_2_0.png and /dev/null differ diff --git a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_optimal_presenter-checkpoint_6_1.png b/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_optimal_presenter-checkpoint_6_1.png deleted file mode 100644 index 18348c4..0000000 Binary files a/docs/_build/doctrees/nbsphinx/tutorial_.ipynb_checkpoints_optimal_presenter-checkpoint_6_1.png and /dev/null differ diff --git a/docs/_build/doctrees/quail.Egg.doctree b/docs/_build/doctrees/quail.Egg.doctree index f8a2b20..13a8199 100644 Binary files a/docs/_build/doctrees/quail.Egg.doctree and b/docs/_build/doctrees/quail.Egg.doctree differ diff --git a/docs/_build/doctrees/quail.analyze.doctree b/docs/_build/doctrees/quail.analyze.doctree index a17cd51..4a4e811 100644 Binary files a/docs/_build/doctrees/quail.analyze.doctree and b/docs/_build/doctrees/quail.analyze.doctree differ diff --git a/docs/_build/doctrees/quail.crack_egg.doctree b/docs/_build/doctrees/quail.crack_egg.doctree index aa81b47..871252d 100644 Binary files a/docs/_build/doctrees/quail.crack_egg.doctree and b/docs/_build/doctrees/quail.crack_egg.doctree differ diff --git a/docs/_build/doctrees/quail.decode_speech.doctree b/docs/_build/doctrees/quail.decode_speech.doctree index cc5a54f..68e5abb 100644 Binary files a/docs/_build/doctrees/quail.decode_speech.doctree and b/docs/_build/doctrees/quail.decode_speech.doctree differ diff --git a/docs/_build/doctrees/quail.load_egg.doctree b/docs/_build/doctrees/quail.load_egg.doctree index c119fa5..1ed376d 100644 Binary files a/docs/_build/doctrees/quail.load_egg.doctree and b/docs/_build/doctrees/quail.load_egg.doctree differ diff --git a/docs/_build/doctrees/quail.load_example_data.doctree b/docs/_build/doctrees/quail.load_example_data.doctree index f51cb2b..98a6291 100644 Binary files a/docs/_build/doctrees/quail.load_example_data.doctree and b/docs/_build/doctrees/quail.load_example_data.doctree differ diff --git a/docs/_build/doctrees/quail.plot.doctree b/docs/_build/doctrees/quail.plot.doctree index 531dc52..c481189 100644 Binary files a/docs/_build/doctrees/quail.plot.doctree and b/docs/_build/doctrees/quail.plot.doctree differ diff --git a/docs/_build/doctrees/quail.recmat2egg.doctree b/docs/_build/doctrees/quail.recmat2egg.doctree index 037bf10..2bc343c 100644 Binary files a/docs/_build/doctrees/quail.recmat2egg.doctree and b/docs/_build/doctrees/quail.recmat2egg.doctree differ diff --git a/docs/_build/doctrees/quail.stack_eggs.doctree b/docs/_build/doctrees/quail.stack_eggs.doctree index ecad55a..4396111 100644 Binary files a/docs/_build/doctrees/quail.stack_eggs.doctree and b/docs/_build/doctrees/quail.stack_eggs.doctree differ diff --git a/docs/_build/doctrees/tutorial.doctree b/docs/_build/doctrees/tutorial.doctree index 23072b3..05e0152 100644 Binary files a/docs/_build/doctrees/tutorial.doctree and b/docs/_build/doctrees/tutorial.doctree differ diff --git a/docs/_build/doctrees/tutorial/.ipynb_checkpoints/advanced_plotting-checkpoint.doctree b/docs/_build/doctrees/tutorial/.ipynb_checkpoints/advanced_plotting-checkpoint.doctree deleted file mode 100644 index 5b266e7..0000000 Binary files a/docs/_build/doctrees/tutorial/.ipynb_checkpoints/advanced_plotting-checkpoint.doctree and /dev/null differ diff --git a/docs/_build/doctrees/tutorial/.ipynb_checkpoints/basic_analyze_and_plot-checkpoint.doctree b/docs/_build/doctrees/tutorial/.ipynb_checkpoints/basic_analyze_and_plot-checkpoint.doctree deleted file mode 100644 index dc99200..0000000 Binary files a/docs/_build/doctrees/tutorial/.ipynb_checkpoints/basic_analyze_and_plot-checkpoint.doctree and /dev/null differ diff --git a/docs/_build/doctrees/tutorial/.ipynb_checkpoints/egg-checkpoint.doctree b/docs/_build/doctrees/tutorial/.ipynb_checkpoints/egg-checkpoint.doctree deleted file mode 100644 index 773c372..0000000 Binary files a/docs/_build/doctrees/tutorial/.ipynb_checkpoints/egg-checkpoint.doctree and /dev/null differ diff --git a/docs/_build/doctrees/tutorial/.ipynb_checkpoints/fingerprint-checkpoint.doctree b/docs/_build/doctrees/tutorial/.ipynb_checkpoints/fingerprint-checkpoint.doctree deleted file mode 100644 index 8ff3992..0000000 Binary files a/docs/_build/doctrees/tutorial/.ipynb_checkpoints/fingerprint-checkpoint.doctree and /dev/null differ diff --git a/docs/_build/doctrees/tutorial/.ipynb_checkpoints/optimal presenter-checkpoint.doctree b/docs/_build/doctrees/tutorial/.ipynb_checkpoints/optimal presenter-checkpoint.doctree deleted file mode 100644 index 5d56506..0000000 Binary files a/docs/_build/doctrees/tutorial/.ipynb_checkpoints/optimal presenter-checkpoint.doctree and /dev/null differ diff --git a/docs/_build/doctrees/tutorial/.ipynb_checkpoints/speech_decoding-checkpoint.doctree b/docs/_build/doctrees/tutorial/.ipynb_checkpoints/speech_decoding-checkpoint.doctree deleted file mode 100644 index e97b525..0000000 Binary files a/docs/_build/doctrees/tutorial/.ipynb_checkpoints/speech_decoding-checkpoint.doctree and /dev/null differ diff --git a/docs/_build/doctrees/tutorial/advanced_plotting.doctree b/docs/_build/doctrees/tutorial/advanced_plotting.doctree index 47a8a49..63a0a1a 100644 Binary files a/docs/_build/doctrees/tutorial/advanced_plotting.doctree and b/docs/_build/doctrees/tutorial/advanced_plotting.doctree differ diff --git a/docs/_build/doctrees/tutorial/basic_analyze_and_plot.doctree b/docs/_build/doctrees/tutorial/basic_analyze_and_plot.doctree index 3bba439..4e701d2 100644 Binary files a/docs/_build/doctrees/tutorial/basic_analyze_and_plot.doctree and b/docs/_build/doctrees/tutorial/basic_analyze_and_plot.doctree differ diff --git a/docs/_build/doctrees/tutorial/egg.doctree b/docs/_build/doctrees/tutorial/egg.doctree index dd1cfd9..9132552 100644 Binary files a/docs/_build/doctrees/tutorial/egg.doctree and b/docs/_build/doctrees/tutorial/egg.doctree differ diff --git a/docs/_build/doctrees/tutorial/fingerprint.doctree b/docs/_build/doctrees/tutorial/fingerprint.doctree index f47cf99..1899998 100644 Binary files a/docs/_build/doctrees/tutorial/fingerprint.doctree and b/docs/_build/doctrees/tutorial/fingerprint.doctree differ diff --git a/docs/_build/doctrees/tutorial/optimal presenter.doctree b/docs/_build/doctrees/tutorial/optimal presenter.doctree index 19015b8..70ed27e 100644 Binary files a/docs/_build/doctrees/tutorial/optimal presenter.doctree and b/docs/_build/doctrees/tutorial/optimal presenter.doctree differ diff --git a/docs/_build/doctrees/tutorial/speech_decoding.doctree b/docs/_build/doctrees/tutorial/speech_decoding.doctree index cb8a64b..80ac95f 100644 Binary files a/docs/_build/doctrees/tutorial/speech_decoding.doctree and b/docs/_build/doctrees/tutorial/speech_decoding.doctree differ diff --git a/docs/_build/html/.buildinfo b/docs/_build/html/.buildinfo index c34f821..3330c1f 100644 --- a/docs/_build/html/.buildinfo +++ b/docs/_build/html/.buildinfo @@ -1,4 +1,4 @@ # Sphinx build info version 1 # This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done. -config: c7fe727da017c84d722f3c6469a0ea04 +config: 06f8dbfe2189432395f7cdc548d7e758 tags: 645f666f9bcd5a90fca523b33c5a78b7 diff --git a/docs/_build/html/_downloads/auto_examples_jupyter.zip b/docs/_build/html/_downloads/auto_examples_jupyter.zip deleted file mode 100644 index 3b14983..0000000 Binary files a/docs/_build/html/_downloads/auto_examples_jupyter.zip and /dev/null differ diff --git a/docs/_build/html/_downloads/auto_examples_python.zip b/docs/_build/html/_downloads/auto_examples_python.zip deleted file mode 100644 index 82c94f3..0000000 Binary files a/docs/_build/html/_downloads/auto_examples_python.zip and /dev/null differ diff --git a/docs/_build/html/_downloads/crack_egg.ipynb b/docs/_build/html/_downloads/crack_egg.ipynb deleted file mode 100644 index 7f097d9..0000000 --- a/docs/_build/html/_downloads/crack_egg.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "cells": [ - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "%matplotlib inline" - ] - }, - { - "cell_type": "markdown", - "metadata": {}, - "source": [ - "\n# Crack Egg\n\n\nThis an example of how to crack an egg (take a slice of subjects/lists from it)\n\n\n" - ] - }, - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\n#import\nimport quail\n\n#load data\negg = quail.load('example')\n\n#crack egg\ncracked_egg = quail.crack_egg(egg, subjects=[0], lists=[0])\n\ncracked_egg.info()\n\npres = cracked_egg.get_pres_items().to_numpy()[0]\nrec = cracked_egg.get_rec_items().to_numpy()[0]\n\ndef distmat(egg, feature, distdict):\n f = [xi[feature] for xi in egg.get_pres_features()]\n return cdist(f, f, distdict[feature])\n\n\nfor idx in range(len(rec)-1):\n ind1 = np.where(pres==rec[idx])[0][0]\n ind2 = np.where(pres==rec[idx+1])[0][0]\n dists = dist[ind1, :]\n cdist = dist[ind1, ind2]\n rank = np.mean(np.where(np.sort(dists)[::-1] == cdist))" - ] - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 3", - "language": "python", - "name": "python3" - }, - "language_info": { - "codemirror_mode": { - "name": "ipython", - "version": 3 - }, - "file_extension": ".py", - "mimetype": "text/x-python", - "name": "python", - "nbconvert_exporter": "python", - "pygments_lexer": "ipython3", - "version": "3.6.5" - } - }, - "nbformat": 4, - "nbformat_minor": 0 -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/crack_egg.py b/docs/_build/html/_downloads/crack_egg.py deleted file mode 100644 index 3966b6e..0000000 --- a/docs/_build/html/_downloads/crack_egg.py +++ /dev/null @@ -1,38 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Crack Egg -============================= - -This an example of how to crack an egg (take a slice of subjects/lists from it) - -""" - -# Code source: Andrew Heusser -# License: MIT - -#import -import quail - -#load data -egg = quail.load('example') - -#crack egg -cracked_egg = quail.crack_egg(egg, subjects=[0], lists=[0]) - -cracked_egg.info() - -pres = cracked_egg.get_pres_items().to_numpy()[0] -rec = cracked_egg.get_rec_items().to_numpy()[0] - -def distmat(egg, feature, distdict): - f = [xi[feature] for xi in egg.get_pres_features()] - return cdist(f, f, distdict[feature]) - - -for idx in range(len(rec)-1): - ind1 = np.where(pres==rec[idx])[0][0] - ind2 = np.where(pres==rec[idx+1])[0][0] - dists = dist[ind1, :] - cdist = dist[ind1, ind2] - rank = np.mean(np.where(np.sort(dists)[::-1] == cdist)) diff --git a/docs/_build/html/_downloads/create_egg.ipynb b/docs/_build/html/_downloads/create_egg.ipynb deleted file mode 100644 index d8a571b..0000000 --- a/docs/_build/html/_downloads/create_egg.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "cells": [ - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "%matplotlib inline" - ] - }, - { - "cell_type": "markdown", - "metadata": {}, - "source": [ - "\n# Create an egg\n\n\nAn egg is made up of two primary pieces of data: `pres`, which are the\nwords/stimuli that were presented to a subject and `rec`, which are the\nwords/stimuli that were recalled by the subject.\n\n\n" - ] - }, - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\nimport quail\n\n\n# generate some fake data\nnext_presented = ['CAT', 'DOG', 'SHOE', 'HORSE']\nnext_recalled = ['HORSE', 'DOG', 'CAT']\n\nnext_features = [{\n 'category' : 'animal',\n 'size' : 'bigger',\n 'starting letter' : 'C',\n 'length' : 3\n },\n {\n 'category' : 'animal',\n 'size' : 'bigger',\n 'starting letter' : 'D',\n 'length' : 3\n },\n {\n 'category' : 'object',\n 'size' : 'smaller',\n 'starting letter' : 'S',\n 'length' : 4\n },\n {\n 'category' : 'animal',\n 'size' : 'bigger',\n 'starting letter' : 'H',\n 'length' : 5\n }\n]\ndist_funcs = {\n 'category' : 'lambda a, b: int(a!=b)',\n 'size' : 'lambda a, b: int(a!=b)',\n 'starting letter' : 'lambda a, b: int(a!=b)',\n 'length' : 'lambda a, b: np.linalg.norm(np.subtract(a,b))'\n}\negg = quail.Egg(pres=[next_presented], rec=[next_recalled], features=[next_features], dist_funcs=dist_funcs)\n\negg.analyze('lagcrp').plot()" - ] - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 3", - "language": "python", - "name": "python3" - }, - "language_info": { - "codemirror_mode": { - "name": "ipython", - "version": 3 - }, - "file_extension": ".py", - "mimetype": "text/x-python", - "name": "python", - "nbconvert_exporter": "python", - "pygments_lexer": "ipython3", - "version": "3.6.5" - } - }, - "nbformat": 4, - "nbformat_minor": 0 -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/create_egg.py b/docs/_build/html/_downloads/create_egg.py deleted file mode 100644 index c7c8dd9..0000000 --- a/docs/_build/html/_downloads/create_egg.py +++ /dev/null @@ -1,56 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Create an egg -============================= - -An egg is made up of two primary pieces of data: `pres`, which are the -words/stimuli that were presented to a subject and `rec`, which are the -words/stimuli that were recalled by the subject. - -""" - -# Code source: Andrew Heusser -# License: MIT - -import quail - - -# generate some fake data -next_presented = ['CAT', 'DOG', 'SHOE', 'HORSE'] -next_recalled = ['HORSE', 'DOG', 'CAT'] - -next_features = [{ - 'category' : 'animal', - 'size' : 'bigger', - 'starting letter' : 'C', - 'length' : 3 - }, - { - 'category' : 'animal', - 'size' : 'bigger', - 'starting letter' : 'D', - 'length' : 3 - }, - { - 'category' : 'object', - 'size' : 'smaller', - 'starting letter' : 'S', - 'length' : 4 - }, - { - 'category' : 'animal', - 'size' : 'bigger', - 'starting letter' : 'H', - 'length' : 5 - } -] -dist_funcs = { - 'category' : 'lambda a, b: int(a!=b)', - 'size' : 'lambda a, b: int(a!=b)', - 'starting letter' : 'lambda a, b: int(a!=b)', - 'length' : 'lambda a, b: np.linalg.norm(np.subtract(a,b))' -} -egg = quail.Egg(pres=[next_presented], rec=[next_recalled], features=[next_features], dist_funcs=dist_funcs) - -egg.analyze('lagcrp').plot() diff --git a/docs/_build/html/_downloads/create_multisubject_egg.ipynb b/docs/_build/html/_downloads/create_multisubject_egg.ipynb deleted file mode 100644 index d44e46c..0000000 --- a/docs/_build/html/_downloads/create_multisubject_egg.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "cells": [ - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "%matplotlib inline" - ] - }, - { - "cell_type": "markdown", - "metadata": {}, - "source": [ - "\n# Create a multisubject egg\n\n\nAn egg is made up of two primary pieces of data: `pres`, which are the\nwords/stimuli that were presented to a subject and `rec`, which are the\nwords/stimuli that were recalled by the subject.\n\n\n" - ] - }, - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\nimport quail\nimport numpy as np\n\n# presented words\npresented_words = [[['cat', 'bat', 'hat', 'goat'],['zoo', 'animal', 'zebra', 'horse']],[['cat', 'bat', 'hat', 'goat'],['zoo', 'animal', 'zebra', 'horse']]]\n\n# recalled words\nrecalled_words = [[['bat', 'cat', 'goat', 'hat'],['animal', 'horse', 'zoo']],[['bat', 'cat', 'goat'],['animal', 'horse']]]\n\n# create egg\negg = quail.Egg(pres=presented_words, rec=recalled_words)\n\n# analyze and plot\negg.analyze('accuracy').plot(plot_style='violin', title='Average Recall Accuracy')" - ] - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 3", - "language": "python", - "name": "python3" - }, - "language_info": { - "codemirror_mode": { - "name": "ipython", - "version": 3 - }, - "file_extension": ".py", - "mimetype": "text/x-python", - "name": "python", - "nbconvert_exporter": "python", - "pygments_lexer": "ipython3", - "version": "3.6.5" - } - }, - "nbformat": 4, - "nbformat_minor": 0 -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/create_multisubject_egg.py b/docs/_build/html/_downloads/create_multisubject_egg.py deleted file mode 100644 index 6f84c9d..0000000 --- a/docs/_build/html/_downloads/create_multisubject_egg.py +++ /dev/null @@ -1,29 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Create a multisubject egg -============================= - -An egg is made up of two primary pieces of data: `pres`, which are the -words/stimuli that were presented to a subject and `rec`, which are the -words/stimuli that were recalled by the subject. - -""" - -# Code source: Andrew Heusser -# License: MIT - -import quail -import numpy as np - -# presented words -presented_words = [[['cat', 'bat', 'hat', 'goat'],['zoo', 'animal', 'zebra', 'horse']],[['cat', 'bat', 'hat', 'goat'],['zoo', 'animal', 'zebra', 'horse']]] - -# recalled words -recalled_words = [[['bat', 'cat', 'goat', 'hat'],['animal', 'horse', 'zoo']],[['bat', 'cat', 'goat'],['animal', 'horse']]] - -# create egg -egg = quail.Egg(pres=presented_words, rec=recalled_words) - -# analyze and plot -egg.analyze('accuracy').plot(plot_style='violin', title='Average Recall Accuracy') diff --git a/docs/_build/html/_downloads/decode_speech.ipynb b/docs/_build/html/_downloads/decode_speech.ipynb deleted file mode 100644 index b412b4a..0000000 --- a/docs/_build/html/_downloads/decode_speech.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "cells": [ - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "%matplotlib inline" - ] - }, - { - "cell_type": "markdown", - "metadata": {}, - "source": [ - "\n# Decode speech\n\n\nThis example plots free recall accuracy for a single subject.\n\n\n" - ] - }, - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\n#import\nimport quail\n\n# decode speech\nrecall_data = quail.decode_speech('../data/sample.wav', save=True,\n speech_context=['DONKEY', 'PETUNIA'],\n keypath='/Users/andyheusser/Documents/cdl/credentials/efficient-learning-553bf474f805.json')\n\n# print results\nprint(recall_data)" - ] - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 3", - "language": "python", - "name": "python3" - }, - "language_info": { - "codemirror_mode": { - "name": "ipython", - "version": 3 - }, - "file_extension": ".py", - "mimetype": "text/x-python", - "name": "python", - "nbconvert_exporter": "python", - "pygments_lexer": "ipython3", - "version": "3.6.5" - } - }, - "nbformat": 4, - "nbformat_minor": 0 -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/decode_speech.py b/docs/_build/html/_downloads/decode_speech.py deleted file mode 100644 index df8fa3e..0000000 --- a/docs/_build/html/_downloads/decode_speech.py +++ /dev/null @@ -1,23 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Decode speech -============================= - -This example plots free recall accuracy for a single subject. - -""" - -# Code source: Andrew Heusser -# License: MIT - -#import -import quail - -# decode speech -recall_data = quail.decode_speech('../data/sample.wav', save=True, - speech_context=['DONKEY', 'PETUNIA'], - keypath='/Users/andyheusser/Documents/cdl/credentials/efficient-learning-553bf474f805.json') - -# print results -print(recall_data) diff --git a/docs/_build/html/_downloads/fingerprint_optimalpresenter.ipynb b/docs/_build/html/_downloads/fingerprint_optimalpresenter.ipynb deleted file mode 100644 index b716fac..0000000 --- a/docs/_build/html/_downloads/fingerprint_optimalpresenter.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "cells": [ - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "%matplotlib inline" - ] - }, - { - "cell_type": "markdown", - "metadata": {}, - "source": [ - "\n# Optimal presenter\n\n\nAn example of how to reorder stimuli with the optimal presenter class\n\n\n" - ] - }, - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\nimport numpy as np\nimport quail\nfrom quail import Fingerprint, OptimalPresenter\n\n# generate some fake data\nnext_presented = ['CAT', 'DOG', 'SHOE', 'BAT']\nnext_recalled = ['DOG', 'CAT', 'BAT', 'SHOE']\n\nnext_features = [{\n 'category' : 'animal',\n 'size' : 'bigger',\n 'starting letter' : 'C',\n 'length' : 3\n },\n {\n 'category' : 'animal',\n 'size' : 'bigger',\n 'starting letter' : 'D',\n 'length' : 3\n },\n {\n 'category' : 'object',\n 'size' : 'smaller',\n 'starting letter' : 'S',\n 'length' : 4\n },\n {\n 'category' : 'animal',\n 'size' : 'bigger',\n 'starting letter' : 'B',\n 'length' : 3\n }]\n\negg = quail.Egg(pres=[next_presented], rec=[next_recalled], features=[next_features])\n\n# initialize fingerprint\nfingerprint = Fingerprint(init=egg)\n\n# initialize presenter\nparams = {\n 'fingerprint' : fingerprint}\npresenter = OptimalPresenter(params=params, strategy='stabilize')\n\n# update the fingerprint\nfingerprint.update(egg)\n\n# reorder next list\nreordered_egg = presenter.order(egg, method='permute', nperms=100)" - ] - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 3", - "language": "python", - "name": "python3" - }, - "language_info": { - "codemirror_mode": { - "name": "ipython", - "version": 3 - }, - "file_extension": ".py", - "mimetype": "text/x-python", - "name": "python", - "nbconvert_exporter": "python", - "pygments_lexer": "ipython3", - "version": "3.6.5" - } - }, - "nbformat": 4, - "nbformat_minor": 0 -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/fingerprint_optimalpresenter.py b/docs/_build/html/_downloads/fingerprint_optimalpresenter.py deleted file mode 100644 index 2c979b6..0000000 --- a/docs/_build/html/_downloads/fingerprint_optimalpresenter.py +++ /dev/null @@ -1,61 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Optimal presenter -============================= - -An example of how to reorder stimuli with the optimal presenter class - -""" - -# Code source: Andrew Heusser -# License: MIT - -import numpy as np -import quail -from quail import Fingerprint, OptimalPresenter - -# generate some fake data -next_presented = ['CAT', 'DOG', 'SHOE', 'BAT'] -next_recalled = ['DOG', 'CAT', 'BAT', 'SHOE'] - -next_features = [{ - 'category' : 'animal', - 'size' : 'bigger', - 'starting letter' : 'C', - 'length' : 3 - }, - { - 'category' : 'animal', - 'size' : 'bigger', - 'starting letter' : 'D', - 'length' : 3 - }, - { - 'category' : 'object', - 'size' : 'smaller', - 'starting letter' : 'S', - 'length' : 4 - }, - { - 'category' : 'animal', - 'size' : 'bigger', - 'starting letter' : 'B', - 'length' : 3 - }] - -egg = quail.Egg(pres=[next_presented], rec=[next_recalled], features=[next_features]) - -# initialize fingerprint -fingerprint = Fingerprint(init=egg) - -# initialize presenter -params = { - 'fingerprint' : fingerprint} -presenter = OptimalPresenter(params=params, strategy='stabilize') - -# update the fingerprint -fingerprint.update(egg) - -# reorder next list -reordered_egg = presenter.order(egg, method='permute', nperms=100) diff --git a/docs/_build/html/_downloads/plot_accuracy.ipynb b/docs/_build/html/_downloads/plot_accuracy.ipynb deleted file mode 100644 index fa592d4..0000000 --- a/docs/_build/html/_downloads/plot_accuracy.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "cells": [ - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "%matplotlib inline" - ] - }, - { - "cell_type": "markdown", - "metadata": {}, - "source": [ - "\n# Plot free recall accuracy\n\n\nThis example plots free recall accuracy for a single subject.\n\n\n" - ] - }, - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\n#import\nimport quail\n\n#load data\negg = quail.load('example')\n\n#analysis\nfegg = egg.analyze('accuracy', listgroup=['condition1']*4+['condition2']*4)\n\n#plot by list\nfegg.plot(plot_style='violin', title='Average Recall Accuracy')" - ] - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 3", - "language": "python", - "name": "python3" - }, - "language_info": { - "codemirror_mode": { - "name": "ipython", - "version": 3 - }, - "file_extension": ".py", - "mimetype": "text/x-python", - "name": "python", - "nbconvert_exporter": "python", - "pygments_lexer": "ipython3", - "version": "3.6.5" - } - }, - "nbformat": 4, - "nbformat_minor": 0 -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/plot_accuracy.py b/docs/_build/html/_downloads/plot_accuracy.py deleted file mode 100644 index 91c2197..0000000 --- a/docs/_build/html/_downloads/plot_accuracy.py +++ /dev/null @@ -1,24 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Plot free recall accuracy -============================= - -This example plots free recall accuracy for a single subject. - -""" - -# Code source: Andrew Heusser -# License: MIT - -#import -import quail - -#load data -egg = quail.load('example') - -#analysis -fegg = egg.analyze('accuracy', listgroup=['condition1']*4+['condition2']*4) - -#plot by list -fegg.plot(plot_style='violin', title='Average Recall Accuracy') diff --git a/docs/_build/html/_downloads/plot_existing_axes.ipynb b/docs/_build/html/_downloads/plot_existing_axes.ipynb deleted file mode 100644 index e0f3343..0000000 --- a/docs/_build/html/_downloads/plot_existing_axes.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "cells": [ - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "%matplotlib inline" - ] - }, - { - "cell_type": "markdown", - "metadata": {}, - "source": [ - "\n# Plot free recall accuracy in an existing ax object\n\n\nThis example plots free recall accuracy in an existing Matplotlib Axes object.\n\n\n" - ] - }, - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\n#import\nimport quail\nimport matplotlib.pyplot as plt\n\n#load data\negg = quail.load('example')\n\n#analysis\nfegg = egg.analyze('accuracy', listgroup=['condition1']*4+['condition2']*4)\n\n#plot by list\nfig = plt.figure()\nax = fig.add_subplot(2,1,1)\nfegg.plot(plot_style='violin', title='Average Recall Accuracy', ax=ax)" - ] - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 3", - "language": "python", - "name": "python3" - }, - "language_info": { - "codemirror_mode": { - "name": "ipython", - "version": 3 - }, - "file_extension": ".py", - "mimetype": "text/x-python", - "name": "python", - "nbconvert_exporter": "python", - "pygments_lexer": "ipython3", - "version": "3.6.5" - } - }, - "nbformat": 4, - "nbformat_minor": 0 -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/plot_existing_axes.py b/docs/_build/html/_downloads/plot_existing_axes.py deleted file mode 100644 index eb687ee..0000000 --- a/docs/_build/html/_downloads/plot_existing_axes.py +++ /dev/null @@ -1,27 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Plot free recall accuracy in an existing ax object -============================= - -This example plots free recall accuracy in an existing Matplotlib Axes object. - -""" - -# Code source: Andrew Heusser -# License: MIT - -#import -import quail -import matplotlib.pyplot as plt - -#load data -egg = quail.load('example') - -#analysis -fegg = egg.analyze('accuracy', listgroup=['condition1']*4+['condition2']*4) - -#plot by list -fig = plt.figure() -ax = fig.add_subplot(2,1,1) -fegg.plot(plot_style='violin', title='Average Recall Accuracy', ax=ax) diff --git a/docs/_build/html/_downloads/plot_fingerprint.ipynb b/docs/_build/html/_downloads/plot_fingerprint.ipynb deleted file mode 100644 index c0349c2..0000000 --- a/docs/_build/html/_downloads/plot_fingerprint.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "cells": [ - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "%matplotlib inline" - ] - }, - { - "cell_type": "markdown", - "metadata": {}, - "source": [ - "\n# Plot memory fingerprint\n\n\nThis example plots a fingerprint. Briefly, a fingerprint\ncan be described as a summary of how a subject organizes information with\nrespect to the multiple features of the stimuli. In addition to presentation\nand recall data, a features object is passed to the Egg class. It is comprised\nof a dictionary for each presented stimulus that contains feature dimensions and\nvalues for each stimulus.\n\n\n" - ] - }, - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\n#import\nimport quail\n\n#load data\negg = quail.load('example')\n\n# analyze and plot\negg.analyze('fingerprint', listgroup=['average']*8, features=['temporal']).plot(title='Memory Fingerprint')" - ] - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 3", - "language": "python", - "name": "python3" - }, - "language_info": { - "codemirror_mode": { - "name": "ipython", - "version": 3 - }, - "file_extension": ".py", - "mimetype": "text/x-python", - "name": "python", - "nbconvert_exporter": "python", - "pygments_lexer": "ipython3", - "version": "3.6.5" - } - }, - "nbformat": 4, - "nbformat_minor": 0 -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/plot_fingerprint.py b/docs/_build/html/_downloads/plot_fingerprint.py deleted file mode 100644 index 76f47e0..0000000 --- a/docs/_build/html/_downloads/plot_fingerprint.py +++ /dev/null @@ -1,26 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Plot memory fingerprint -============================= - -This example plots a fingerprint. Briefly, a fingerprint -can be described as a summary of how a subject organizes information with -respect to the multiple features of the stimuli. In addition to presentation -and recall data, a features object is passed to the Egg class. It is comprised -of a dictionary for each presented stimulus that contains feature dimensions and -values for each stimulus. - -""" - -# Code source: Andrew Heusser -# License: MIT - -#import -import quail - -#load data -egg = quail.load('example') - -# analyze and plot -egg.analyze('fingerprint', listgroup=['average']*8, features=['temporal']).plot(title='Memory Fingerprint') diff --git a/docs/_build/html/_downloads/plot_lagcrp.ipynb b/docs/_build/html/_downloads/plot_lagcrp.ipynb deleted file mode 100644 index f46db0e..0000000 --- a/docs/_build/html/_downloads/plot_lagcrp.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "cells": [ - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "%matplotlib inline" - ] - }, - { - "cell_type": "markdown", - "metadata": {}, - "source": [ - "\n# Plot Lag-CRP\n\n\nThis example plots a Lag-CRP as described in Kahana et al (1996).\nGiven the recall of a stimulus in position n, this plot shows the probability of\nrecalling stimuli in neighboring stimulus positions (n+/-5).\n\n\n" - ] - }, - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\n# import\nimport quail\n\n# load data\negg = quail.load('example')\n\n# analyze and plot\negg.analyze('lagcrp', listgroup=['average']*8).plot(title='Lag-CRP')" - ] - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 3", - "language": "python", - "name": "python3" - }, - "language_info": { - "codemirror_mode": { - "name": "ipython", - "version": 3 - }, - "file_extension": ".py", - "mimetype": "text/x-python", - "name": "python", - "nbconvert_exporter": "python", - "pygments_lexer": "ipython3", - "version": "3.6.5" - } - }, - "nbformat": 4, - "nbformat_minor": 0 -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/plot_lagcrp.py b/docs/_build/html/_downloads/plot_lagcrp.py deleted file mode 100644 index f1fb2b9..0000000 --- a/docs/_build/html/_downloads/plot_lagcrp.py +++ /dev/null @@ -1,23 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Plot Lag-CRP -============================= - -This example plots a Lag-CRP as described in Kahana et al (1996). -Given the recall of a stimulus in position n, this plot shows the probability of -recalling stimuli in neighboring stimulus positions (n+/-5). - -""" - -# Code source: Andrew Heusser -# License: MIT - -# import -import quail - -# load data -egg = quail.load('example') - -# analyze and plot -egg.analyze('lagcrp', listgroup=['average']*8).plot(title='Lag-CRP') diff --git a/docs/_build/html/_downloads/plot_pfr.ipynb b/docs/_build/html/_downloads/plot_pfr.ipynb deleted file mode 100644 index 6fe30b9..0000000 --- a/docs/_build/html/_downloads/plot_pfr.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "nbformat_minor": 0, - "nbformat": 4, - "cells": [ - { - "execution_count": null, - "cell_type": "code", - "source": [ - "%matplotlib inline" - ], - "outputs": [], - "metadata": { - "collapsed": false - } - }, - { - "source": [ - "\n# Plot probability of first recall\n\n\nThis example plots the probability of an item being recalled first given its\nlist position.\n\n\n" - ], - "cell_type": "markdown", - "metadata": {} - }, - { - "execution_count": null, - "cell_type": "code", - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\n# import\nimport quail\n\n#load data\negg = quail.load_example_data()\n\n# analysis\nanalyzed_data = quail.analyze(egg, analysis='pfr', listgroup=['average']*8)\n\n# plot\nquail.plot(analyzed_data, title='Probability of First Recall')" - ], - "outputs": [], - "metadata": { - "collapsed": false - } - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 2", - "name": "python2", - "language": "python" - }, - "language_info": { - "mimetype": "text/x-python", - "nbconvert_exporter": "python", - "name": "python", - "file_extension": ".py", - "version": "2.7.11", - "pygments_lexer": "ipython2", - "codemirror_mode": { - "version": 2, - "name": "ipython" - } - } - } -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/plot_pfr.py b/docs/_build/html/_downloads/plot_pfr.py deleted file mode 100644 index d8a4cf2..0000000 --- a/docs/_build/html/_downloads/plot_pfr.py +++ /dev/null @@ -1,25 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Plot probability of first recall -============================= - -This example plots the probability of an item being recalled first given its -list position. - -""" - -# Code source: Andrew Heusser -# License: MIT - -# import -import quail - -#load data -egg = quail.load_example_data() - -# analysis -analyzed_data = quail.analyze(egg, analysis='pfr', listgroup=['average']*8) - -# plot -quail.plot(analyzed_data, title='Probability of First Recall') diff --git a/docs/_build/html/_downloads/plot_pnr.ipynb b/docs/_build/html/_downloads/plot_pnr.ipynb deleted file mode 100644 index 95a5898..0000000 --- a/docs/_build/html/_downloads/plot_pnr.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "cells": [ - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "%matplotlib inline" - ] - }, - { - "cell_type": "markdown", - "metadata": {}, - "source": [ - "\n# Plot probability of nth recall\n\n\nThis example plots the probability of an item being recalled nth given its\nlist position.\n\n\n" - ] - }, - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\n# import\nimport quail\n\n#load data\negg = quail.load_example_data()\n\n# analysis\nanalyzed_data = quail.analyze(egg, analysis='pnr', listgroup=['average']*8,\n position=5)\n\n# plot\nquail.plot(analyzed_data, title='Probability of Recall')" - ] - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 3", - "language": "python", - "name": "python3" - }, - "language_info": { - "codemirror_mode": { - "name": "ipython", - "version": 3 - }, - "file_extension": ".py", - "mimetype": "text/x-python", - "name": "python", - "nbconvert_exporter": "python", - "pygments_lexer": "ipython3", - "version": "3.6.5" - } - }, - "nbformat": 4, - "nbformat_minor": 0 -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/plot_pnr.py b/docs/_build/html/_downloads/plot_pnr.py deleted file mode 100644 index 6abf805..0000000 --- a/docs/_build/html/_downloads/plot_pnr.py +++ /dev/null @@ -1,26 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Plot probability of nth recall -============================= - -This example plots the probability of an item being recalled nth given its -list position. - -""" - -# Code source: Andrew Heusser -# License: MIT - -# import -import quail - -#load data -egg = quail.load_example_data() - -# analysis -analyzed_data = quail.analyze(egg, analysis='pnr', listgroup=['average']*8, - position=5) - -# plot -quail.plot(analyzed_data, title='Probability of Recall') diff --git a/docs/_build/html/_downloads/plot_spc.ipynb b/docs/_build/html/_downloads/plot_spc.ipynb deleted file mode 100644 index 4d244bf..0000000 --- a/docs/_build/html/_downloads/plot_spc.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "cells": [ - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "%matplotlib inline" - ] - }, - { - "cell_type": "markdown", - "metadata": {}, - "source": [ - "\n# Plot serial position curve\n\n\nThis example plots the probability of recall success as a function of serial\nposition during stimulus encoding.\n\n\n" - ] - }, - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\n# import\nimport quail\n\n#load data\negg = quail.load_example_data()\n\n# analyze and plot\negg.analyze('spc', listgroup=['average']*8).plot(title='Serial Position Curve')" - ] - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 3", - "language": "python", - "name": "python3" - }, - "language_info": { - "codemirror_mode": { - "name": "ipython", - "version": 3 - }, - "file_extension": ".py", - "mimetype": "text/x-python", - "name": "python", - "nbconvert_exporter": "python", - "pygments_lexer": "ipython3", - "version": "3.6.5" - } - }, - "nbformat": 4, - "nbformat_minor": 0 -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/plot_spc.py b/docs/_build/html/_downloads/plot_spc.py deleted file mode 100644 index da03266..0000000 --- a/docs/_build/html/_downloads/plot_spc.py +++ /dev/null @@ -1,22 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Plot serial position curve -============================= - -This example plots the probability of recall success as a function of serial -position during stimulus encoding. - -""" - -# Code source: Andrew Heusser -# License: MIT - -# import -import quail - -#load data -egg = quail.load_example_data() - -# analyze and plot -egg.analyze('spc', listgroup=['average']*8).plot(title='Serial Position Curve') diff --git a/docs/_build/html/_downloads/plot_tempclust.ipynb b/docs/_build/html/_downloads/plot_tempclust.ipynb deleted file mode 100644 index 2d0dfe2..0000000 --- a/docs/_build/html/_downloads/plot_tempclust.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "nbformat_minor": 0, - "nbformat": 4, - "cells": [ - { - "execution_count": null, - "cell_type": "code", - "source": [ - "%matplotlib inline" - ], - "outputs": [], - "metadata": { - "collapsed": false - } - }, - { - "source": [ - "\n# Plot temporal clustering\n\n\nThis example plots temporal clustering, the extent to which subject tend to\nrecall neighboring items sequentially.\n\n\n" - ], - "cell_type": "markdown", - "metadata": {} - }, - { - "execution_count": null, - "cell_type": "code", - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\n# import\nimport quail\n\n#load data\negg = quail.load_example_data()\n\n#analysis\nanalyzed_data = quail.analyze(egg, analysis='temporal', listgroup=['early']*8+['late']*8)\n\n#plot\nquail.plot(analyzed_data, title='Temporal Clustering')" - ], - "outputs": [], - "metadata": { - "collapsed": false - } - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 2", - "name": "python2", - "language": "python" - }, - "language_info": { - "mimetype": "text/x-python", - "nbconvert_exporter": "python", - "name": "python", - "file_extension": ".py", - "version": "2.7.11", - "pygments_lexer": "ipython2", - "codemirror_mode": { - "version": 2, - "name": "ipython" - } - } - } -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/plot_tempclust.py b/docs/_build/html/_downloads/plot_tempclust.py deleted file mode 100644 index 15e6e33..0000000 --- a/docs/_build/html/_downloads/plot_tempclust.py +++ /dev/null @@ -1,25 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Plot temporal clustering -============================= - -This example plots temporal clustering, the extent to which subject tend to -recall neighboring items sequentially. - -""" - -# Code source: Andrew Heusser -# License: MIT - -# import -import quail - -#load data -egg = quail.load_example_data() - -#analysis -analyzed_data = quail.analyze(egg, analysis='temporal', listgroup=['early']*8+['late']*8) - -#plot -quail.plot(analyzed_data, title='Temporal Clustering') diff --git a/docs/_build/html/_downloads/plot_temporal.ipynb b/docs/_build/html/_downloads/plot_temporal.ipynb deleted file mode 100644 index b09c96e..0000000 --- a/docs/_build/html/_downloads/plot_temporal.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "nbformat_minor": 0, - "nbformat": 4, - "cells": [ - { - "execution_count": null, - "cell_type": "code", - "source": [ - "%matplotlib inline" - ], - "outputs": [], - "metadata": { - "collapsed": false - } - }, - { - "source": [ - "\n# Plot temporal clustering\n\n\nThis example plots temporal clustering, the extent to which subject tend to\nrecall neighboring items sequentially.\n\n\n" - ], - "cell_type": "markdown", - "metadata": {} - }, - { - "execution_count": null, - "cell_type": "code", - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\n# import\nimport quail\n\n#load data\negg = quail.load_example_data()\n\n#analysis\nanalyzed_data = quail.analyze(egg, analysis='temporal', listgroup=['early']*4+['late']*4)\n\n#plot\nquail.plot(analyzed_data, title='Temporal Clustering')" - ], - "outputs": [], - "metadata": { - "collapsed": false - } - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 2", - "name": "python2", - "language": "python" - }, - "language_info": { - "mimetype": "text/x-python", - "nbconvert_exporter": "python", - "name": "python", - "file_extension": ".py", - "version": "2.7.11", - "pygments_lexer": "ipython2", - "codemirror_mode": { - "version": 2, - "name": "ipython" - } - } - } -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/plot_temporal.py b/docs/_build/html/_downloads/plot_temporal.py deleted file mode 100644 index a7226e8..0000000 --- a/docs/_build/html/_downloads/plot_temporal.py +++ /dev/null @@ -1,25 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Plot temporal clustering -============================= - -This example plots temporal clustering, the extent to which subject tend to -recall neighboring items sequentially. - -""" - -# Code source: Andrew Heusser -# License: MIT - -# import -import quail - -#load data -egg = quail.load_example_data() - -#analysis -analyzed_data = quail.analyze(egg, analysis='temporal', listgroup=['early']*4+['late']*4) - -#plot -quail.plot(analyzed_data, title='Temporal Clustering') diff --git a/docs/_build/html/_downloads/recmat2egg.ipynb b/docs/_build/html/_downloads/recmat2egg.ipynb deleted file mode 100644 index b15483c..0000000 --- a/docs/_build/html/_downloads/recmat2egg.ipynb +++ /dev/null @@ -1,54 +0,0 @@ -{ - "cells": [ - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "%matplotlib inline" - ] - }, - { - "cell_type": "markdown", - "metadata": {}, - "source": [ - "\n# Make egg out of recall matrix\n\n\nThis example shows how to make an egg out of a precomputed recall matrix so that\nthe analysis and plotting functions can be used.\n\n\n" - ] - }, - { - "cell_type": "code", - "execution_count": null, - "metadata": { - "collapsed": false - }, - "outputs": [], - "source": [ - "# Code source: Andrew Heusser\n# License: MIT\n\n# import\nimport quail\n\n# create fake recall matrix\nrecmat = [[[5,4,3,0,1], [3,1,2,0]]]\n\n# create egg\negg = quail.recmat2egg(recmat, list_length=6)" - ] - } - ], - "metadata": { - "kernelspec": { - "display_name": "Python 3", - "language": "python", - "name": "python3" - }, - "language_info": { - "codemirror_mode": { - "name": "ipython", - "version": 3 - }, - "file_extension": ".py", - "mimetype": "text/x-python", - "name": "python", - "nbconvert_exporter": "python", - "pygments_lexer": "ipython3", - "version": "3.6.5" - } - }, - "nbformat": 4, - "nbformat_minor": 0 -} \ No newline at end of file diff --git a/docs/_build/html/_downloads/recmat2egg.py b/docs/_build/html/_downloads/recmat2egg.py deleted file mode 100644 index b66af02..0000000 --- a/docs/_build/html/_downloads/recmat2egg.py +++ /dev/null @@ -1,22 +0,0 @@ -# -*- coding: utf-8 -*- -""" -============================= -Make egg out of recall matrix -============================= - -This example shows how to make an egg out of a precomputed recall matrix so that -the analysis and plotting functions can be used. - -""" - -# Code source: Andrew Heusser -# License: MIT - -# import -import quail - -# create fake recall matrix -recmat = [[[5,4,3,0,1], [3,1,2,0]]] - -# create egg -egg = quail.recmat2egg(recmat, list_length=6) diff --git a/docs/_build/html/_images/advanced_plotting_11_0.png b/docs/_build/html/_images/advanced_plotting_11_0.png index 878d9aa..1c05ba5 100644 Binary files a/docs/_build/html/_images/advanced_plotting_11_0.png and b/docs/_build/html/_images/advanced_plotting_11_0.png differ diff --git a/docs/_build/html/_images/advanced_plotting_11_1.png b/docs/_build/html/_images/advanced_plotting_11_1.png deleted file mode 100644 index 94282d0..0000000 Binary files a/docs/_build/html/_images/advanced_plotting_11_1.png and /dev/null differ diff --git a/docs/_build/html/_images/advanced_plotting_14_0.png b/docs/_build/html/_images/advanced_plotting_14_0.png index 2bf0738..aa71795 100644 Binary files a/docs/_build/html/_images/advanced_plotting_14_0.png and b/docs/_build/html/_images/advanced_plotting_14_0.png differ diff --git a/docs/_build/html/_images/advanced_plotting_16_0.png b/docs/_build/html/_images/advanced_plotting_16_0.png index 3978b53..cd6bb16 100644 Binary files a/docs/_build/html/_images/advanced_plotting_16_0.png and b/docs/_build/html/_images/advanced_plotting_16_0.png differ diff --git a/docs/_build/html/_images/advanced_plotting_18_0.png b/docs/_build/html/_images/advanced_plotting_18_0.png index de9bf13..d30ee9c 100644 Binary files a/docs/_build/html/_images/advanced_plotting_18_0.png and b/docs/_build/html/_images/advanced_plotting_18_0.png differ diff --git a/docs/_build/html/_images/advanced_plotting_18_1.png b/docs/_build/html/_images/advanced_plotting_18_1.png deleted file mode 100644 index 0f80c36..0000000 Binary files a/docs/_build/html/_images/advanced_plotting_18_1.png and /dev/null differ diff --git a/docs/_build/html/_images/advanced_plotting_20_0.png b/docs/_build/html/_images/advanced_plotting_20_0.png deleted file mode 100644 index 998c439..0000000 Binary files a/docs/_build/html/_images/advanced_plotting_20_0.png and /dev/null differ diff --git a/docs/_build/html/_images/advanced_plotting_20_1.png b/docs/_build/html/_images/advanced_plotting_20_1.png deleted file mode 100644 index 5752353..0000000 Binary files a/docs/_build/html/_images/advanced_plotting_20_1.png and /dev/null differ diff --git a/docs/_build/html/_images/advanced_plotting_23_0.png b/docs/_build/html/_images/advanced_plotting_23_0.png deleted file mode 100644 index 0949f4b..0000000 Binary files a/docs/_build/html/_images/advanced_plotting_23_0.png and /dev/null differ diff --git a/docs/_build/html/_images/advanced_plotting_23_1.png b/docs/_build/html/_images/advanced_plotting_23_1.png deleted file mode 100644 index 614d7e3..0000000 Binary files a/docs/_build/html/_images/advanced_plotting_23_1.png and /dev/null differ diff --git a/docs/_build/html/_images/advanced_plotting_26_0.png b/docs/_build/html/_images/advanced_plotting_26_0.png deleted file mode 100644 index ff70025..0000000 Binary files a/docs/_build/html/_images/advanced_plotting_26_0.png and /dev/null differ diff --git a/docs/_build/html/_images/advanced_plotting_26_1.png b/docs/_build/html/_images/advanced_plotting_26_1.png index c1d76ac..8122b86 100644 Binary files a/docs/_build/html/_images/advanced_plotting_26_1.png and b/docs/_build/html/_images/advanced_plotting_26_1.png differ diff --git a/docs/_build/html/_images/advanced_plotting_26_2.png b/docs/_build/html/_images/advanced_plotting_26_2.png deleted file mode 100644 index 2f53b84..0000000 Binary files a/docs/_build/html/_images/advanced_plotting_26_2.png and /dev/null differ diff --git a/docs/_build/html/_images/advanced_plotting_28_0.png b/docs/_build/html/_images/advanced_plotting_28_0.png deleted file mode 100644 index 5a746bf..0000000 Binary files a/docs/_build/html/_images/advanced_plotting_28_0.png and /dev/null differ diff --git a/docs/_build/html/_images/advanced_plotting_28_1.png b/docs/_build/html/_images/advanced_plotting_28_1.png deleted file mode 100644 index 5387d2f..0000000 Binary files a/docs/_build/html/_images/advanced_plotting_28_1.png and /dev/null differ diff --git a/docs/_build/html/_images/advanced_plotting_28_2.png b/docs/_build/html/_images/advanced_plotting_28_2.png deleted file mode 100644 index 4106b90..0000000 Binary files a/docs/_build/html/_images/advanced_plotting_28_2.png and /dev/null differ diff --git a/docs/_build/html/_images/advanced_plotting_5_0.png b/docs/_build/html/_images/advanced_plotting_5_0.png deleted file mode 100644 index ff9dd47..0000000 Binary files a/docs/_build/html/_images/advanced_plotting_5_0.png and /dev/null differ diff --git a/docs/_build/html/_images/advanced_plotting_7_0.png b/docs/_build/html/_images/advanced_plotting_7_0.png index 4bc919c..2d85572 100644 Binary files a/docs/_build/html/_images/advanced_plotting_7_0.png and b/docs/_build/html/_images/advanced_plotting_7_0.png differ diff --git a/docs/_build/html/_images/advanced_plotting_9_0.png b/docs/_build/html/_images/advanced_plotting_9_0.png index 9c9e126..3cda272 100644 Binary files a/docs/_build/html/_images/advanced_plotting_9_0.png and b/docs/_build/html/_images/advanced_plotting_9_0.png differ diff --git a/docs/_build/html/_images/basic_analyze_and_plot_14_0.png b/docs/_build/html/_images/basic_analyze_and_plot_14_0.png deleted file mode 100644 index 5164e62..0000000 Binary files a/docs/_build/html/_images/basic_analyze_and_plot_14_0.png and /dev/null differ diff --git a/docs/_build/html/_images/basic_analyze_and_plot_19_0.png b/docs/_build/html/_images/basic_analyze_and_plot_19_0.png deleted file mode 100644 index 4d52fc0..0000000 Binary files a/docs/_build/html/_images/basic_analyze_and_plot_19_0.png and /dev/null differ diff --git a/docs/_build/html/_images/basic_analyze_and_plot_23_0.png b/docs/_build/html/_images/basic_analyze_and_plot_23_0.png deleted file mode 100644 index 4188a13..0000000 Binary files a/docs/_build/html/_images/basic_analyze_and_plot_23_0.png and /dev/null differ diff --git a/docs/_build/html/_images/basic_analyze_and_plot_27_0.png b/docs/_build/html/_images/basic_analyze_and_plot_27_0.png deleted file mode 100644 index b8c8c08..0000000 Binary files a/docs/_build/html/_images/basic_analyze_and_plot_27_0.png and /dev/null differ diff --git a/docs/_build/html/_images/basic_analyze_and_plot_29_0.png b/docs/_build/html/_images/basic_analyze_and_plot_29_0.png deleted file mode 100644 index c1b954c..0000000 Binary files a/docs/_build/html/_images/basic_analyze_and_plot_29_0.png and /dev/null differ diff --git a/docs/_build/html/_images/basic_analyze_and_plot_33_0.png b/docs/_build/html/_images/basic_analyze_and_plot_33_0.png deleted file mode 100644 index 04e0d72..0000000 Binary files a/docs/_build/html/_images/basic_analyze_and_plot_33_0.png and /dev/null differ diff --git a/docs/_build/html/_images/basic_analyze_and_plot_35_0.png b/docs/_build/html/_images/basic_analyze_and_plot_35_0.png deleted file mode 100644 index e323955..0000000 Binary files a/docs/_build/html/_images/basic_analyze_and_plot_35_0.png and /dev/null differ diff --git a/docs/_build/html/_images/basic_analyze_and_plot_39_0.png b/docs/_build/html/_images/basic_analyze_and_plot_39_0.png deleted file mode 100644 index b7a7719..0000000 Binary files a/docs/_build/html/_images/basic_analyze_and_plot_39_0.png and /dev/null differ diff --git a/docs/_build/html/_images/fingerprint1.png b/docs/_build/html/_images/fingerprint1.png deleted file mode 100644 index 0b66451..0000000 Binary files a/docs/_build/html/_images/fingerprint1.png and /dev/null differ diff --git a/docs/_build/html/_images/fingerprint25.png b/docs/_build/html/_images/fingerprint25.png deleted file mode 100644 index 3383348..0000000 Binary files a/docs/_build/html/_images/fingerprint25.png and /dev/null differ diff --git a/docs/_build/html/_images/fingerprint3.png b/docs/_build/html/_images/fingerprint3.png deleted file mode 100644 index 5f84617..0000000 Binary files a/docs/_build/html/_images/fingerprint3.png and /dev/null differ diff --git a/docs/_build/html/_images/fingerprint4.png b/docs/_build/html/_images/fingerprint4.png deleted file mode 100644 index c5d1edf..0000000 Binary files a/docs/_build/html/_images/fingerprint4.png and /dev/null differ diff --git a/docs/_build/html/_images/plot_fingerprint.png b/docs/_build/html/_images/plot_fingerprint.png index 4c22c13..251204e 100644 Binary files a/docs/_build/html/_images/plot_fingerprint.png and b/docs/_build/html/_images/plot_fingerprint.png differ diff --git a/docs/_build/html/_images/plot_lagcrp.png b/docs/_build/html/_images/plot_lagcrp.png index 3fd16fb..9967591 100644 Binary files a/docs/_build/html/_images/plot_lagcrp.png and b/docs/_build/html/_images/plot_lagcrp.png differ diff --git a/docs/_build/html/_images/sphx_glr_crack_egg_thumb.png b/docs/_build/html/_images/sphx_glr_crack_egg_thumb.png index cbc8e0f..1bcc781 100644 Binary files a/docs/_build/html/_images/sphx_glr_crack_egg_thumb.png and b/docs/_build/html/_images/sphx_glr_crack_egg_thumb.png differ diff --git a/docs/_build/html/_images/sphx_glr_create_egg_thumb.png b/docs/_build/html/_images/sphx_glr_create_egg_thumb.png index cbc8e0f..1bcc781 100644 Binary files a/docs/_build/html/_images/sphx_glr_create_egg_thumb.png and b/docs/_build/html/_images/sphx_glr_create_egg_thumb.png differ diff --git a/docs/_build/html/_images/sphx_glr_create_multisubject_egg_thumb.png b/docs/_build/html/_images/sphx_glr_create_multisubject_egg_thumb.png index cbc8e0f..1bcc781 100644 Binary files a/docs/_build/html/_images/sphx_glr_create_multisubject_egg_thumb.png and b/docs/_build/html/_images/sphx_glr_create_multisubject_egg_thumb.png differ diff --git a/docs/_build/html/_images/sphx_glr_decode_speech_thumb.png b/docs/_build/html/_images/sphx_glr_decode_speech_thumb.png index cbc8e0f..1bcc781 100644 Binary files a/docs/_build/html/_images/sphx_glr_decode_speech_thumb.png and b/docs/_build/html/_images/sphx_glr_decode_speech_thumb.png differ diff --git a/docs/_build/html/_images/sphx_glr_fingerprint_optimalpresenter_thumb.png b/docs/_build/html/_images/sphx_glr_fingerprint_optimalpresenter_thumb.png index 233f8e6..1bcc781 100644 Binary files a/docs/_build/html/_images/sphx_glr_fingerprint_optimalpresenter_thumb.png and b/docs/_build/html/_images/sphx_glr_fingerprint_optimalpresenter_thumb.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_accuracy_001.png b/docs/_build/html/_images/sphx_glr_plot_accuracy_001.png index a774ca3..0c7cf04 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_accuracy_001.png and b/docs/_build/html/_images/sphx_glr_plot_accuracy_001.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_accuracy_thumb.png b/docs/_build/html/_images/sphx_glr_plot_accuracy_thumb.png index 392278e..acffb44 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_accuracy_thumb.png and b/docs/_build/html/_images/sphx_glr_plot_accuracy_thumb.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_existing_axes_001.png b/docs/_build/html/_images/sphx_glr_plot_existing_axes_001.png index 47b6ca7..afdb876 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_existing_axes_001.png and b/docs/_build/html/_images/sphx_glr_plot_existing_axes_001.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_existing_axes_thumb.png b/docs/_build/html/_images/sphx_glr_plot_existing_axes_thumb.png index 513f479..3f88eea 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_existing_axes_thumb.png and b/docs/_build/html/_images/sphx_glr_plot_existing_axes_thumb.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_fingerprint_001.png b/docs/_build/html/_images/sphx_glr_plot_fingerprint_001.png index e8d0d32..251204e 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_fingerprint_001.png and b/docs/_build/html/_images/sphx_glr_plot_fingerprint_001.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_fingerprint_thumb.png b/docs/_build/html/_images/sphx_glr_plot_fingerprint_thumb.png index 50fcc09..ae7a213 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_fingerprint_thumb.png and b/docs/_build/html/_images/sphx_glr_plot_fingerprint_thumb.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_lagcrp_001.png b/docs/_build/html/_images/sphx_glr_plot_lagcrp_001.png index bb7e152..9967591 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_lagcrp_001.png and b/docs/_build/html/_images/sphx_glr_plot_lagcrp_001.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_lagcrp_thumb.png b/docs/_build/html/_images/sphx_glr_plot_lagcrp_thumb.png index 9ada197..8a0c750 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_lagcrp_thumb.png and b/docs/_build/html/_images/sphx_glr_plot_lagcrp_thumb.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_pfr_001.png b/docs/_build/html/_images/sphx_glr_plot_pfr_001.png index 3532e5c..3b6e555 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_pfr_001.png and b/docs/_build/html/_images/sphx_glr_plot_pfr_001.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_pfr_thumb.png b/docs/_build/html/_images/sphx_glr_plot_pfr_thumb.png index ada934f..227af70 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_pfr_thumb.png and b/docs/_build/html/_images/sphx_glr_plot_pfr_thumb.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_pnr_001.png b/docs/_build/html/_images/sphx_glr_plot_pnr_001.png index 5d6ca16..5586627 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_pnr_001.png and b/docs/_build/html/_images/sphx_glr_plot_pnr_001.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_pnr_thumb.png b/docs/_build/html/_images/sphx_glr_plot_pnr_thumb.png index 68864e0..9369335 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_pnr_thumb.png and b/docs/_build/html/_images/sphx_glr_plot_pnr_thumb.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_spc_001.png b/docs/_build/html/_images/sphx_glr_plot_spc_001.png index 8c58b95..d3c8ba8 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_spc_001.png and b/docs/_build/html/_images/sphx_glr_plot_spc_001.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_spc_thumb.png b/docs/_build/html/_images/sphx_glr_plot_spc_thumb.png index 7ab83f3..d249266 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_spc_thumb.png and b/docs/_build/html/_images/sphx_glr_plot_spc_thumb.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_tempclust_001.png b/docs/_build/html/_images/sphx_glr_plot_tempclust_001.png deleted file mode 100644 index 1e0682f..0000000 Binary files a/docs/_build/html/_images/sphx_glr_plot_tempclust_001.png and /dev/null differ diff --git a/docs/_build/html/_images/sphx_glr_plot_temporal_001.png b/docs/_build/html/_images/sphx_glr_plot_temporal_001.png index 86f47e6..a6eda92 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_temporal_001.png and b/docs/_build/html/_images/sphx_glr_plot_temporal_001.png differ diff --git a/docs/_build/html/_images/sphx_glr_plot_temporal_thumb.png b/docs/_build/html/_images/sphx_glr_plot_temporal_thumb.png index 0e4af1e..e70d512 100644 Binary files a/docs/_build/html/_images/sphx_glr_plot_temporal_thumb.png and b/docs/_build/html/_images/sphx_glr_plot_temporal_thumb.png differ diff --git a/docs/_build/html/_images/sphx_glr_recmat2egg_thumb.png b/docs/_build/html/_images/sphx_glr_recmat2egg_thumb.png index cbc8e0f..1bcc781 100644 Binary files a/docs/_build/html/_images/sphx_glr_recmat2egg_thumb.png and b/docs/_build/html/_images/sphx_glr_recmat2egg_thumb.png differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_11_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_11_0.png deleted file mode 100644 index 921703e..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_11_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_11_1.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_11_1.png deleted file mode 100644 index bcda101..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_11_1.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_14_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_14_0.png deleted file mode 100644 index 1e6f0ef..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_14_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_16_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_16_0.png deleted file mode 100644 index 10151d0..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_16_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_18_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_18_0.png deleted file mode 100644 index f203eaa..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_18_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_20_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_20_0.png deleted file mode 100644 index 1d819ea..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_20_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_20_1.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_20_1.png deleted file mode 100644 index 1be6ddc..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_20_1.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_23_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_23_0.png deleted file mode 100644 index 06ee0b5..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_23_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_23_1.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_23_1.png deleted file mode 100644 index 70840f6..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_23_1.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_0.png deleted file mode 100644 index 2fcc599..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_1.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_1.png deleted file mode 100644 index 6ef4942..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_1.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_2.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_2.png deleted file mode 100644 index d53c958..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_2.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_3.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_3.png deleted file mode 100644 index d7a2c79..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_26_3.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_0.png deleted file mode 100644 index 20a29af..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_1.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_1.png deleted file mode 100644 index a0cd659..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_1.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_2.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_2.png deleted file mode 100644 index 515e183..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_2.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_3.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_3.png deleted file mode 100644 index e10e27b..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_28_3.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_5_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_5_0.png deleted file mode 100644 index 414e7b8..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_5_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_7_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_7_0.png deleted file mode 100644 index 620981b..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_7_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_9_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_9_0.png deleted file mode 100644 index 3f48b4f..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_advanced_plotting-checkpoint_9_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_14_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_14_0.png deleted file mode 100644 index 2af412e..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_14_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_14_1.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_14_1.png deleted file mode 100644 index 0822a09..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_14_1.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_19_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_19_0.png deleted file mode 100644 index 7cf2a16..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_19_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_19_1.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_19_1.png deleted file mode 100644 index 9da2cec..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_19_1.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_23_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_23_0.png deleted file mode 100644 index 7157b9c..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_23_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_23_1.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_23_1.png deleted file mode 100644 index 95b80dc..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_23_1.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_27_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_27_0.png deleted file mode 100644 index 42d60a5..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_27_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_27_1.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_27_1.png deleted file mode 100644 index 13b34b3..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_27_1.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_29_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_29_0.png deleted file mode 100644 index c1b954c..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_29_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_29_1.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_29_1.png deleted file mode 100644 index 90d306b..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_29_1.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_35_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_35_0.png deleted file mode 100644 index e323955..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_35_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_35_1.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_35_1.png deleted file mode 100644 index 5f68ba0..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_35_1.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_37_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_37_0.png deleted file mode 100644 index a35777f..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_37_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_39_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_39_0.png deleted file mode 100644 index b7a7719..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_basic_analyze_and_plot-checkpoint_39_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_optimal_presenter-checkpoint_2_0.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_optimal_presenter-checkpoint_2_0.png deleted file mode 100644 index 33f481e..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_optimal_presenter-checkpoint_2_0.png and /dev/null differ diff --git a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_optimal_presenter-checkpoint_6_1.png b/docs/_build/html/_images/tutorial_.ipynb_checkpoints_optimal_presenter-checkpoint_6_1.png deleted file mode 100644 index 18348c4..0000000 Binary files a/docs/_build/html/_images/tutorial_.ipynb_checkpoints_optimal_presenter-checkpoint_6_1.png and /dev/null differ diff --git a/docs/_build/html/_modules/index.html b/docs/_build/html/_modules/index.html index fc9f0f7..8ca6fb2 100644 --- a/docs/_build/html/_modules/index.html +++ b/docs/_build/html/_modules/index.html @@ -1,44 +1,35 @@ - - + - - + + Overview: module code — quail 0.2.0 documentation - - - - - - - - - - - - - - - + + + + + + + + + + + + + + + + + - - +