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BID #140

Merged
merged 31 commits into from
Sep 16, 2024
Merged

BID #140

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80cf6eb
BID routines added
acevedo-s Jul 29, 2024
4e7d328
black formatting
acevedo-s Jul 29, 2024
6adb6f3
isort and flake8
acevedo-s Jul 29, 2024
b1cf141
test computing BID passed
acevedo-s Jul 29, 2024
8c3ed9f
format again
acevedo-s Jul 29, 2024
a5ab523
requirements JAX
acevedo-s Jul 30, 2024
a206067
only tox is not using the venv and doesn't find jax
acevedo-s Jul 30, 2024
faa9559
jax 0.4.30 added as dependency
acevedo-s Jul 30, 2024
c6a3eb0
trial:compatibility for JAX and python
acevedo-s Jul 30, 2024
9ea4d02
trial2: jax 0.3.25
acevedo-s Jul 30, 2024
897adbc
same-version jaxlib added as dependency
acevedo-s Jul 30, 2024
8b35cfa
jax and jaxlib 0.4.13 for python>=3.8
acevedo-s Jul 30, 2024
3dcc463
no version specification test for jax nor jaxlib
acevedo-s Jul 30, 2024
4af4764
Asking python>=3.8 for jax compatibilities
acevedo-s Jul 30, 2024
03a3725
discarding python 3.7 checks
acevedo-s Jul 30, 2024
7862087
trying to discard github test on python 3.7
acevedo-s Jul 30, 2024
7560a6e
all routines in dadapy/hamming + some docstrings
acevedo-s Jul 31, 2024
86ca199
tox -e black was missing...
acevedo-s Jul 31, 2024
0875064
basic tutorial example added
acevedo-s Jul 31, 2024
1fa5f9b
first version of the tutorial adding something on the 2D Ising model
acevedo-s Aug 8, 2024
21b7e78
checking if Ising example is the problem
acevedo-s Aug 8, 2024
3854ee6
check if datasets/hamming/ is the problem
acevedo-s Aug 8, 2024
31eea06
is the problem related to the example at all?
acevedo-s Aug 8, 2024
cd6d618
well, then the problem should be in hamming.py
acevedo-s Aug 8, 2024
973c79a
this runs perfectly fine in ubuntu
acevedo-s Aug 8, 2024
3990fbd
back to having test in 3.7
acevedo-s Sep 3, 2024
8f9e041
test.yml modified to change codecov version...
acevedo-s Sep 3, 2024
4187c5f
python 3.7 out because of incompatibilities with JAX
acevedo-s Sep 3, 2024
2926506
comment correction on test.yml
acevedo-s Sep 5, 2024
d614309
removing a folder which was saved in an incorrect place...
acevedo-s Sep 11, 2024
dff9798
adding self.intrinsic_dim to BID class
acevedo-s Sep 16, 2024
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3 changes: 1 addition & 2 deletions .github/workflows/test.yml
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Expand Up @@ -21,9 +21,8 @@ jobs:
- {os: "ubuntu-22.04", python-version: "3.10"}
- {os: "ubuntu-22.04", python-version: "3.9"}
- {os: "ubuntu-20.04", python-version: "3.8"}
- {os: "ubuntu-20.04", python-version: "3.7"}
#os: [ubuntu-latest] # TODO: add macos-latest, windows-latest ?
#python-version: [3.7, 3.8, 3.9, 3.10, 3.11]
#python-version: [3.8, 3.9, 3.10, 3.11]

timeout-minutes: 30

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3 changes: 2 additions & 1 deletion Makefile
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Expand Up @@ -15,7 +15,8 @@ black-check: ## check black formatting
flake8: ## check style with flake8
flake8 dadapy/base.py dadapy/metric_comparisons.py dadapy/clustering.py dadapy/id_estimation.py \
dadapy/density_estimation.py dadapy/id_discrete.py dadapy/data.py dadapy/feature_weighting.py \
dadapy/kstar.py dadapy/neigh_graph.py dadapy/density_advanced.py tests #dev_scripts examples
dadapy/kstar.py dadapy/neigh_graph.py dadapy/density_advanced.py dadapy/hamming.py \
tests #dev_scripts examples

# to include the "dadapy" folder: pytest tests --doctest-modules dadapy tests/
test: ## run tests quickly with the default Python
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