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{file = "urllib3-2.2.0-py3-none-any.whl", hash = "sha256:ce3711610ddce217e6d113a2732fafad960a03fd0318c91faa79481e35c11224"}, - {file = "urllib3-2.2.0.tar.gz", hash = "sha256:051d961ad0c62a94e50ecf1af379c3aba230c66c710493493560c0c223c49f20"}, + {file = "urllib3-2.2.1-py3-none-any.whl", hash = "sha256:450b20ec296a467077128bff42b73080516e71b56ff59a60a02bef2232c4fa9d"}, + {file = "urllib3-2.2.1.tar.gz", hash = "sha256:d0570876c61ab9e520d776c38acbbb5b05a776d3f9ff98a5c8fd5162a444cf19"}, ] [package.extras] From 629a0e8eae0057cceb957976568f1c6c77f9b9c5 Mon Sep 17 00:00:00 2001 From: Hananel Hazan Date: Thu, 22 Feb 2024 16:31:59 -0500 Subject: [PATCH 06/29] poetryupdate --- poetry.lock | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/poetry.lock b/poetry.lock index c498f508..df1a94ab 100644 --- a/poetry.lock +++ b/poetry.lock @@ -4179,13 +4179,13 @@ zstd = ["zstandard (>=0.18.0)"] [[package]] name = "virtualenv" -version = "20.25.0" +version = "20.25.1" description = "Virtual Python Environment builder" optional = false python-versions = ">=3.7" files = [ - {file = "virtualenv-20.25.0-py3-none-any.whl", hash = "sha256:4238949c5ffe6876362d9c0180fc6c3a824a7b12b80604eeb8085f2ed7460de3"}, - {file = "virtualenv-20.25.0.tar.gz", hash = "sha256:bf51c0d9c7dd63ea8e44086fa1e4fb1093a31e963b86959257378aef020e1f1b"}, + {file = "virtualenv-20.25.1-py3-none-any.whl", hash = "sha256:961c026ac520bac5f69acb8ea063e8a4f071bcc9457b9c1f28f6b085c511583a"}, + {file = "virtualenv-20.25.1.tar.gz", hash = "sha256:e08e13ecdca7a0bd53798f356d5831434afa5b07b93f0abdf0797b7a06ffe197"}, ] [package.dependencies] From 0e4fd52fd0986c85067c291cf64f82a3710e6a57 Mon Sep 17 00:00:00 2001 From: Hananel Hazan Date: Mon, 4 Mar 2024 18:51:01 -0500 Subject: [PATCH 07/29] poetry update --- poetry.lock | 84 ++++++++++++++++++++++++++--------------------------- 1 file changed, 42 insertions(+), 42 deletions(-) diff --git a/poetry.lock b/poetry.lock index df1a94ab..7d87ee8f 100644 --- a/poetry.lock +++ b/poetry.lock @@ -983,13 +983,13 @@ woff = ["brotli (>=1.0.1)", "brotlicffi (>=0.8.0)", "zopfli (>=0.1.4)"] [[package]] name = "foolbox" -version = "3.3.3" +version = "3.3.4" description = "Foolbox is an adversarial attacks library that works natively with PyTorch, TensorFlow and JAX" optional = false python-versions = "*" files = [ - 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(>=3.4.0)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "packaging (>=23.2)", "pytest", "pytest-enabler", "pytest-xdist", "tomli", "virtualenv (>=13.0.0)", "wheel"] [[package]] name = "shimmy" @@ -3702,13 +3702,13 @@ files = [ [[package]] name = "sniffio" -version = "1.3.0" +version = "1.3.1" description = "Sniff out which async library your code is running under" optional = false python-versions = ">=3.7" files = [ - {file = "sniffio-1.3.0-py3-none-any.whl", hash = "sha256:eecefdce1e5bbfb7ad2eeaabf7c1eeb404d7757c379bd1f7e5cce9d8bf425384"}, - {file = "sniffio-1.3.0.tar.gz", hash = "sha256:e60305c5e5d314f5389259b7f22aaa33d8f7dee49763119234af3755c55b9101"}, + {file = "sniffio-1.3.1-py3-none-any.whl", hash = "sha256:2f6da418d1f1e0fddd844478f41680e794e6051915791a034ff65e5f100525a2"}, + {file = "sniffio-1.3.1.tar.gz", hash = "sha256:f4324edc670a0f49750a81b895f35c3adb843cca46f0530f79fc1babb23789dc"}, ] [[package]] @@ -4126,13 +4126,13 @@ files = [ [[package]] name = "typing-extensions" 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files changed, 405 insertions(+), 463 deletions(-) diff --git a/poetry.lock b/poetry.lock index 7d87ee8f..688634c5 100644 --- a/poetry.lock +++ b/poetry.lock @@ -241,7 +241,6 @@ files = [ [package.dependencies] "AutoROM.accept-rom-license" = {version = "*", optional = true, markers = "extra == \"accept-rom-license\""} click = "*" -importlib-resources = {version = "*", markers = "python_version < \"3.9\""} requests = "*" tqdm = "*" @@ -260,7 +259,6 @@ files = [ [package.dependencies] click = "*" -importlib-resources = {version = "*", markers = "python_version < \"3.9\""} requests = "*" [package.extras] @@ -277,23 +275,9 @@ files = [ {file = "Babel-2.14.0.tar.gz", hash = "sha256:6919867db036398ba21eb5c7a0f6b28ab8cbc3ae7a73a44ebe34ae74a4e7d363"}, ] -[package.dependencies] -pytz = {version = ">=2015.7", markers = "python_version < \"3.9\""} - [package.extras] dev = ["freezegun (>=1.0,<2.0)", "pytest (>=6.0)", "pytest-cov"] -[[package]] -name = "backcall" -version = "0.2.0" -description = 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""" -import collections +import collections.abc import torch from torch.utils.data._utils import collate as pytorch_collate @@ -74,7 +74,7 @@ def time_aware_collate(batch): return torch.tensor(batch, dtype=torch.float64) elif isinstance(elem, int): return torch.tensor(batch) - elif isinstance(elem, collections.Mapping): + elif isinstance(elem, collections.abc.Mapping): return {key: time_aware_collate([d[key] for d in batch]) for key in elem} elif isinstance(elem, tuple) and hasattr(elem, "_fields"): # namedtuple return elem_type(*(time_aware_collate(samples) for samples in zip(*batch))) From 6b960ab983503db5788c8681bb596d182f3d6b9f Mon Sep 17 00:00:00 2001 From: Hananel Hazan Date: Thu, 28 Mar 2024 19:43:30 -0400 Subject: [PATCH 12/29] Update filelock and nbconvert versions --- poetry.lock | 18 +++++++++--------- 1 file changed, 9 insertions(+), 9 deletions(-) diff --git a/poetry.lock b/poetry.lock index 581c1432..b83b463d 100644 --- a/poetry.lock +++ b/poetry.lock @@ -878,18 +878,18 @@ devel = ["colorama", "json-spec", "jsonschema", "pylint", "pytest", "pytest-benc [[package]] name = "filelock" -version = "3.13.1" +version = "3.13.3" description = "A platform independent file lock." optional = false python-versions = ">=3.8" files = [ - {file = "filelock-3.13.1-py3-none-any.whl", hash = "sha256:57dbda9b35157b05fb3e58ee91448612eb674172fab98ee235ccb0b5bee19a1c"}, - {file = "filelock-3.13.1.tar.gz", hash = "sha256:521f5f56c50f8426f5e03ad3b281b490a87ef15bc6c526f168290f0c7148d44e"}, + {file = "filelock-3.13.3-py3-none-any.whl", hash = "sha256:5ffa845303983e7a0b7ae17636509bc97997d58afeafa72fb141a17b152284cb"}, + {file = "filelock-3.13.3.tar.gz", hash = "sha256:a79895a25bbefdf55d1a2a0a80968f7dbb28edcd6d4234a0afb3f37ecde4b546"}, ] [package.extras] -docs = ["furo (>=2023.9.10)", "sphinx (>=7.2.6)", "sphinx-autodoc-typehints (>=1.24)"] -testing = ["covdefaults (>=2.3)", "coverage (>=7.3.2)", "diff-cover (>=8)", "pytest (>=7.4.3)", "pytest-cov (>=4.1)", "pytest-mock (>=3.12)", "pytest-timeout (>=2.2)"] +docs = ["furo (>=2023.9.10)", "sphinx (>=7.2.6)", "sphinx-autodoc-typehints (>=1.25.2)"] +testing = ["covdefaults (>=2.3)", "coverage (>=7.3.2)", "diff-cover (>=8.0.1)", "pytest (>=7.4.3)", "pytest-cov (>=4.1)", "pytest-mock (>=3.12)", "pytest-timeout (>=2.2)"] typing = ["typing-extensions (>=4.8)"] [[package]] @@ -2020,13 +2020,13 @@ test = ["flaky", "ipykernel (>=6.19.3)", "ipython", "ipywidgets", "nbconvert (>= [[package]] name = "nbconvert" -version = "7.16.2" +version = "7.16.3" description = "Converting Jupyter Notebooks (.ipynb files) to other formats. 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{version = "^2.2.1", platform = "darwin"}, - {version = "^2.2.1", platform = "linux", source = "torch+cu118"}, - {version = "^2.2.1", platform = "win32", source = "torch+cu118"}, - {version = "^2.2.1", platform = "win_amd64", source = "torch+cu118"}, + {version = "^2.2.2", platform = "darwin"}, + {version = "^2.2.2", platform = "linux", source = "torch+cu118"}, + {version = "^2.2.2", platform = "win32", source = "torch+cu118"}, + {version = "^2.2.2", platform = "win_amd64", source = "torch+cu118"}, ] -torchvision = "0.17.1" -torchaudio = "2.2.1" +torchvision = "0.17.2" +torchaudio = "2.2.2" tensorboardX = "2.6.2.2" tqdm = "^4.66.2" matplotlib = "^3.8.3" From 4f22df20e7ca17b7e2b8b54f6740fd28d66c9adf Mon Sep 17 00:00:00 2001 From: Hananel Hazan Date: Thu, 28 Mar 2024 21:13:27 -0400 Subject: [PATCH 15/29] Update torchvision import in dataset wrapper --- bindsnet/datasets/torchvision_wrapper.py | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/bindsnet/datasets/torchvision_wrapper.py b/bindsnet/datasets/torchvision_wrapper.py index b3540c72..23960a04 100644 --- a/bindsnet/datasets/torchvision_wrapper.py +++ b/bindsnet/datasets/torchvision_wrapper.py @@ -1,7 +1,7 @@ from typing import Dict, Optional import torch -import torchvision +from torchvision import datasets as torchDB from bindsnet.encoding import Encoder, NullEncoder @@ -13,7 +13,7 @@ def create_torchvision_dataset_wrapper(ds_type): ``__getitem__``. This applies to all of the datasets inside of ``torchvision``. """ if type(ds_type) == str: - ds_type = getattr(torchvision.datasets, ds_type) + ds_type = getattr(torchDB, ds_type) class TorchvisionDatasetWrapper(ds_type): __doc__ = ( From 84f256a756f0346c4ff268688aaf47d1ea151e45 Mon Sep 17 00:00:00 2001 From: Hananel Hazan Date: Fri, 29 Mar 2024 10:48:53 -0400 Subject: [PATCH 16/29] Pytorch CUDA update in poetry --- poetry.lock | 61 +++++++++++++++++++++++++++++++++++++++++++++++++- pyproject.toml | 16 ++++++++++--- 2 files changed, 73 insertions(+), 4 deletions(-) diff --git a/poetry.lock b/poetry.lock index 1b494487..7c344fab 100644 --- a/poetry.lock +++ b/poetry.lock @@ -3932,6 +3932,33 @@ files = [ [package.dependencies] torch = "2.2.2" +[[package]] +name = "torchaudio" +version = "2.2.2+cu118" +description = "An audio package for PyTorch" +optional = false +python-versions = "*" +files = [ + {file = "torchaudio-2.2.2+cu118-cp310-cp310-linux_x86_64.whl", hash = "sha256:0b8ee953ef68f90974d1f7741ac2301c39d7c574aebc51081cfda64f5dad0ad4"}, + 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"^2.6.2.2" tqdm = "^4.66.2" matplotlib = "^3.8.3" gymnasium = {extras = ["atari", "accept-rom-license"], version = "^0.29.1"} From b0528a3524ff8722a7e32cbf73e775dd28badf7a Mon Sep 17 00:00:00 2001 From: Hananel Hazan Date: Fri, 29 Mar 2024 11:24:34 -0400 Subject: [PATCH 17/29] Update torch, torchvision, and torchaudio versions --- poetry.lock | 2 +- pyproject.toml | 24 ++++++++++++------------ 2 files changed, 13 insertions(+), 13 deletions(-) diff --git a/poetry.lock b/poetry.lock index 7c344fab..ae6b3649 100644 --- a/poetry.lock +++ b/poetry.lock @@ -4382,4 +4382,4 @@ testing = ["big-O", "jaraco.functools", "jaraco.itertools", "more-itertools", "p [metadata] lock-version = "2.0" python-versions = ">=3.9,<3.12" -content-hash = "cfb027d031c121e74e394de78a33da4343426789b0e129214684605fcff2914c" +content-hash = "a0ede0ed8cd84e4397b05368b025c4f6d0f25203bdc72a96525d42f65a40c98c" diff --git a/pyproject.toml b/pyproject.toml index 60f1faf7..7b9431f0 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -15,22 +15,22 @@ numpy = "^1.24.3" scipy = "^1.10.1" Cython = "^0.29.33" torch = [ - {version = "^2.2.2", platform = "darwin"}, - {version = "^2.2.2", platform = "linux", source = "torch+cu118"}, - {version = "^2.2.2", platform = "win32", source = "torch+cu118"}, - {version = "^2.2.2", platform = "win_amd64", source = "torch+cu118"}, + {version = "2.2.2", platform = "darwin"}, + {version = "2.2.2", platform = "linux", source = "torch+cu118"}, + {version = "2.2.2", platform = "win32", source = "torch+cu118"}, + {version = "2.2.2", platform = "win_amd64", source = "torch+cu118"}, ] torchvision = [ - {version = "^0.17.2", platform = "darwin"}, - {version = "^0.17.2", platform = "linux", source = "torch+cu118"}, - {version = "^0.17.2", platform = "win32", source = "torch+cu118"}, - {version = "^0.17.2", platform = "win_amd64", source = "torch+cu118"}, + {version = "0.17.2", platform = "darwin"}, + {version = "0.17.2", platform = "linux", source = "torch+cu118"}, + {version = "0.17.2", platform = "win32", source = "torch+cu118"}, + {version = "0.17.2", platform = "win_amd64", source = "torch+cu118"}, ] torchaudio = [ - {version = "^2.2.2", platform = "darwin"}, - {version = "^2.2.2", platform = "linux", source = "torch+cu118"}, - {version = "^2.2.2", platform = "win32", source = "torch+cu118"}, - {version = "^2.2.2", platform = "win_amd64", source = "torch+cu118"}, + {version = "2.2.2", platform = "darwin"}, + {version = "2.2.2", platform = "linux", source = "torch+cu118"}, + {version = "2.2.2", platform = "win32", source = "torch+cu118"}, + {version = "2.2.2", platform = "win_amd64", source = "torch+cu118"}, ] tensorboardX = "^2.6.2.2" tqdm = "^4.66.2" From f4163fe420fa6f05783f773f274b671529708564 Mon Sep 17 00:00:00 2001 From: Hananel Hazan Date: Fri, 29 Mar 2024 12:51:44 -0400 Subject: [PATCH 18/29] Addting Dale's rule to the base connection object --- bindsnet/network/topology.py | 14 ++++++++++++++ 1 file changed, 14 insertions(+) diff --git a/bindsnet/network/topology.py b/bindsnet/network/topology.py index 0abcf03e..98ac2555 100644 --- a/bindsnet/network/topology.py +++ b/bindsnet/network/topology.py @@ -48,6 +48,8 @@ def __init__( :param Union[float, torch.Tensor] wmax: Maximum allowed value(s) on the connection weights. Single value, or tensor of same size as w :param float norm: Total weight per target neuron normalization. + :param Union[bool, torch.Tensor] Dales_rule: Whether to enforce Dale's rule. input is boolean tensor in weight shape + where True means force zero or positive values and False means force zero or negative values. """ super().__init__() @@ -88,6 +90,12 @@ def __init__( **kwargs, ) + self.Dales_rule = kwargs.get("Dales_rule", None) + if self.Dales_rule is not None: + self.Dales_rule = Parameter( + torch.as_tensor(self.Dales_rule, dtype=torch.bool), requires_grad=False + ) + @abstractmethod def compute(self, s: torch.Tensor) -> None: # language=rst @@ -117,6 +125,12 @@ def update(self, **kwargs) -> None: if mask is not None: self.w.masked_fill_(mask, 0) + if self.Dales_rule is not None: + # weight that are negative and should be positive are set to 0 + self.w[self.w < 0 * self.Dales_rule.to(torch.float)] = 0 + # weight that are positive and should be negative are set to 0 + self.w[self.w > 0 * 1 - self.Dales_rule.to(torch.float)] = 0 + @abstractmethod def reset_state_variables(self) -> None: # language=rst From cf3e29fc51c41b8dd65e66c0f90cb04ebc1aab83 Mon Sep 17 00:00:00 2001 From: Hananel Hazan Date: Wed, 3 Apr 2024 14:13:25 -0400 Subject: [PATCH 19/29] Fix bug in login functionality --- poetry.lock | 372 +++++++++++++++++++++++++++------------------------- 1 file changed, 191 insertions(+), 181 deletions(-) diff --git a/poetry.lock b/poetry.lock index ae6b3649..b833f579 100644 --- a/poetry.lock +++ b/poetry.lock @@ -603,64 +603,64 @@ test = ["pytest"] [[package]] name = "contourpy" -version = "1.2.0" +version = "1.2.1" description = "Python library for calculating contours of 2D quadrilateral grids" optional = false python-versions = ">=3.9" files = [ - {file = "contourpy-1.2.0-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:0274c1cb63625972c0c007ab14dd9ba9e199c36ae1a231ce45d725cbcbfd10a8"}, - {file = "contourpy-1.2.0-cp310-cp310-macosx_11_0_arm64.whl", hash = "sha256:ab459a1cbbf18e8698399c595a01f6dcc5c138220ca3ea9e7e6126232d102bb4"}, - {file = "contourpy-1.2.0-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:6fdd887f17c2f4572ce548461e4f96396681212d858cae7bd52ba3310bc6f00f"}, - {file = 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