diff --git a/.bumpversion.toml b/.bumpversion.toml index ac9326d..d57de94 100644 --- a/.bumpversion.toml +++ b/.bumpversion.toml @@ -1,7 +1,7 @@ # bump-my-version bump minor --allow-dirty [tool.bumpversion] -current_version = "1.2.1" +current_version = "1.2.2" parse = "(?P\\d+)\\.(?P\\d+)\\.(?P\\d+)" serialize = ["{major}.{minor}.{patch}"] search = "{current_version}" diff --git a/Cargo.toml b/Cargo.toml index ecf1367..d16c7c2 100644 --- a/Cargo.toml +++ b/Cargo.toml @@ -1,6 +1,6 @@ [package] name = "deepchopper" -version = "1.2.1" +version = "1.2.2" edition = "2021" authors = ["Yangyang Li "] description = "A Genomic Language Model for Chimera Artifact Detection in Nanopore Direct RNA Sequencing" diff --git a/py_cli/pyproject.toml b/py_cli/pyproject.toml index 92ede38..52ba655 100644 --- a/py_cli/pyproject.toml +++ b/py_cli/pyproject.toml @@ -1,10 +1,10 @@ [build-system] -requires = ["maturin>=1.2.1,<2"] +requires = ["maturin>=1.2.2,<2"] build-backend = "maturin" [project] name = "deepchopper-cli" -version = "1.2.1" +version = "1.2.2" description = "CLI for DeepChopper: A Genomic Language Model for Chimera Artifact Detection" authors = [{ name = "Yangyang Li", email = "yangyang.li@northwestern.edu" }] requires-python = ">=3.10" diff --git a/pyproject.toml b/pyproject.toml index 5e56ff9..e28c21a 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,12 +1,12 @@ [build-system] -requires = ["maturin>=1.2.1,<2"] +requires = ["maturin>=1.2.2,<2"] build-backend = "maturin" [tool.poetry] authors = ["Yangyang Li "] license = "Apache-2.0" name = "deepchopper" -version = "1.2.1" +version = "1.2.2" description = "A Genomic Language Model for Chimera Artifact Detection in Nanopore Direct RNA Sequencing" readme = "README.md" @@ -36,7 +36,7 @@ classifiers = [ dependencies = [ "torch>=2.1.0", "lightning>=2.1.2", - "torchmetrics>=1.2.1", + "torchmetrics>=1.2.2", "rich>=13.7.0", "transformers>=4.37.2", "safetensors>=0.4.2", @@ -81,7 +81,7 @@ torch = [ { version = "^2.1.0", source = "PyPI", markers = "sys_platform == 'darwin'" }, ] lightning = "^2.1.2" -torchmetrics = "^1.2.1" +torchmetrics = "^1.2.2" rich = "^13.7.0" transformers = "^4.37.2" safetensors = "^0.4.2" @@ -127,14 +127,14 @@ seaborn = "^0.13.2" fire = "^0.5.0" wandb = "^0.17.0" ruff = "^0.4.7" -hydra-submitit-launcher = "^1.2.1" +hydra-submitit-launcher = "^1.2.2" onnx = "^1.16.0" onnxscript = "^0.1.0.dev20240407" plotly = "^5.20.0" joblib = "^1.4.0" hydra-core = "^1.3.2" -hydra-colorlog = "^1.2.1" -hydra-optuna-sweeper = "^1.2.1" +hydra-colorlog = "^1.2.2" +hydra-optuna-sweeper = "^1.2.2" omegaconf = "^2.3.0" accelerate = "^0.27.2" deepspeed = "^0.13.4" @@ -150,8 +150,8 @@ nvidia-cusparse-cu11 = { version = "^11.7.5.86", markers = "sys_platform == 'lin nvidia-nccl-cu11 = { version = "^2.19.3", markers = "sys_platform == 'linux'" } nvidia-nvtx-cu11 = { version = "^11.8.86", markers = "sys_platform == 'linux'" } nvidia-cublas-cu11 = { version = "^11.11.3.6", markers = "sys_platform == 'linux'" } -mamba-ssm = { version = "^1.2.1.post1", markers = "sys_platform == 'linux'" } -causal-conv1d = { version = "^1.2.1.post2", markers = "sys_platform == 'linux'" } +mamba-ssm = { version = "^1.2.2.post1", markers = "sys_platform == 'linux'" } +causal-conv1d = { version = "^1.2.2.post2", markers = "sys_platform == 'linux'" } bump-my-version = "^0.27.0" [tool.ruff]