mnase-classifier 0.1.0__tar.gz

mnase_classifier-0.1.0/.gitignore

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+*.pyc
+Description_projet.md
+mnase_classifier/io/test_pairs.bam
+coverage.xml
+.coverage
+mnase_classifier.egg-info
+.DS_Store
+mnase_classifier/io/test_data/*
+debug.json

mnase_classifier-0.1.0/.gitlab-ci.yml

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+# SPDX-FileCopyrightText: 2026 Laurent Modolo <laurent.modolo@cnrs.fr>, Lauryn Trouillot <lauryn.trouillot@ens-lyon.fr>
+#
+# SPDX-License-Identifier: AGPL-3.0-or-later
+
+# You can override the included template(s) by including variable overrides
+# SAST customization: https://docs.gitlab.com/ee/user/application_security/sast/#customizing-the-sast-settings
+# Secret Detection customization: https://docs.gitlab.com/user/application_security/secret_detection/pipeline/configure
+# Dependency Scanning customization: https://docs.gitlab.com/ee/user/application_security/dependency_scanning/#customizing-the-dependency-scanning-settings
+# Container Scanning customization: https://docs.gitlab.com/ee/user/application_security/container_scanning/#customizing-the-container-scanning-settings
+# Note that environment variables can be set in several places
+# See https://docs.gitlab.com/ee/ci/variables/#cicd-variable-precedence
+tests: # Defines a job named tests. It includes the scripts and settings you want to apply to that specific task.
+  stage: test
+  image: python:3.15.0a5-slim # Docker image used to run the job tests
+  before_script: # Commands to execute before the script section
+    - pip install pytest-cov
+    - pip install uv
+    - uv sync
+  script: # commands that trigger the tests
+    - uv run --link-mode=copy pytest --cov --cov-report term --cov-report xml:coverage.xml
+  coverage: /TOTAL.* (\d+)\%$/
+  artifacts:
+    reports:
+      coverage_report:
+        coverage_format: cobertura
+        path: coverage.xml
+
+build:
+  stage: build
+  image: python:3.15.0a5-slim
+  before_script:
+    - pip install uv
+  script:
+    - uv build
+  artifacts:
+    paths:
+      - dist/
+  rules:
+    - if: $CI_COMMIT_TAG
+# publish:
+#   stage: deploy
+#   image: python:alpine3.23
+#   before_script:
+#     - pip install uv
+#     - uv add twine
+#   script:
+#     - TWINE_USERNAME=__token__ TWINE_PASSWORD=${PYPI_TOKEN} uv run twine upload dist/* --verbose
+#   rules:
+#     - if: $CI_COMMIT_TAG

mnase_classifier-0.1.0/.python-version

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+3.13

mnase_classifier-0.1.0/.python-version.license

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+SPDX-FileCopyrightText: 2026 Laurent Modolo <laurent.modolo@cnrs.fr>, Lauryn Trouillot <lauryn.trouillot@ens-lyon.fr>
+
+SPDX-License-Identifier: AGPL-3.0-or-later

mnase_classifier-0.1.0/.zed/tasks.json

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+// SPDX-FileCopyrightText: 2025 Laurent Modolo <laurent@modolo.fr>
+//
+// SPDX-License-Identifier: AGPL-3.0-or-later
+// Static tasks configuration.
+//
+// Example:
+[
+  {
+    "label": "run test",
+    "command": "source .venv/bin/activate && pytest",
+    //"args": [],
+    // Env overrides for the command, will be appended to the terminal's environment from the settings.
+    "env": { "foo": "bar" },
+    // Current working directory to spawn the command into, defaults to current project root.
+    //"cwd": "/path/to/working/directory",
+    // Whether to use a new terminal tab or reuse the existing one to spawn the process, defaults to `false`.
+    "use_new_terminal": false,
+    // Whether to allow multiple instances of the same task to be run, or rather wait for the existing ones to finish, defaults to `false`.
+    "allow_concurrent_runs": false,
+    // What to do with the terminal pane and tab, after the command was started:
+    // * `always` — always show the task's pane, and focus the corresponding tab in it (default)
+    // * `no_focus` — always show the task's pane, add the task's tab in it, but don't focus it
+    // * `never` — do not alter focus, but still add/reuse the task's tab in its pane
+    "reveal": "no_focus",
+    // Where to place the task's terminal item after starting the task:
+    // * `dock` — in the terminal dock, "regular" terminal items' place (default)
+    // * `center` — in the central pane group, "main" editor area
+    "reveal_target": "dock",
+    // What to do with the terminal pane and tab, after the command had finished:
+    // * `never` — Do nothing when the command finishes (default)
+    // * `always` — always hide the terminal tab, hide the pane also if it was the last tab in it
+    // * `on_success` — hide the terminal tab on task success only, otherwise behaves similar to `always`
+    "hide": "on_success",
+    // Which shell to use when running a task inside the terminal.
+    // May take 3 values:
+    // 1. (default) Use the system's default terminal configuration in /etc/passwd
+    //      "shell": "system"
+    // 2. A program:
+    //      "shell": {
+    //        "program": "sh"
+    //      }
+    // 3. A program with arguments:
+    //     "shell": {
+    //         "with_arguments": {
+    //           "program": "/bin/bash",
+    //           "args": ["--login"]
+    //         }
+    //     }
+    "shell": "system",
+  },
+]