diff --git a/README.md b/README.md
index e3292a2..68fb8f7 100644
--- a/README.md
+++ b/README.md
@@ -44,7 +44,7 @@ Example usage in the code:
```python
from time import sleep
-from r2dt_client import setup, submit, update_status_for, fetch_results_for, clear_job_cache
+from r2dt_client import setup, submit, update_status_for, fetch_results_for
setup(email="YOUR_EMAIL")
@@ -58,6 +58,18 @@ fetch_results_for(job)
print(job.results['fasta'])
```
+Using the widget via Jupyter Notebook:
+
+```jupyter
+!pip install r2dt_client[widget]
+
+from r2dt_client import setup, draw
+
+setup(email="YOUR_EMAIL")
+draw(
+ ">S box leader))\nCTCTTATCGAGAGTTGGGCGAGGGATTTGGCCTTTTGACCCCAAAAGCAACCGACCGTAATTCCATTGTGAAATGGGGCGCATTTTTTTCGCGCCGAGACGCTGGTCTCTTAAGGCACGGTGCTAATTCCATTCAGATCTGATCTGAGAGATAAGAG")
+```
+
## Contributing
Contributions are very welcome.
diff --git a/poetry.lock b/poetry.lock
index 877c8e2..0f3d726 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -13,47 +13,26 @@ files = [
[[package]]
name = "anyio"
-version = "4.1.0"
+version = "4.2.0"
description = "High level compatibility layer for multiple asynchronous event loop implementations"
optional = false
python-versions = ">=3.8"
files = [
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- {file = "anyio-4.1.0.tar.gz", hash = "sha256:5a0bec7085176715be77df87fc66d6c9d70626bd752fcc85f57cdbee5b3760da"},
+ {file = "anyio-4.2.0-py3-none-any.whl", hash = "sha256:745843b39e829e108e518c489b31dc757de7d2131d53fac32bd8df268227bfee"},
+ {file = "anyio-4.2.0.tar.gz", hash = "sha256:e1875bb4b4e2de1669f4bc7869b6d3f54231cdced71605e6e64c9be77e3be50f"},
]
[package.dependencies]
exceptiongroup = {version = ">=1.0.2", markers = "python_version < \"3.11\""}
idna = ">=2.8"
sniffio = ">=1.1"
+typing-extensions = {version = ">=4.1", markers = "python_version < \"3.11\""}
[package.extras]
doc = ["Sphinx (>=7)", "packaging", "sphinx-autodoc-typehints (>=1.2.0)", "sphinx-rtd-theme"]
test = ["anyio[trio]", "coverage[toml] (>=7)", "exceptiongroup (>=1.2.0)", "hypothesis (>=4.0)", "psutil (>=5.9)", "pytest (>=7.0)", "pytest-mock (>=3.6.1)", "trustme", "uvloop (>=0.17)"]
trio = ["trio (>=0.23)"]
-[[package]]
-name = "anywidget"
-version = "0.8.0"
-description = "custom jupyter widgets made easy"
-optional = false
-python-versions = ">=3.7"
-files = [
- {file = "anywidget-0.8.0-py3-none-any.whl", hash = "sha256:c043018757c6a2a13351405421967d8b8387abe2d58d59d43cbe82de40ae69da"},
- {file = "anywidget-0.8.0.tar.gz", hash = "sha256:847a0fece58ea7a32d20dccd54a026dd3dd28f76daa6b4f0a74c253e5c7cfeec"},
-]
-
-[package.dependencies]
-comm = {version = ">=0.1.0", optional = true, markers = "extra == \"dev\""}
-ipywidgets = ">=7.6.0"
-psygnal = ">=0.8.1"
-typing-extensions = ">=4.2.0"
-watchfiles = {version = ">=0.18.0", optional = true, markers = "extra == \"dev\""}
-
-[package.extras]
-dev = ["comm (>=0.1.0)", "watchfiles (>=0.18.0)"]
-test = ["ipython (<8.13)", "msgspec", "pydantic", "pytest", "pytest-cov", "ruff"]
-
[[package]]
name = "appnope"
version = "0.1.3"
@@ -248,33 +227,33 @@ lxml = ["lxml"]
[[package]]
name = "black"
-version = "23.12.0"
+version = "23.12.1"
description = "The uncompromising code formatter."
optional = false
python-versions = ">=3.8"
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[package.dependencies]
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name = "coverage"
-version = "7.3.2"
+version = "7.3.4"
description = "Code coverage measurement for Python"
optional = false
python-versions = ">=3.8"
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-]
-
-[package.dependencies]
-anyio = ">=3.0.0"
-
[[package]]
name = "wcwidth"
version = "0.2.12"
@@ -4483,7 +4304,10 @@ files = [
docs = ["furo", "jaraco.packaging (>=9.3)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (<7.2.5)", "sphinx (>=3.5)", "sphinx-lint"]
testing = ["big-O", "jaraco.functools", "jaraco.itertools", "more-itertools", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=2.2)", "pytest-ignore-flaky", "pytest-mypy (>=0.9.1)", "pytest-ruff"]
+[extras]
+widgets = ["ipython"]
+
[metadata]
lock-version = "2.0"
python-versions = "^3.9"
-content-hash = "dc3777c8b84519386f2b60cb12fd4f905f2e0747f0ee17175cb4ce467c927ef0"
+content-hash = "c5c03d45fe2b66fd4648a308ed8e87a83cd6d31c8a8fd3ce240eee2e5b87fdcc"
diff --git a/pyproject.toml b/pyproject.toml
index 23636ec..d993316 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -17,24 +17,22 @@ Changelog = "https://github.com/anayden/r2dt-client/releases"
[tool.poetry.dependencies]
python = "^3.9"
-click = ">=8.0.1"
-ipython = "*"
-typer = {extras = ["all"], version = "^0.9.0"}
rich = "^13.7.0"
diskcache = "^5.6.3"
-httpx = "^0.25.2"
+httpx = "^0.26.0"
yarl = "^1.9.4"
-anywidget = {extras = ["dev"], version = "^0.8.0"}
+ipython = { version = "^8.18.0", optional = true }
+ipywidgets = { version = "^8.1.1", optional = true }
-[tool.poetry.scripts]
-r2dt-client = "r2dt_client.__main__:main"
+[tool.poetry.extras]
+widgets = ["ipython", "ipywidget"]
[tool.poetry.group.dev.dependencies]
jupyter = "^1.0.0"
poetry-plugin-export = "^1.6.0"
Pygments = ">=2.10.0"
black = ">=21.10b0"
-coverage = {extras = ["toml"], version = ">=6.2"}
+coverage = { extras = ["toml"], version = ">=6.2" }
darglint = ">=1.8.1"
flake8 = ">=4.0.1"
flake8-bandit = ">=2.1.2"
@@ -54,8 +52,8 @@ sphinx = ">=4.3.2"
sphinx-autobuild = ">=2021.3.14"
sphinx-click = ">=3.0.2"
typeguard = ">=2.13.3"
-xdoctest = {extras = ["colors"], version = ">=0.15.10"}
-myst-parser = {version = ">=0.16.1"}
+xdoctest = { extras = ["colors"], version = ">=0.15.10" }
+myst-parser = { version = ">=0.16.1" }
[tool.coverage.paths]
source = ["src", "*/site-packages"]
diff --git a/src/r2dt_client/__init__.py b/src/r2dt_client/__init__.py
index 1a521fc..aa9495e 100644
--- a/src/r2dt_client/__init__.py
+++ b/src/r2dt_client/__init__.py
@@ -5,6 +5,7 @@
from r2dt_client.client.client import setup
from r2dt_client.client.client import submit
from r2dt_client.client.client import update_status_for
+from r2dt_client.widgets.widget import draw
__all__ = [
@@ -13,4 +14,5 @@
"update_status_for",
"fetch_results_for",
"clear_job_cache",
+ "draw",
]
diff --git a/src/r2dt_client/widgets/__init__.py b/src/r2dt_client/widgets/__init__.py
new file mode 100644
index 0000000..e69de29
diff --git a/src/r2dt_client/widgets/widget.py b/src/r2dt_client/widgets/widget.py
new file mode 100644
index 0000000..5149460
--- /dev/null
+++ b/src/r2dt_client/widgets/widget.py
@@ -0,0 +1,67 @@
+import threading
+import time
+
+
+try:
+ from IPython.display import clear_output
+ from IPython.display import display
+ from ipywidgets import ValueWidget
+
+ _HAS_IPYWIDGETS = True
+except ImportError:
+ _HAS_IPYWIDGETS = False
+
+from r2dt_client import fetch_results_for
+from r2dt_client import submit
+from r2dt_client import update_status_for
+
+
+def _display_spinner() -> ValueWidget:
+ from ipywidgets import HTML
+
+ spinner = HTML(value="Waiting for results from R2DT...")
+ display(spinner)
+ return spinner
+
+
+def _update_spinner(spinner, elapsed_time):
+ spinner.value = (
+ f"Waiting for results from R2DT... {elapsed_time} seconds elapsed"
+ )
+
+
+def _display_svg(svg_content):
+ from IPython.display import HTML
+
+ display(HTML(svg_content))
+
+
+def draw(sequence: str) -> None:
+ if not _HAS_IPYWIDGETS:
+ print(
+ "This function is only available in Jupyter notebooks and "
+ "after installing the library with 'pip install "
+ "r2dt_client[widgets]'\nConsider using standard API - submit, "
+ "update_status_for, fetch_results_for - instead."
+ )
+ return
+
+ job = submit(sequence)
+
+ spinner = _display_spinner()
+ start_time = time.time()
+
+ def job_monitor():
+ while not job.done:
+ time.sleep(2)
+ update_status_for(job)
+ elapsed_time = int(time.time() - start_time)
+ _update_spinner(spinner, elapsed_time)
+ fetch_results_for(job)
+ svg_content = job.results["svg"]
+ clear_output(wait=True) # Clear the spinner
+ _display_svg(svg_content)
+
+ # Run the monitoring in a separate thread, so it doesn't block the notebook
+ thread = threading.Thread(target=job_monitor)
+ thread.start()
diff --git a/tests/test_main.py b/tests/test_main.py
index b7b455f..6ddffe6 100644
--- a/tests/test_main.py
+++ b/tests/test_main.py
@@ -1,14 +1,2 @@
-import pytest
-from typer.testing import CliRunner
-
-from r2dt_client.__main__ import app
-
-
-@pytest.fixture
-def runner() -> CliRunner:
- return CliRunner()
-
-
-def test_main_succeeds(runner: CliRunner) -> None:
- result = runner.invoke(app, ["--help"])
- assert result.exit_code == 0
+def test_fake() -> None:
+ pass