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diff --git a/python-dash-bio.spec b/python-dash-bio.spec new file mode 100644 index 0000000..fbb7e05 --- /dev/null +++ b/python-dash-bio.spec @@ -0,0 +1,483 @@ +%global _empty_manifest_terminate_build 0 +Name: python-dash-bio +Version: 1.0.2 +Release: 1 +Summary: Dash components for bioinformatics +License: MIT License +URL: http://github.com/plotly/dash-bio +Source0: https://mirrors.nju.edu.cn/pypi/web/packages/7e/eb/5f12d4b0b91974e2457aaf344230010488453edadffb9e5c241eb9f02d34/dash_bio-1.0.2.tar.gz +BuildArch: noarch + + +%description +# Dash Bio +[](https://circleci.com/gh/plotly/dash-bio) +[](https://badge.fury.io/py/dash-bio) + +Dash Bio is a suite of bioinformatics components built to work with +[Dash](https://github.com/plotly/dash/). + +Announcement: https://medium.com/@plotlygraphs/announcing-dash-bio-ed8835d5da0c + +Demo: +[https://dash-gallery.plotly.host/Portal/?search=Bioinformatics](https://dash-gallery.plotly.host/Portal/?search=Bioinformatics) + +Documentation: +[https://dash.plotly.com/dash-bio](https://dash.plotly.com/dash-bio) + +## Components + +The Dash Bio components each fall into one of three categories: + +- Custom chart types +- Sequence analysis tools +- 3D rendering tools + + +### Custom chart types + +- Dash Circos +- Dash Clustergram +- Dash Manhattan Plot +- Dash Needle Plot +- Dash Volcano Plot + +### Sequence analysis tools + +- Dash Alignment Chart +- Dash Onco Print +- Dash Forna Container +- Dash Sequence Viewer + +### Visualization tools + +- Dash Mol2D +- Dash Mol3D +- Dash Speck +- Dash Ngl + + +## Using Dash Bio + +It's easy to add a fully interactive chromosomal, molecular or genomic visualization to your Dash app by simply +including the Dash Bio component into your app layout as follows: + +```python +import urllib.request as urlreq +from dash import Dash, html +import dash_bio as dashbio + +app = Dash(__name__) + +data = urlreq.urlopen( + 'https://raw.githubusercontent.com/plotly/dash-bio-docs-files/master/alignment_viewer_p53.fasta' +).read().decode('utf-8') + +app.layout = html.Div([ + dashbio.AlignmentChart( + id='my-default-alignment-viewer', + data=data + ) +]) + +if __name__ == '__main__': + app.run_server(debug=True) +``` + +See the [Dash Bio documentation](https://dash.plotly.com/dash-bio) for more components and examples. + + +## Run Dash Bio in a JupyterLab environment + +1. Create a virtual environment: + + The following steps require a virtual environment tool to be installed on your computer: `pip install virtualenv` + + a. On macOS and Linux: `python3 -m venv env` + + b. On Windows, enter: `py -m venv env` + +2. Activate your new environment: + + a. On macOS and Linux, enter: `source env/bin/activate` + + b. On Windows, enter: `.\env\Scripts\activate` + +3. Install required libraries (make sure you have pip installed with `pip help`): +``` +pip install dash dash-bio pandas numpy Jupyterlab +``` + +4. To run Dash inside Jupyter lab: + + a. Install jupyter-dash: `pip install jupyter-dash` + + b. Enter `jupyter lab build` + + (Note: This step requires Node.js and NPM installed on yourcomputer. To check if Node and NPM are installed, enter `node -v` and `npm -v` in your terminal. For install instructions see [nodejs.org](https://nodejs.org/en/). + +5. To display Plotly figures in JupyterLab: +``` +pip install jupyterlab "ipywidgets>=7.5” +jupyter labextension install jupyterlab-plotly@4.14.3 +``` + +6. Start JupyterLab by typing: `jupyter lab` + + Important: JupyterLab must be run within the virtual environment that was previously activated. + + +For more on running a Dash app in Jupyter Lab visit [Getting Started with Jupyter Dash](https://github.com/plotly/jupyter-dash/blob/master/notebooks/getting_started.ipynb). + +## Dash + +Learn more about Dash at +[https://plotly.com/products/dash/](https://plotly.com/products/dash/). + +## Consulting and OEM + +For inquiries about Dash app development, advanced OEM integration, +and more, please [reach +out](https://plotly.typeform.com/to/mH1Cpb). + +## Contributing and Local Development + +If you would like to contribute to this repository, or run demo apps and tests, please refer to +the [contributing +guidelines](https://github.com/plotly/dash-bio/blob/master/CONTRIBUTING.md). + + + + +%package -n python3-dash-bio +Summary: Dash components for bioinformatics +Provides: python-dash-bio +BuildRequires: python3-devel +BuildRequires: python3-setuptools +BuildRequires: python3-pip +%description -n python3-dash-bio +# Dash Bio +[](https://circleci.com/gh/plotly/dash-bio) +[](https://badge.fury.io/py/dash-bio) + +Dash Bio is a suite of bioinformatics components built to work with +[Dash](https://github.com/plotly/dash/). + +Announcement: https://medium.com/@plotlygraphs/announcing-dash-bio-ed8835d5da0c + +Demo: +[https://dash-gallery.plotly.host/Portal/?search=Bioinformatics](https://dash-gallery.plotly.host/Portal/?search=Bioinformatics) + +Documentation: +[https://dash.plotly.com/dash-bio](https://dash.plotly.com/dash-bio) + +## Components + +The Dash Bio components each fall into one of three categories: + +- Custom chart types +- Sequence analysis tools +- 3D rendering tools + + +### Custom chart types + +- Dash Circos +- Dash Clustergram +- Dash Manhattan Plot +- Dash Needle Plot +- Dash Volcano Plot + +### Sequence analysis tools + +- Dash Alignment Chart +- Dash Onco Print +- Dash Forna Container +- Dash Sequence Viewer + +### Visualization tools + +- Dash Mol2D +- Dash Mol3D +- Dash Speck +- Dash Ngl + + +## Using Dash Bio + +It's easy to add a fully interactive chromosomal, molecular or genomic visualization to your Dash app by simply +including the Dash Bio component into your app layout as follows: + +```python +import urllib.request as urlreq +from dash import Dash, html +import dash_bio as dashbio + +app = Dash(__name__) + +data = urlreq.urlopen( + 'https://raw.githubusercontent.com/plotly/dash-bio-docs-files/master/alignment_viewer_p53.fasta' +).read().decode('utf-8') + +app.layout = html.Div([ + dashbio.AlignmentChart( + id='my-default-alignment-viewer', + data=data + ) +]) + +if __name__ == '__main__': + app.run_server(debug=True) +``` + +See the [Dash Bio documentation](https://dash.plotly.com/dash-bio) for more components and examples. + + +## Run Dash Bio in a JupyterLab environment + +1. Create a virtual environment: + + The following steps require a virtual environment tool to be installed on your computer: `pip install virtualenv` + + a. On macOS and Linux: `python3 -m venv env` + + b. On Windows, enter: `py -m venv env` + +2. Activate your new environment: + + a. On macOS and Linux, enter: `source env/bin/activate` + + b. On Windows, enter: `.\env\Scripts\activate` + +3. Install required libraries (make sure you have pip installed with `pip help`): +``` +pip install dash dash-bio pandas numpy Jupyterlab +``` + +4. To run Dash inside Jupyter lab: + + a. Install jupyter-dash: `pip install jupyter-dash` + + b. Enter `jupyter lab build` + + (Note: This step requires Node.js and NPM installed on yourcomputer. To check if Node and NPM are installed, enter `node -v` and `npm -v` in your terminal. For install instructions see [nodejs.org](https://nodejs.org/en/). + +5. To display Plotly figures in JupyterLab: +``` +pip install jupyterlab "ipywidgets>=7.5” +jupyter labextension install jupyterlab-plotly@4.14.3 +``` + +6. Start JupyterLab by typing: `jupyter lab` + + Important: JupyterLab must be run within the virtual environment that was previously activated. + + +For more on running a Dash app in Jupyter Lab visit [Getting Started with Jupyter Dash](https://github.com/plotly/jupyter-dash/blob/master/notebooks/getting_started.ipynb). + +## Dash + +Learn more about Dash at +[https://plotly.com/products/dash/](https://plotly.com/products/dash/). + +## Consulting and OEM + +For inquiries about Dash app development, advanced OEM integration, +and more, please [reach +out](https://plotly.typeform.com/to/mH1Cpb). + +## Contributing and Local Development + +If you would like to contribute to this repository, or run demo apps and tests, please refer to +the [contributing +guidelines](https://github.com/plotly/dash-bio/blob/master/CONTRIBUTING.md). + + + + +%package help +Summary: Development documents and examples for dash-bio +Provides: python3-dash-bio-doc +%description help +# Dash Bio +[](https://circleci.com/gh/plotly/dash-bio) +[](https://badge.fury.io/py/dash-bio) + +Dash Bio is a suite of bioinformatics components built to work with +[Dash](https://github.com/plotly/dash/). + +Announcement: https://medium.com/@plotlygraphs/announcing-dash-bio-ed8835d5da0c + +Demo: +[https://dash-gallery.plotly.host/Portal/?search=Bioinformatics](https://dash-gallery.plotly.host/Portal/?search=Bioinformatics) + +Documentation: +[https://dash.plotly.com/dash-bio](https://dash.plotly.com/dash-bio) + +## Components + +The Dash Bio components each fall into one of three categories: + +- Custom chart types +- Sequence analysis tools +- 3D rendering tools + + +### Custom chart types + +- Dash Circos +- Dash Clustergram +- Dash Manhattan Plot +- Dash Needle Plot +- Dash Volcano Plot + +### Sequence analysis tools + +- Dash Alignment Chart +- Dash Onco Print +- Dash Forna Container +- Dash Sequence Viewer + +### Visualization tools + +- Dash Mol2D +- Dash Mol3D +- Dash Speck +- Dash Ngl + + +## Using Dash Bio + +It's easy to add a fully interactive chromosomal, molecular or genomic visualization to your Dash app by simply +including the Dash Bio component into your app layout as follows: + +```python +import urllib.request as urlreq +from dash import Dash, html +import dash_bio as dashbio + +app = Dash(__name__) + +data = urlreq.urlopen( + 'https://raw.githubusercontent.com/plotly/dash-bio-docs-files/master/alignment_viewer_p53.fasta' +).read().decode('utf-8') + +app.layout = html.Div([ + dashbio.AlignmentChart( + id='my-default-alignment-viewer', + data=data + ) +]) + +if __name__ == '__main__': + app.run_server(debug=True) +``` + +See the [Dash Bio documentation](https://dash.plotly.com/dash-bio) for more components and examples. + + +## Run Dash Bio in a JupyterLab environment + +1. Create a virtual environment: + + The following steps require a virtual environment tool to be installed on your computer: `pip install virtualenv` + + a. On macOS and Linux: `python3 -m venv env` + + b. On Windows, enter: `py -m venv env` + +2. Activate your new environment: + + a. On macOS and Linux, enter: `source env/bin/activate` + + b. On Windows, enter: `.\env\Scripts\activate` + +3. Install required libraries (make sure you have pip installed with `pip help`): +``` +pip install dash dash-bio pandas numpy Jupyterlab +``` + +4. To run Dash inside Jupyter lab: + + a. Install jupyter-dash: `pip install jupyter-dash` + + b. Enter `jupyter lab build` + + (Note: This step requires Node.js and NPM installed on yourcomputer. To check if Node and NPM are installed, enter `node -v` and `npm -v` in your terminal. For install instructions see [nodejs.org](https://nodejs.org/en/). + +5. To display Plotly figures in JupyterLab: +``` +pip install jupyterlab "ipywidgets>=7.5” +jupyter labextension install jupyterlab-plotly@4.14.3 +``` + +6. Start JupyterLab by typing: `jupyter lab` + + Important: JupyterLab must be run within the virtual environment that was previously activated. + + +For more on running a Dash app in Jupyter Lab visit [Getting Started with Jupyter Dash](https://github.com/plotly/jupyter-dash/blob/master/notebooks/getting_started.ipynb). + +## Dash + +Learn more about Dash at +[https://plotly.com/products/dash/](https://plotly.com/products/dash/). + +## Consulting and OEM + +For inquiries about Dash app development, advanced OEM integration, +and more, please [reach +out](https://plotly.typeform.com/to/mH1Cpb). + +## Contributing and Local Development + +If you would like to contribute to this repository, or run demo apps and tests, please refer to +the [contributing +guidelines](https://github.com/plotly/dash-bio/blob/master/CONTRIBUTING.md). + + + + +%prep +%autosetup -n dash-bio-1.0.2 + +%build +%py3_build + +%install +%py3_install +install -d -m755 %{buildroot}/%{_pkgdocdir} +if [ -d doc ]; then cp -arf doc %{buildroot}/%{_pkgdocdir}; fi +if [ -d docs ]; then cp -arf docs %{buildroot}/%{_pkgdocdir}; fi +if [ -d example ]; then cp -arf example %{buildroot}/%{_pkgdocdir}; fi +if [ -d examples ]; then cp -arf examples %{buildroot}/%{_pkgdocdir}; fi +pushd %{buildroot} +if [ -d usr/lib ]; then + find usr/lib -type f -printf "/%h/%f\n" >> filelist.lst +fi +if [ -d usr/lib64 ]; then + find usr/lib64 -type f -printf "/%h/%f\n" >> filelist.lst +fi +if [ -d usr/bin ]; then + find usr/bin -type f -printf "/%h/%f\n" >> filelist.lst +fi +if [ -d usr/sbin ]; then + find usr/sbin -type f -printf "/%h/%f\n" >> filelist.lst +fi +touch doclist.lst +if [ -d usr/share/man ]; then + find usr/share/man -type f -printf "/%h/%f.gz\n" >> doclist.lst +fi +popd +mv %{buildroot}/filelist.lst . +mv %{buildroot}/doclist.lst . + +%files -n python3-dash-bio -f filelist.lst +%dir %{python3_sitelib}/* + +%files help -f doclist.lst +%{_docdir}/* + +%changelog +* Fri May 05 2023 Python_Bot <Python_Bot@openeuler.org> - 1.0.2-1 +- Package Spec generated |