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diff --git a/python-deepcell-tracking.spec b/python-deepcell-tracking.spec new file mode 100644 index 0000000..81592b6 --- /dev/null +++ b/python-deepcell-tracking.spec @@ -0,0 +1,222 @@ +%global _empty_manifest_terminate_build 0 +Name: python-DeepCell-Tracking +Version: 0.6.4 +Release: 1 +Summary: Tracking cells and lineage with deep learning. +License: LICENSE +URL: https://github.com/vanvalenlab/deepcell-tracking +Source0: https://mirrors.nju.edu.cn/pypi/web/packages/2a/4f/6a773227856fd11c4a0b9a00f014c487329b87222c1874012b43c611c0f3/DeepCell_Tracking-0.6.4.tar.gz +BuildArch: noarch + + +%description +#  + +[](https://badge.fury.io/py/DeepCell-Tracking) +[](https://github.com/vanvalenlab/deepcell-tracking/actions) +[](https://coveralls.io/github/vanvalenlab/deepcell-tracking?branch=master) + +`deepcell-tracking` uses deep learning models from [deepcell-tf](https://github.com/vanvalenlab/deepcell-tf) within an assignment problem framework to [track cells through time-lapse sequences](https://www.biorxiv.org/content/10.1101/803205v2) and build cell lineages. The assignment problem is solved using the [Hungarian algorithm.](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2747604/) + +## Getting Started + +`deepcell-tracking` is a Python package that can be installed with `pip`: + +```bash +pip install deepcell-tracking +``` + +Or it can be installed from source: + +```bash +git clone https://github.com/vanvalenlab/deepcell-tracking.git + +cd deepcell-tracking + +# install the dependencies +pip install . +``` + +## How to Use + +```python +from deepcell_tracking import CellTracker + +# X and y are the time-sequence data and their corresponding segmentations (labels), respectively. +# model is a deepcell-tf tracking model. +tracker = CellTracker(X, y, model) + +tracker.track_cells() # runs in place, builds tracks + +# Save all tracked data and lineage files to a .trk file +tracker.dump('./results.trk') + +# Open the track file +from deepcell_tracking.utils import load_trks + +data = load_trks('./results.trk') + +lineage = data['lineages'] # linage information +X = data['X'] # raw X data +y = data['y'] # tracked y data +``` + + +%package -n python3-DeepCell-Tracking +Summary: Tracking cells and lineage with deep learning. +Provides: python-DeepCell-Tracking +BuildRequires: python3-devel +BuildRequires: python3-setuptools +BuildRequires: python3-pip +%description -n python3-DeepCell-Tracking +#  + +[](https://badge.fury.io/py/DeepCell-Tracking) +[](https://github.com/vanvalenlab/deepcell-tracking/actions) +[](https://coveralls.io/github/vanvalenlab/deepcell-tracking?branch=master) + +`deepcell-tracking` uses deep learning models from [deepcell-tf](https://github.com/vanvalenlab/deepcell-tf) within an assignment problem framework to [track cells through time-lapse sequences](https://www.biorxiv.org/content/10.1101/803205v2) and build cell lineages. The assignment problem is solved using the [Hungarian algorithm.](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2747604/) + +## Getting Started + +`deepcell-tracking` is a Python package that can be installed with `pip`: + +```bash +pip install deepcell-tracking +``` + +Or it can be installed from source: + +```bash +git clone https://github.com/vanvalenlab/deepcell-tracking.git + +cd deepcell-tracking + +# install the dependencies +pip install . +``` + +## How to Use + +```python +from deepcell_tracking import CellTracker + +# X and y are the time-sequence data and their corresponding segmentations (labels), respectively. +# model is a deepcell-tf tracking model. +tracker = CellTracker(X, y, model) + +tracker.track_cells() # runs in place, builds tracks + +# Save all tracked data and lineage files to a .trk file +tracker.dump('./results.trk') + +# Open the track file +from deepcell_tracking.utils import load_trks + +data = load_trks('./results.trk') + +lineage = data['lineages'] # linage information +X = data['X'] # raw X data +y = data['y'] # tracked y data +``` + + +%package help +Summary: Development documents and examples for DeepCell-Tracking +Provides: python3-DeepCell-Tracking-doc +%description help +#  + +[](https://badge.fury.io/py/DeepCell-Tracking) +[](https://github.com/vanvalenlab/deepcell-tracking/actions) +[](https://coveralls.io/github/vanvalenlab/deepcell-tracking?branch=master) + +`deepcell-tracking` uses deep learning models from [deepcell-tf](https://github.com/vanvalenlab/deepcell-tf) within an assignment problem framework to [track cells through time-lapse sequences](https://www.biorxiv.org/content/10.1101/803205v2) and build cell lineages. The assignment problem is solved using the [Hungarian algorithm.](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2747604/) + +## Getting Started + +`deepcell-tracking` is a Python package that can be installed with `pip`: + +```bash +pip install deepcell-tracking +``` + +Or it can be installed from source: + +```bash +git clone https://github.com/vanvalenlab/deepcell-tracking.git + +cd deepcell-tracking + +# install the dependencies +pip install . +``` + +## How to Use + +```python +from deepcell_tracking import CellTracker + +# X and y are the time-sequence data and their corresponding segmentations (labels), respectively. +# model is a deepcell-tf tracking model. +tracker = CellTracker(X, y, model) + +tracker.track_cells() # runs in place, builds tracks + +# Save all tracked data and lineage files to a .trk file +tracker.dump('./results.trk') + +# Open the track file +from deepcell_tracking.utils import load_trks + +data = load_trks('./results.trk') + +lineage = data['lineages'] # linage information +X = data['X'] # raw X data +y = data['y'] # tracked y data +``` + + +%prep +%autosetup -n DeepCell-Tracking-0.6.4 + +%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-DeepCell-Tracking -f filelist.lst +%dir %{python3_sitelib}/* + +%files help -f doclist.lst +%{_docdir}/* + +%changelog +* Wed May 17 2023 Python_Bot <Python_Bot@openeuler.org> - 0.6.4-1 +- Package Spec generated |