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|
%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.aliyun.com/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
* Thu Jun 08 2023 Python_Bot <Python_Bot@openeuler.org> - 0.6.4-1
- Package Spec generated
|
