python-xyz.scm

(define-module (packages python-xyz)
  #:use-module (guix packages)
  #:use-module (guix download)
  #:use-module ((guix licenses) #:prefix license:)
  #:use-module (guix build-system python)
  #:use-module (gnu packages python-xyz)
  #:use-module (gnu packages python-science)
  #:use-module (gnu packages python-web)
  #:use-module (gnu packages python-build)
  #:use-module (gnu packages serialization)
  #:use-module (gnu packages time)
  #:use-module (gnu packages check)
  #:use-module (gnu packages python-check)
  #:use-module (gnu packages machine-learning)
  #:use-module (gnu packages web))

(define-public python-deeptrack
 (package
   (name "python-deeptrack")
   (version "1.2.1")
   (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "deeptrack" version))
       (sha256
         (base32 "1hg9cqcbnnjgj8kiwkrd1l20wsycfl1a03y71lzxq9lbsnla0gxi"))))
   (build-system python-build-system)
   (propagated-inputs
    (list
     python-setuptools-scm
     python-more-itertools
     python-numpy
     python-pandas
     python-pint
     python-pydeepimagej
     python-scikit-image
     python-scipy
     tensorflow
     ;; python-tensorflow-addons
     ;; python-tensorflow-probability
     python-tqdm))
      
   (home-page "https://github.com/softmatterlab/DeepTrack-2.0/")
   (synopsis "A deep learning oriented microscopy image simulation package")
   (description
     "This package provides a deep learning oriented microscopy image simulation
package")
   (license #f)))

(define-public python-pint
 (package
   (name "python-pint")
   (version "0.19.2")
   (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "Pint" version))
       (sha256
         (base32 "1bsbiikm9i4saqc6mc3minkmrgnsgcg734agsvd7icqhyngrim71"))))
   (build-system python-build-system)
   (native-inputs
     (list python-pytest
           python-pytest-cov
           python-pytest-mpl
           python-pytest-subtests
           python-setuptools-scm
           python-dask
           python-distributed
           python-xarray
           python-sparse))
   (home-page "https://github.com/hgrecco/pint")
   (synopsis "Physical quantities module")
   (description "Physical quantities module")
   (license license:bsd-3)))

(define-public python-pydeepimagej
 (package
   (name "python-pydeepimagej")
   (version "2.3.3")
   (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "pydeepimagej" version))
       (sha256
         (base32 "06kznab88fmq73ds6bmpiw1zgrv3hrd8mxz272bpyfhs8x9ki4d2"))))
   (build-system python-build-system)
   (arguments
    '(#:tests? #f))
   (propagated-inputs
     (list python-datetime python-numpy python-ruamel.yaml python-scikit-image-0.17.2))
   (home-page "https://deepimagej.github.io/deepimagej/")
   (synopsis
     "Python package to export TensorFlow models as DeepImageJ bundled models")
   (description
     "Python package to export TensorFlow models as DeepImageJ bundled models")
   (license #f)))

(define-public python-datetime
 (package
   (name "python-datetime")
   (version "4.5")
   (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "DateTime" version))
       (sha256
         (base32 "0hgfm788k5lkar2k5yx2x3jfw5hqrp2y0z56rk36999mzxh62hb5"))))
   (build-system python-build-system)
   (propagated-inputs (list python-pytz python-zope-interface))
   (home-page "https://github.com/zopefoundation/DateTime")
   (synopsis
     "This package provides a DateTime data type, as known from Zope. Unless you need to communicate with Zope APIs, you're probably better off using Python's built-in datetime module.")
   (description
     "This package provides a DateTime data type, as known from Zope.  Unless you need
to communicate with Zope APIs, you're probably better off using Python's
built-in datetime module.")
   (license #f)))

(define-public python-scikit-image-0.17.2
  (package
    (name "python-scikit-image")
    (version "0.17.2")
    (source
     (origin
       (method url-fetch)
       (uri (pypi-uri "scikit-image" version))
       (sha256
        (base32 "1cyqqbcbrg3prc36wis0sm3q5rjhd7h9bp33jwfyixzhi02lr5dx"))))
    (build-system python-build-system)
    (arguments
      ; TODO: Some tests require running X11 server. Disable them?
      ;; See DEPENDS.txt for the list of build and run time requiremnts
      '(#:tests? #f))
    (propagated-inputs
     `(("python-cloudpickle" ,python-cloudpickle)
       ("python-dask" ,python-dask)
       ("python-imageio" ,python-imageio)
       ("python-matplotlib" ,python-matplotlib)
       ("python-networkx" ,python-networkx)
       ("python-numpy" ,python-numpy)
       ("python-pillow" ,python-pillow)
       ("python-pywavelets" ,python-pywavelets)
       ("python-scipy" ,python-scipy)
       ("python-tifffile" ,python-tifffile)))
    (native-inputs
     `(("python-cython" ,python-cython)))
    (home-page "https://scikit-image.org/")
    (synopsis "Image processing in Python")
    (description
     "Scikit-image is a collection of algorithms for image processing.")
    (license license:bsd-3)))