Hi Roy,
On Mon, 11 May 2020 at 14:49, Roy Lemmon <r...@roylemmon.com> wrote:
> I would like to ask about the general philosophy of setting up a python
> environment under guix.
Well, let me describe my workflow -- and I do not know if it the correct one.
I use 'manifest', 'profile' and "guix environment". For each project
I am working on, I have dedicated folder containing the code, doc and
other files useful for the very project. In this folder, I add a
manifest file [1] tracking the tools that the project needs. From
this manifest, I instantiate a profile in the project folder. And I
track the channel too to be able to reproduce elsewhere and elsetime.
Time to time, I spawn an environment with the manifest to do some
checks. Well, basically, the CLI looks like:
cd /path/to/project
edit manifest.scm
guix package -m manifest.scm -p profile
guix describe -f channels > channels.scm
git add manifest.scm channels.scm
git commit -am
eval $(guix package --search-paths=prefix -p profile)
ipython
guix environment -m manifest --ad-hoc python-other-tools
guix time-machine -C channels.scm -- environment -m manifest.scm
Last, when a package is missing, I use "guix import pypi -r name". If
the package is correctly packaged on the PyPI side, it is almost done.
;-)
To be concrete, again in the project folder:
guix import pypi -r astropy > pkgs.scm
edit pkgs.scm # add define-module etc.
guix show -L . python-astropy
edit pkgs.scm # add missing import
guix show -L . python-astropy # works!
guix build -L . python-astropy
Well, and then the "hard" packaging job starts. :-)
Find attached 'pkgs.scm' still failing to build but maybe a starting point.
Hope that helps,
simon
(define-module (pkgs)
#:use-module (guix packages)
#:use-module (guix download)
#:use-module (guix build-system python)
#:use-module ((guix licenses) #:prefix license:)
#:use-module (gnu packages python-xyz)
#:use-module (gnu packages check)
)
(define-public python-skyfield
(package
(name "python-skyfield")
(version "1.20")
(source
(origin
(method url-fetch)
(uri (pypi-uri "skyfield" version))
(sha256
(base32
"0lm4j6zdavvw0wgfv5g2rdk77n3dh2b096z44halfcjcf4k4dg2x"))))
(build-system python-build-system)
(home-page
"http://github.com/brandon-rhodes/python-skyfield/";)
(synopsis "Elegant astronomy for Python")
(description "Elegant astronomy for Python")
(license license:expat)))
(define-public python-pytest-mpl
(package
(name "python-pytest-mpl")
(version "0.11")
(source
(origin
(method url-fetch)
(uri (pypi-uri "pytest-mpl" version))
(sha256
(base32
"1km202c1s5kcn52fx0266p06qb34va3warcby594dh6vixxa9i96"))))
(build-system python-build-system)
(propagated-inputs
`(("python-matplotlib" ,python-matplotlib)
("python-nose" ,python-nose)
("python-pillow" ,python-pillow)
("python-pytest" ,python-pytest)))
(home-page
"https://github.com/matplotlib/pytest-mpl";)
(synopsis
"pytest plugin to help with testing figures output from Matplotlib")
(description
"pytest plugin to help with testing figures output from Matplotlib")
(license license:bsd-3)))
(define-public python-pytest-filter-subpackage
(package
(name "python-pytest-filter-subpackage")
(version "0.1.1")
(source
(origin
(method url-fetch)
(uri (pypi-uri "pytest-filter-subpackage" version))
(sha256
(base32
"1s4s2kd31yc65rfvl4xhy8xx806xhy59kc7668h6b6wq88xgrn5p"))))
(build-system python-build-system)
(propagated-inputs
`(("python-pytest" ,python-pytest)))
(native-inputs
`(("python-pytest" ,python-pytest)
("python-pytest-cov" ,python-pytest-cov)
("python-pytest-doctestplus"
,python-pytest-doctestplus)))
(home-page "https://astropy.org";)
(synopsis
"Pytest plugin for filtering based on sub-packages")
(description
"Pytest plugin for filtering based on sub-packages")
(license license:bsd-3)))
(define-public python-pytest-arraydiff
(package
(name "python-pytest-arraydiff")
(version "0.3")
(source
(origin
(method url-fetch)
(uri (pypi-uri "pytest-arraydiff" version))
(sha256
(base32
"05bcvhh2ycxa35znl8b3l9vkcmx7vwm5c3fpakbpw46c7vsn4bfy"))))
(build-system python-build-system)
(propagated-inputs
`(("python-numpy" ,python-numpy)
("python-pytest" ,python-pytest)
("python-six" ,python-six)))
(home-page
"https://github.com/astrofrog/pytest-arraydiff";)
(synopsis
"pytest plugin to help with comparing array output from tests")
(description
"pytest plugin to help with comparing array output from tests")
(license license:bsd-3)))
(define-public python-pytest-astropy-header
(package
(name "python-pytest-astropy-header")
(version "0.1.2")
(source
(origin
(method url-fetch)
(uri (pypi-uri "pytest-astropy-header" version))
(sha256
(base32
"1y87agr324p6x5gvhziymxjlw54pyn4gqnd49papbl941djpkp5g"))))
(build-system python-build-system)
(propagated-inputs
`(("python-pytest" ,python-pytest)))
(native-inputs
`(("python-astropy" ,python-astropy)
("python-codecov" ,python-codecov)
("python-coverage" ,python-coverage)
("python-numpy" ,python-numpy)
("python-pytest" ,python-pytest)
("python-pytest-cov" ,python-pytest-cov)))
(home-page "http://astropy.org";)
(synopsis
"pytest plugin to add diagnostic information to the header of the test output")
(description
"pytest plugin to add diagnostic information to the header of the test output")
(license #f)))
(define-public python-pytest-openfiles
(package
(name "python-pytest-openfiles")
(version "0.5.0")
(source
(origin
(method url-fetch)
(uri (pypi-uri "pytest-openfiles" version))
(sha256
(base32
"0n0a7fdc9m86360y96l23fvdmd6rw04bl6h5xqgl9qxfv08jk70p"))))
(build-system python-build-system)
(propagated-inputs
`(("python-psutil" ,python-psutil)
("python-pytest" ,python-pytest)))
(home-page
"https://github.com/astropy/pytest-openfiles";)
(synopsis
"Pytest plugin for detecting inadvertent open file handles")
(description
"Pytest plugin for detecting inadvertent open file handles")
(license license:bsd-3)))
(define-public python-pytest-remotedata
(package
(name "python-pytest-remotedata")
(version "0.3.2")
(source
(origin
(method url-fetch)
(uri (pypi-uri "pytest-remotedata" version))
(sha256
(base32
"1h6g6shib6z07azf12rnsa053470ggbd7hy3bnbw8nf3nza5h372"))))
(build-system python-build-system)
(propagated-inputs
`(("python-pytest" ,python-pytest)
("python-six" ,python-six)))
(home-page "https://astropy.org";)
(synopsis
"Pytest plugin for controlling remote data access.")
(description
"Pytest plugin for controlling remote data access.")
(license license:bsd-3)))
(define-public python-pytest-doctestplus
(package
(name "python-pytest-doctestplus")
(version "0.6.1")
(source
(origin
(method url-fetch)
(uri (pypi-uri "pytest-doctestplus" version))
(sha256
(base32
"11f1gjj975aapannwc7xfqc6ijckgqn9w2pbk0n4jn8qljv77jvv"))))
(build-system python-build-system)
(propagated-inputs
`(("python-pip" ,python-pip)
("python-pytest" ,python-pytest)))
(home-page "https://astropy.org";)
(synopsis
"Pytest plugin with advanced doctest features.")
(description
"Pytest plugin with advanced doctest features.")
(license license:bsd-3)))
(define-public python-pytest-astropy
(package
(name "python-pytest-astropy")
(version "0.8.0")
(source
(origin
(method url-fetch)
(uri (pypi-uri "pytest-astropy" version))
(sha256
(base32
"18j6z6y2fvykmcs5z0mldhhaxxn6wzpnhlm2ps7m8r5z5kmh1631"))))
(build-system python-build-system)
(propagated-inputs
`(("python-hypothesis" ,python-hypothesis)
("python-pytest" ,python-pytest)
("python-pytest-arraydiff"
,python-pytest-arraydiff)
("python-pytest-astropy-header"
,python-pytest-astropy-header)
("python-pytest-cov" ,python-pytest-cov)
("python-pytest-doctestplus"
,python-pytest-doctestplus)
("python-pytest-filter-subpackage"
,python-pytest-filter-subpackage)
("python-pytest-openfiles"
,python-pytest-openfiles)
("python-pytest-remotedata"
,python-pytest-remotedata)))
(home-page
"https://github.com/astropy/pytest-astropy";)
(synopsis
"Meta-package containing dependencies for testing")
(description
"Meta-package containing dependencies for testing")
(license license:bsd-3)))
(define-public python-astropy
(package
(name "python-astropy")
(version "4.0.1.post1")
(source
(origin
(method url-fetch)
(uri (pypi-uri "astropy" version))
(sha256
(base32
"1da4xj793ldck29aajyb514wpz330cml26f3gdp45jj531n4lc2w"))))
(build-system python-build-system)
(propagated-inputs
`(("python-numpy" ,python-numpy)))
(native-inputs
`(
("python-coverage" ,python-coverage)
("python-ipython" ,python-ipython)
("python-objgraph" ,python-objgraph)
;; ("python-pytest-astropy" ,python-pytest-astropy)
("python-pytest-mpl" ,python-pytest-mpl)
("python-pytest-xdist" ,python-pytest-xdist)
("python-skyfield" ,python-skyfield)
))
(home-page "http://astropy.org";)
(synopsis
"Community-developed python astronomy tools")
(description
"Community-developed python astronomy tools")
(license #f)))
