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Re: guix import error + New: setting up a jupyterlab environment
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From: |
Efraim Flashner |
|
Subject: |
Re: guix import error + New: setting up a jupyterlab environment |
|
Date: |
Wed, 21 Oct 2020 10:09:50 +0300 |
On Mon, Oct 19, 2020 at 08:19:05PM +0200, Zelphir Kaltstahl wrote:
> Hello Efraim,
>
> Thanks for your patience! It seems with that I am getting quite far (at
> least it feels like making progress, or even being close to have a
> working environment), up to the "check phase". There some tests failing
> in the "check phase". Here is what I am getting now, regardless of
> whether I stick ("python-ipykernel" ,python-ipykernel) in the native
> inputs or propagated inputs:
For python packages it doesn't matter at build time, it's more about if
it's needed at build time (native-inputs) or if it's needed to run the
python program (propagated-inputs) since we don't have a good way to
tell python to keep a reference to other python packages.
> ~~~~START~~~~
> running install_egg_info
> Copying jupyterlab_server.egg-info to
> /gnu/store/2h44ldpcqqd0q7hqpbcqdavcnbjsibfb-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server-1.2.0-py3.8.egg-info
> running install_scripts
> phase `install' succeeded after 0.3 seconds
> starting phase `wrap'
> find-files:
> /gnu/store/2h44ldpcqqd0q7hqpbcqdavcnbjsibfb-python-jupyterlab-server-1.2.0/bin:
> No such file or directory
> find-files:
> /gnu/store/2h44ldpcqqd0q7hqpbcqdavcnbjsibfb-python-jupyterlab-server-1.2.0/sbin:
> No such file or directory
> phase `wrap' succeeded after 0.0 seconds
> starting phase `check'
> running "python setup.py" with command "test" and parameters ()
> running test
> running egg_info
> writing jupyterlab_server.egg-info/PKG-INFO
> writing dependency_links to jupyterlab_server.egg-info/dependency_links.txt
> writing requirements to jupyterlab_server.egg-info/requires.txt
> writing top-level names to jupyterlab_server.egg-info/top_level.txt
> reading manifest file 'jupyterlab_server.egg-info/SOURCES.txt'
> reading manifest template 'MANIFEST.in'
> warning: no previously-included files matching '*~' found anywhere in
> distribution
> warning: no previously-included files matching '*.pyc' found anywhere in
> distribution
> warning: no previously-included files matching '*.pyo' found anywhere in
> distribution
> warning: no previously-included files matching '.git' found anywhere in
> distribution
> warning: no previously-included files matching '.ipynb_checkpoints' found
> anywhere in distribution
> writing manifest file 'jupyterlab_server.egg-info/SOURCES.txt'
> running build_ext
> test_get (jupyterlab_server.tests.test_settings_api.SettingsAPITest) ... ERROR
> test_get_bad (jupyterlab_server.tests.test_settings_api.SettingsAPITest) ...
> ERROR
> test_listing (jupyterlab_server.tests.test_settings_api.SettingsAPITest) ...
> ERROR
> test_patch (jupyterlab_server.tests.test_settings_api.SettingsAPITest) ...
> ERROR
> test_patch_bad_data
> (jupyterlab_server.tests.test_settings_api.SettingsAPITest) ... ERROR
> test_patch_wrong_id
> (jupyterlab_server.tests.test_settings_api.SettingsAPITest) ... ERROR
> test_bad_put (jupyterlab_server.tests.test_workspaces_api.WorkspacesAPITest)
> ... ERROR
> test_blank_put
> (jupyterlab_server.tests.test_workspaces_api.WorkspacesAPITest) ... ERROR
> test_delete (jupyterlab_server.tests.test_workspaces_api.WorkspacesAPITest)
> ... ERROR
> test_get (jupyterlab_server.tests.test_workspaces_api.WorkspacesAPITest) ...
> ERROR
> test_listing (jupyterlab_server.tests.test_workspaces_api.WorkspacesAPITest)
> ... ERROR
> test_put (jupyterlab_server.tests.test_workspaces_api.WorkspacesAPITest) ...
> ERROR
>
> ======================================================================
> ERROR: test_get (jupyterlab_server.tests.test_settings_api.SettingsAPITest)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/tmp/guix-build-python-jupyterlab-server-1.2.0.drv-0/jupyterlab_server-1.2.0/jupyterlab_server/tests/test_settings_api.py",
> line 31, in setUp
> dst = os.path.join(self.lab_config.schemas_dir, '@jupyterlab')
> AttributeError: 'SettingsAPITest' object has no attribute 'lab_config'
>
> ======================================================================
> ERROR: test_get_bad
> (jupyterlab_server.tests.test_settings_api.SettingsAPITest)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/tmp/guix-build-python-jupyterlab-server-1.2.0.drv-0/jupyterlab_server-1.2.0/jupyterlab_server/tests/test_settings_api.py",
> line 31, in setUp
> dst = os.path.join(self.lab_config.schemas_dir, '@jupyterlab')
> AttributeError: 'SettingsAPITest' object has no attribute 'lab_config'
>
> ======================================================================
> ERROR: test_listing
> (jupyterlab_server.tests.test_settings_api.SettingsAPITest)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/tmp/guix-build-python-jupyterlab-server-1.2.0.drv-0/jupyterlab_server-1.2.0/jupyterlab_server/tests/test_settings_api.py",
> line 31, in setUp
> dst = os.path.join(self.lab_config.schemas_dir, '@jupyterlab')
> AttributeError: 'SettingsAPITest' object has no attribute 'lab_config'
>
> ======================================================================
> ERROR: test_patch (jupyterlab_server.tests.test_settings_api.SettingsAPITest)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/tmp/guix-build-python-jupyterlab-server-1.2.0.drv-0/jupyterlab_server-1.2.0/jupyterlab_server/tests/test_settings_api.py",
> line 31, in setUp
> dst = os.path.join(self.lab_config.schemas_dir, '@jupyterlab')
> AttributeError: 'SettingsAPITest' object has no attribute 'lab_config'
>
> ======================================================================
> ERROR: test_patch_bad_data
> (jupyterlab_server.tests.test_settings_api.SettingsAPITest)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/tmp/guix-build-python-jupyterlab-server-1.2.0.drv-0/jupyterlab_server-1.2.0/jupyterlab_server/tests/test_settings_api.py",
> line 31, in setUp
> dst = os.path.join(self.lab_config.schemas_dir, '@jupyterlab')
> AttributeError: 'SettingsAPITest' object has no attribute 'lab_config'
>
> ======================================================================
> ERROR: test_patch_wrong_id
> (jupyterlab_server.tests.test_settings_api.SettingsAPITest)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/tmp/guix-build-python-jupyterlab-server-1.2.0.drv-0/jupyterlab_server-1.2.0/jupyterlab_server/tests/test_settings_api.py",
> line 31, in setUp
> dst = os.path.join(self.lab_config.schemas_dir, '@jupyterlab')
> AttributeError: 'SettingsAPITest' object has no attribute 'lab_config'
>
> ======================================================================
> ERROR: test_bad_put
> (jupyterlab_server.tests.test_workspaces_api.WorkspacesAPITest)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/tmp/guix-build-python-jupyterlab-server-1.2.0.drv-0/jupyterlab_server-1.2.0/jupyterlab_server/tests/test_workspaces_api.py",
> line 34, in setUp
> dst = os.path.join(self.lab_config.workspaces_dir, item)
> AttributeError: 'WorkspacesAPITest' object has no attribute 'lab_config'
>
> ======================================================================
> ERROR: test_blank_put
> (jupyterlab_server.tests.test_workspaces_api.WorkspacesAPITest)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/tmp/guix-build-python-jupyterlab-server-1.2.0.drv-0/jupyterlab_server-1.2.0/jupyterlab_server/tests/test_workspaces_api.py",
> line 34, in setUp
> dst = os.path.join(self.lab_config.workspaces_dir, item)
> AttributeError: 'WorkspacesAPITest' object has no attribute 'lab_config'
>
> ======================================================================
> ERROR: test_delete
> (jupyterlab_server.tests.test_workspaces_api.WorkspacesAPITest)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/tmp/guix-build-python-jupyterlab-server-1.2.0.drv-0/jupyterlab_server-1.2.0/jupyterlab_server/tests/test_workspaces_api.py",
> line 34, in setUp
> dst = os.path.join(self.lab_config.workspaces_dir, item)
> AttributeError: 'WorkspacesAPITest' object has no attribute 'lab_config'
>
> ======================================================================
> ERROR: test_get
> (jupyterlab_server.tests.test_workspaces_api.WorkspacesAPITest)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/tmp/guix-build-python-jupyterlab-server-1.2.0.drv-0/jupyterlab_server-1.2.0/jupyterlab_server/tests/test_workspaces_api.py",
> line 34, in setUp
> dst = os.path.join(self.lab_config.workspaces_dir, item)
> AttributeError: 'WorkspacesAPITest' object has no attribute 'lab_config'
>
> ======================================================================
> ERROR: test_listing
> (jupyterlab_server.tests.test_workspaces_api.WorkspacesAPITest)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/tmp/guix-build-python-jupyterlab-server-1.2.0.drv-0/jupyterlab_server-1.2.0/jupyterlab_server/tests/test_workspaces_api.py",
> line 34, in setUp
> dst = os.path.join(self.lab_config.workspaces_dir, item)
> AttributeError: 'WorkspacesAPITest' object has no attribute 'lab_config'
>
> ======================================================================
> ERROR: test_put
> (jupyterlab_server.tests.test_workspaces_api.WorkspacesAPITest)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/tmp/guix-build-python-jupyterlab-server-1.2.0.drv-0/jupyterlab_server-1.2.0/jupyterlab_server/tests/test_workspaces_api.py",
> line 34, in setUp
> dst = os.path.join(self.lab_config.workspaces_dir, item)
> AttributeError: 'WorkspacesAPITest' object has no attribute 'lab_config'
>
> ----------------------------------------------------------------------
> Ran 12 tests in 0.001s
>
> FAILED (errors=12)
> Test failed: <unittest.runner.TextTestResult run=12 errors=12 failures=0>
> error: Test failed: <unittest.runner.TextTestResult run=12 errors=12
> failures=0>
> command "python" "-c" "import setuptools,
> tokenize;__file__='setup.py';f=getattr(tokenize, 'open',
> open)(__file__);code=f.read().replace('\\r\\n',
> '\\n');f.close();exec(compile(code, __file__, 'exec'))" "test" failed with
> status 1
> ~~~~~END~~~~~
>
> I have some thoughts about this:
>
> The Python error does not really tell me what is wrong. I don't know why
> the `WorkspacesAPITest` does not have an attribute named `lab_config`.
>
> One can see, that those are all API tests. Since there were problems in
> the previous step with network, perhaps it is a network thing here as
> well? (Is network, even if localhost for testing, available in the
> "check phase"?)
It's not likely related to networking, the error messages would mention
unavailable targets or something similar.
> It could also simply be, that some PyPI package has failing tests. I
> don't know how one could then skip such tests.
Assuming WorkspacesAPITest does actually have an attribute named
lab_config then you'll want to add the installed package to the python
path during the check phase. There are a number of packages which do
this. I can never remember the syntax so I always grep for
'add-installed-pythonpath' when it comes up.
> I guess I will summarize everything in the end and put it in a
> repository as a kind of "guide", so that others can use it or learn from
> the process.
I think people would really enjoy that. I picked up most of my packaging
know-how from looking at other packages.
> Regards,
> Zelphir
>
> On 10/19/20 6:54 PM, Efraim Flashner wrote:
> > It looks like you need to add python-ipykernel to native-inputs.
> > Unless it's needed to run the program and not just for the test suite,
> > in which case it should go in propagated-inputs. There's no network
> > available in the build environment so it can't retrieve ipykernel
> > while building.
> >
> >
> > On October 19, 2020 2:31:53 PM UTC, Zelphir Kaltstahl
> > <zelphirkaltstahl@posteo.de> wrote:
> >
> > Hello Efraim!
> >
> > Thank you! Your idea of replacing "-" with "_" seems to partially
> > help:
> >
> > The package is downloaded and byte compiled. However, afterwards
> > there is a problem, when it tries to copy the byte-compiled files
> > in the "wrap phase" (comments inserted in some places):
> >
> > ~~~~START~~~~
> > ### ... a lot of output before this ...
> >
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/__init__.py
> > to __init__.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/_version.py
> > to _version.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/app.py
> > to app.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/handlers.py
> > to handlers.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/listings_handler.py
> > to listings_handler.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/process.py
> > to process.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/process_app.py
> > to process_app.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/server.py
> > to server.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/servertest.py
> > to servertest.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/settings_handler.py
> > to settings_handler.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/themes_handler.py
> > to themes_handler.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/workspaces_handler.py
> > to workspaces_handler.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/tests/__init__.py
> > to __init__.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/tests/test_settings_api.py
> > to test_settings_api.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/tests/test_workspaces_api.py
> > to test_workspaces_api.cpython-38.pyc
> > byte-compiling
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server/tests/utils.py
> > to utils.cpython-38.pyc
> >
> > ### ... seems byte-compiling went without problems, but not comes the
> > problem ...
> >
> > running install_egg_info
> > Copying jupyterlab_server.egg-info to
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/lib/python3.8/site-packages/jupyterlab_server-1.2.0-py3.8.egg-info
> > running install_scripts
> > phase `install' succeeded after 0.3 seconds
> > starting phase `wrap'
> > find-files:
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/bin:
> > No such file or directory
> > find-files:
> > /gnu/store/yr7q21bws1xgx3p2dy9cfdiknjpsajm6-python-jupyterlab-server-1.2.0/sbin:
> > No such file or directory
> > phase `wrap' succeeded after 0.0 seconds
> > starting phase `check'
> > running "python setup.py" with command "test" and parameters ()
> > running test
> > Searching for ipykernel
> > Reading https://pypi.org/simple/ipykernel/
> > Download error on https://pypi.org/simple/ipykernel/: [Errno -2] Name
> > or service not known -- Some packages may not be found!
> > Couldn't find index page for 'ipykernel' (maybe misspelled?)
> > Scanning index of all packages (this may take a while)
> > Reading https://pypi.org/simple/
> > Download error on https://pypi.org/simple/: [Errno -2] Name or service
> > not known -- Some packages may not be found!
> > No local packages or working download links found for ipykernel
> > error: Could not find suitable distribution for
> > Requirement.parse('ipykernel')
> > command "python" "-c" "import setuptools,
> > tokenize;__file__='setup.py';f=getattr(tokenize, 'open',
> > open)(__file__);code=f.read().replace('\\r\\n',
> > '\\n');f.close();exec(compile(code, __file__, 'exec'))" "test" failed with
> > status 1
> > ~~~~~END~~~~~
> >
> > So it seems, that while the download URL is corrected, there is
> > another place, where Guix has an error now, resulting in a final
> > error shown in command line:
> >
> > ~~~~START~~~~
> > $ guix time-machine --channels=channels.scm -- environment
> > --manifest=manifest.scm --load=jupyterlab.scm
> > Updating channel 'guix' from Git repository at
> > 'https://git.savannah.gnu.org/git/guix.git'...
> > substitute: updating substitutes from 'https://ci.guix.gnu.org'...
> > 100.0%
> > The following derivations will be built:
> >
> > /gnu/store/wzmfn9m45bmsbrx094rv3lf3w0rpmw49-python-pytest-check-links-0.3.0.drv
> >
> > /gnu/store/96xf5mrg134mcsp01b0m1qs1lxkb401a-python-jupyterlab-server-1.2.0.drv
> >
> > /gnu/store/32a28hd7aainwn0hfsnf3blh8prmfz61-jupyterlab_server-1.2.0.tar.gz.drv
> >
> > 3,9 MB will be downloaded
> > downloading from
> > https://ci.guix.gnu.org/nar/lzip/54kpl9psx16jwic4gpnjwh44kim04wlk-python-notebook-5.7.4
> > ...
> > python-notebook-5.7.4 3.7MiB
> >
> >
> > 5.1MiB/s 00:01 [##################] 100.0%
> >
> > building
> > /gnu/store/32a28hd7aainwn0hfsnf3blh8prmfz61-jupyterlab_server-1.2.0.tar.gz.drv...
> > downloading from
> > https://files.pythonhosted.org/packages/source/j/jupyterlab_server/jupyterlab_server-1.2.0.tar.gz
> > ...
> > building
> > /gnu/store/wzmfn9m45bmsbrx094rv3lf3w0rpmw49-python-pytest-check-links-0.3.0.drv...
> > building
> > /gnu/store/96xf5mrg134mcsp01b0m1qs1lxkb401a-python-jupyterlab-server-1.2.0.drv...
> > \ 'check' phasebuilder for
> > `/gnu/store/96xf5mrg134mcsp01b0m1qs1lxkb401a-python-jupyterlab-server-1.2.0.drv'
> > failed with exit code 1
> > build of
> > /gnu/store/96xf5mrg134mcsp01b0m1qs1lxkb401a-python-jupyterlab-server-1.2.0.drv
> > failed
> > View build log at
> > '/var/log/guix/drvs/96/xf5mrg134mcsp01b0m1qs1lxkb401a-python-jupyterlab-server-1.2.0.drv.bz2'.
> > guix environment: error: build of
> > `/gnu/store/96xf5mrg134mcsp01b0m1qs1lxkb401a-python-jupyterlab-server-1.2.0.drv'
> > failed
> > ~~~~~END~~~~~
> >
> > Apparently ipykernel is not found, but when I visit
> > https://pypi.org/simple/ipykernel/, I see packages there.
> >
> > From the logs:
> >
> > ~~~~START~~~~
> > Download error on https://pypi.org/simple/ipykernel/: [Errno -2] Name
> > or service not known -- Some packages may not be found!
> > Couldn't find index page for 'ipykernel' (maybe misspelled?)
> > ~~~~~END~~~~~
> >
> > Do I need to add another input in my `jupyterlab.scm`? (How?) Or
> > perhaps I need to create a separate `ipykernel.scm` which contains
> > the output of `guix import pypi --recursive ipykernel`?
> >
> > However, it somehow seems to fail for PyPI simple in general (from
> > the logs again):
> >
> > ~~~~START~~~~
> > Reading https://pypi.org/simple/
> > Download error on https://pypi.org/simple/: [Errno -2] Name or service
> > not known -- Some packages may not be found!
> > No local packages or working download links found for ipykernel
> > error: Could not find suitable distribution for
> > Requirement.parse('ipykernel')
> > command "python" "-c" "import setuptools,
> > tokenize;__file__='setup.py';f=getattr(tokenize, 'open',
> > open)(__file__);code=f.read().replace('\\r\\n',
> > '\\n');f.close();exec(compile(code, __file__, 'exec'))" "test" failed with
> > status 1
> > ~~~~~END~~~~~
> >
> > Thanks,
> > Zelphir
> >
> >
> > On 10/18/20 6:35 PM, Efraim Flashner wrote:
> >> On Sun, Oct 18, 2020 at 01:55:49PM +0200, Zelphir Kaltstahl wrote:
> >>> Hello Guix Users, hello Zimoun and Tobias!
> >>>
> >>> Thanks for your information regarding the importer syntax thing.
> >>>
> >>> I continued trying to get a jupyterlab environment today.
> >>>
> >>> Here is what I did so far:
> >>>
> >>> (1) Create my manifest file:
> >>>
> >>> ~~~~START~~~~
> >>> (specifications->manifest
> >>> '("python"))
> >>> ~~~~~END~~~~~
> >>>
> >>> (2) Create my channels file:
> >>>
> >>> ~~~~START~~~~
> >>> $ guix describe --format=channels > channels.scm
> >>> $ cat channels.scm
> >>> (list (channel
> >>> (name 'guix)
> >>> (url "https://git.savannah.gnu.org/git/guix.git";)
> >>> (commit
> >>> "6ca673b30dac281ba27a8dac242c0ac83e5e354b")
> >>> (introduction
> >>> (make-channel-introduction
> >>> "9edb3f66fd807b096b48283debdcddccfea34bad"
> >>> (openpgp-fingerprint
> >>> "BBB0 2DDF 2CEA F6A8 0D1D E643 A2A0 6DF2 A33A
> >>> 54FA")))))
> >>> ~~~~~END~~~~~
> >>>
> >>> (3) Create my jupyterlab PyPI import file, this time around using the
> >>> "/" instead of "@" for specifying the version:
> >>>
> >>> ~~~~START~~~~
> >>> $ guix import pypi --recursive jupyterlab/2.1.5 > jupyterlab.scm
> >>> ~~~~~END~~~~~
> >>>
> >>> (4) Add missing import expressions and add output expression at the
> >>> end:
> >>>
> >>> ~~~~START~~~~
> >>> ;; add module imports
> >>> (use-modules
> >>> (guix packages)
> >>> (guix download)
> >>> (guix build-system python)
> >>> ((guix licenses) #:prefix license:)
> >>> ;; use `guix environment --ad-hoc python-jinja2 -- guix package -A
> >>> python-jinja2` to find the location of python-jinja2, which is
> >>> gnu/packages/python-xyz.scm
> >> This can be just 'guix package -A python-jinja2', no need for the
> >> environment.
> >>
> >>> (gnu packages python-xyz)
> >>> ;; for python-tornado
> >>> (gnu packages python-web)
> >>> ;; for python-pytest
> >>> (gnu packages check))
> >>>
> >>> ;; QUESTION: Why are those required packages not imported by guix
> >>> automatically?
> >>> ;; QUESTION: Why are the manually imported packages not actually in
> >>> files with their own name, but instead jinja2 -> python-xyz, tornado ->
> >>> python-web, and pytest -> check?
> >>> ;; QUESTION: Is my process of finding the files in which the packages
> >>> are correct or just working by chance?
> >>>
> >>> (define-public python-jupyterlab-server
> >>> (package
> >>> (name "python-jupyterlab-server")
> >>> (version "1.2.0")
> >>> (source
> >>> (origin
> >>> (method url-fetch)
> >>> (uri (pypi-uri "jupyterlab-server" version))
> >>> (sha256
> >>> (base32
> >>> "132xby7531rbrjg9bqvsx86birr1blynjxy8gi5kcnb6x7fxjcal"))))
> >>> (build-system python-build-system)
> >>> (propagated-inputs
> >>> `(("python-jinja2" ,python-jinja2)
> >>> ("python-json5" ,python-json5)
> >>> ("python-jsonschema" ,python-jsonschema)
> >>> ("python-notebook" ,python-notebook)
> >>> ("python-requests" ,python-requests)))
> >>> (native-inputs
> >>> `(("python-pytest" ,python-pytest)
> >>> ("python-requests" ,python-requests)))
> >>> (home-page "https://jupyter.org";)
> >>> (synopsis "JupyterLab Server")
> >>> (description "JupyterLab Server")
> >>> (license license:bsd-3)))
> >>>
> >>> (define-public python-jupyterlab
> >>> (package
> >>> (name "python-jupyterlab")
> >>> (version "2.1.5")
> >>> (source
> >>> (origin
> >>> (method url-fetch)
> >>> (uri (pypi-uri "jupyterlab" version))
> >>> (sha256
> >>> (base32
> >>> "162jn51cg36fsn4l2zhnb5n4nbkhm9wlv974ggcnmdij3i4r4yya"))))
> >>> (build-system python-build-system)
> >>> (propagated-inputs
> >>> `(("python-jinja2" ,python-jinja2)
> >>> ("python-jupyterlab-server"
> >>> ,python-jupyterlab-server)
> >>> ("python-notebook" ,python-notebook)
> >>> ("python-tornado" ,python-tornado)))
> >>> (native-inputs
> >>> `(("python-pytest" ,python-pytest)
> >>> ("python-pytest-check-links"
> >>> ,python-pytest-check-links)
> >>> ("python-requests" ,python-requests)
> >>> ("python-virtualenv" ,python-virtualenv)
> >>> ("python-wheel" ,python-wheel)))
> >>> (home-page "http://jupyter.org";)
> >>> (synopsis
> >>> "The JupyterLab notebook server extension.")
> >>> (description
> >>> "The JupyterLab notebook server extension.")
> >>> (license license:bsd-3)))
> >>>
> >>> python-jupyterlab
> >>> ~~~~~END~~~~~
> >>>
> >>> And as noted in the comments, I have 3 questions at this point:
> >>>
> >>> (Q1) Why are those required packages not imported by guix
> >>> automatically?
> >>> (My guess: This functionality simply has not yet been implemented.)
> >>>
> >>> (Q2) Why are the manually imported packages not actually in files with
> >>> their own name, but instead jinja2 -> python-xyt, tornado ->
> >>> python-web,
> >>> and pytest -> check? Why not (gnu packages python pytest) for example?
> >>>
> >>> (Q3) Is my process of finding the files in which the packages are
> >>> correct or just working by chance? Basically I am creating temporary
> >>> environments, in which I then lookup "where would the package be
> >>> installed" and then exit the temporary environment to use that
> >>> information in my imported package file's import expressions /
> >>> use-modules expression. This seems to be a bit of a convoluted
> >>> process,
> >>> though worth it, if it always works in the end.
> >>>
> >>> (4) Now I run my time-machine command:
> >>>
> >>> ~~~~START~~~~
> >>> $ guix time-machine --channels=channels.scm -- environment
> >>> --manifest=manifest.scm --load=jupyterlab.scm
> >>> ~~~~~END~~~~~
> >>>
> >>> This take a moment and then I get an error (the full output is longer,
> >>> but when running it multiple times, already successful steps are not
> >>> all
> >>> done repeatedly, so the output is then reduced to what fails):
> >>>
> >>> ~~~~START~~~~
> >>> $ guix time-machine --channels=channels.scm -- environment
> >>> --manifest=manifest.scm --load=jupyterlab.scm
> >>> Updating channel 'guix' from Git repository at
> >>> 'https://git.savannah.gnu.org/git/guix.git'...
> >>> The following derivations will be built:
> >>>
> >>> /gnu/store/wzmfn9m45bmsbrx094rv3lf3w0rpmw49-python-pytest-check-links-0.3.0.drv
> >>>
> >>> /gnu/store/n9i421lrbwrr8d0947w5vma7rhy3iyba-python-jupyterlab-server-1.2.0.drv
> >>>
> >>> /gnu/store/s7jc2dbb0bnrahxklmszmpfv8klgw3sd-jupyterlab-server-1.2.0.tar.gz.drv
> >>>
> >>> 4,2 MB will be downloaded
> >>> downloading from
> >>> https://ci.guix.gnu.org/nar/lzip/2nahbs5v8q073gjmy224gk0h5lsh1kkw-python-nbconvert-5.0.0b1
> >>> ...
> >>> python-nbconvert-5.0.0b1 301KiB
> >>>
> >>>
> >>> 2.0MiB/s 00:00 [##################] 100.0%
> >>>
> >>> building
> >>> /gnu/store/s7jc2dbb0bnrahxklmszmpfv8klgw3sd-jupyterlab-server-1.2.0.tar.gz.drv...
> >>> |builder for
> >>> `/gnu/store/s7jc2dbb0bnrahxklmszmpfv8klgw3sd-jupyterlab-server-1.2.0.tar.gz.drv'
> >>> failed to produce output path
> >>> `/gnu/store/92md7gh966n4fzj6al267lqq4xjx0ncf-jupyterlab-server-1.2.0.tar.gz'
> >>> build of
> >>> /gnu/store/s7jc2dbb0bnrahxklmszmpfv8klgw3sd-jupyterlab-server-1.2.0.tar.gz.drv
> >>> failed
> >>> View build log at
> >>> '/var/log/guix/drvs/s7/jc2dbb0bnrahxklmszmpfv8klgw3sd-jupyterlab-server-1.2.0.tar.gz.drv.bz2'.
> >>> cannot build derivation
> >>> `/gnu/store/n9i421lrbwrr8d0947w5vma7rhy3iyba-python-jupyterlab-server-1.2.0.drv':
> >>> 1 dependencies couldn't be built
> >>> killing process 7384
> >>> guix environment: error: build of
> >>> `/gnu/store/n9i421lrbwrr8d0947w5vma7rhy3iyba-python-jupyterlab-server-1.2.0.drv'
> >>> failed
> >>> ~~~~~END~~~~~
> >>>
> >>> OK, an error, perhaps I can understand it. Lets look at that log file:
> >>>
> >>> ~~~~START~~~~
> >>> $ cp
> >>> /var/log/guix/drvs/s7/jc2dbb0bnrahxklmszmpfv8klgw3sd-jupyterlab-server-1.2.0.tar.gz.drv.bz2
> >>> .
> >>> $ bzip2 --decompress
> >>> jc2dbb0bnrahxklmszmpfv8klgw3sd-jupyterlab-server-1.2.0.tar.gz.drv.bz2
> >>> $ cat
> >>> jc2dbb0bnrahxklmszmpfv8klgw3sd-jupyterlab-server-1.2.0.tar.gz.drv
> >>>
> >>> Starting download of
> >>> /gnu/store/92md7gh966n4fzj6al267lqq4xjx0ncf-jupyterlab-server-1.2.0.tar.gz
> >>> From
> >>> https://files.pythonhosted.org/packages/source/j/jupyterlab-server/jupyterlab-server-1.2.0.tar.gz...
> >>> download failed
> >>> "https://files.pythonhosted.org/packages/source/j/jupyterlab-server/jupyterlab-server-1.2.0.tar.gz";
> >>> 404 "Not Found"
> >>>
> >>> Starting download of
> >>> /gnu/store/92md7gh966n4fzj6al267lqq4xjx0ncf-jupyterlab-server-1.2.0.tar.gz
> >>> From
> >>> https://ci.guix.gnu.org/file/jupyterlab-server-1.2.0.tar.gz/sha256/132xby7531rbrjg9bqvsx86birr1blynjxy8gi5kcnb6x7fxjcal...
> >>> download failed
> >>> "https://ci.guix.gnu.org/file/jupyterlab-server-1.2.0.tar.gz/sha256/132xby7531rbrjg9bqvsx86birr1blynjxy8gi5kcnb6x7fxjcal";
> >>> 404 "Not Found"
> >>>
> >>> Starting download of
> >>> /gnu/store/92md7gh966n4fzj6al267lqq4xjx0ncf-jupyterlab-server-1.2.0.tar.gz
> >>> From
> >>> https://tarballs.nixos.org/sha256/132xby7531rbrjg9bqvsx86birr1blynjxy8gi5kcnb6x7fxjcal...
> >>> download failed
> >>> "https://tarballs.nixos.org/sha256/132xby7531rbrjg9bqvsx86birr1blynjxy8gi5kcnb6x7fxjcal";
> >>> 404 "Not Found"
> >>>
> >>> Starting download of
> >>> /gnu/store/92md7gh966n4fzj6al267lqq4xjx0ncf-jupyterlab-server-1.2.0.tar.gz
> >>> From
> >>> https://archive.softwareheritage.org/api/1/content/sha256:5431d9dde96659364b7cc877693d5d21e7b80cea7ae3959ecc2b87518e5f5d8c/raw/...
> >>> download failed
> >>> "https://archive.softwareheritage.org/api/1/content/sha256:5431d9dde96659364b7cc877693d5d21e7b80cea7ae3959ecc2b87518e5f5d8c/raw/";
> >>> 404 "Not Found"
> >>> failed to download
> >>> "/gnu/store/92md7gh966n4fzj6al267lqq4xjx0ncf-jupyterlab-server-1.2.0.tar.gz"
> >>> from
> >>> "https://files.pythonhosted.org/packages/source/j/jupyterlab-server/jupyterlab-server-1.2.0.tar.gz";
> >>> ~~~~~END~~~~~
> >>>
> >>> So it seems, that the jupyterlab-server file is simply not
> >>> downloadable
> >>> any longer!
> >>>
> >>> Trying using wget:
> >>>
> >>> ~~~~START~~~~
> >>> $ wget
> >>> https://files.pythonhosted.org/packages/source/j/jupyterlab-server/jupyterlab-server-1.2.0.tar.gz
> >>> --2020-10-18 13:49:52--
> >>> https://files.pythonhosted.org/packages/source/j/jupyterlab-server/jupyterlab-server-1.2.0.tar.gz
> >>> Resolving files.pythonhosted.org (files.pythonhosted.org)...
> >>> 2a04:4e42:9::319, 151.101.37.63
> >>> Connecting to files.pythonhosted.org
> >>> (files.pythonhosted.org)|2a04:4e42:9::319|:443... failed: Connection
> >>> refused.
> >>> Connecting to files.pythonhosted.org
> >>> (files.pythonhosted.org)|151.101.37.63|:443... connected.
> >>> HTTP request sent, awaiting response... 404 Not Found
> >>> 2020-10-18 13:49:53 ERROR 404: Not Found.
> >>> ~~~~~END~~~~~
> >>>
> >>> So now I am out of ideas. It seems the file is not available any
> >>> longer
> >>> and the definition of jupyterlab needs to be updated somewhere, so
> >>> that
> >>> it does not try to download an old or non-existent version of
> >>> jupyter-labserver. But how is this usually done? Can I specify it
> >>> somewhere in one of the 3 files I have, or am I dependent on someone
> >>> fixing the jupyterlab-server dependency / input for juypterlab?
> >>>
> >>> Thanks for your help so far! Tell me, if I need to provide any more
> >>> information to solve the problem.
> >> Try chaning the URL line to (uri (pypi-uri "jupyterlab_server"
> >> version)),
> >> with an underscore (_). I don't have any special suggestions for
> >> knowing
> >> that it should be an underscore instead of a dash. The best I have is
> >> the output from 'guix import pypi jupyterlab-server:
> >>
> >> (ins)efraim@E5400 ~$ guix import pypi jupyterlab-server
> >>
> >> Starting download of /tmp/guix-file.ayJ41F
> >> From
> >> https://files.pythonhosted.org/packages/92/54/5f321ca4cebfb644ac59eb21601b46a2ff9831ffe1b4e5a588f2a7e98d48/jupyterlab_server-1.2.0.tar.gz...
> >> …er-1.2.0.tar.gz 22KiB 57KiB/s 00:00
> >> [##################] 100.0%
> >>
> >>
> >>
> >>> Best regards,
> >>> Zelphir
> >>>
> >>>
> >>> On 10/16/20 2:25 PM, Tobias Geerinckx-Rice wrote:
> >>>> Zelphir,
> >>>>
> >>>> Zelphir Kaltstahl 写道：
> >>>>> $ guix import pypi 'jupyterlab@2.1.5' --recursive
> >>>> It will work if you substitute ‘/’ for ‘@’. Yes, this is a happy
> >>>> accident specific to the PyPI importer, and I'm sure you can guess
> >>>> why
> >>>> it happens to work.
> >>>>
> >>>>>> guix import hackage mtl@2.1.3.1
> >>>>> But that is in the "hackage" import section. Is the same not
> >>>>> available
> >>>>> for PyPI?
> >>>> [...]
> >>>>
> >>>>> Do the various importers work differently?
> >>>> Unfortunately so. It would be great(TM) if PACKAGE[@VERSION] were
> >>>> standard. Each importer could handle it properly (e.g., by turning
> >>>> it
> >>>> into "/") or return a friendlier ‘the foo importer does not yet
> >>>> support versions’ error.
> >>>>
> >>>> I don't have the time, but this sounds like a good intermediate-level
> >>>> hack for someone who does :-)
> >>>>
> >>>> Kind regards,
> >>>>
> >>>> T G-R
> >>> --
> >>> repositories: https://notabug.org/ZelphirKaltstahl
> >>>
> > --
> > repositories: https://notabug.org/ZelphirKaltstahl
> >
> >
> > --
> > Sent from my Android device with K-9 Mail. Please excuse my brevity.
>
> --
> repositories: https://notabug.org/ZelphirKaltstahl
>
--
Efraim Flashner <efraim@flashner.co.il> אפרים פלשנר
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- Re: guix import error + New: setting up a jupyterlab environment, (continued)
- Re: guix import error + New: setting up a jupyterlab environment, Zelphir Kaltstahl, 2020/10/18
- Re: guix import error + New: setting up a jupyterlab environment, Efraim Flashner, 2020/10/18
- Re: guix import error + New: setting up a jupyterlab environment, Zelphir Kaltstahl, 2020/10/19
- Re: guix import error + New: setting up a jupyterlab environment, Efraim Flashner, 2020/10/19
- Re: guix import error + New: setting up a jupyterlab environment, Zelphir Kaltstahl, 2020/10/19
- Re: guix import error + New: setting up a jupyterlab environment, Zelphir Kaltstahl, 2020/10/19
- Re: guix import error + New: setting up a jupyterlab environment, Efraim Flashner, 2020/10/21
- Re: guix import error + New: setting up a jupyterlab environment, Zelphir Kaltstahl, 2020/10/24
- Re: guix import error + New: setting up a jupyterlab environment, Efraim Flashner, 2020/10/25
- Re: guix import error + New: setting up a jupyterlab environment, Zelphir Kaltstahl, 2020/10/25
- Re: guix import error + New: setting up a jupyterlab environment,
Efraim Flashner <=