[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 --- Comment #17 from Fedora Update System --- FEDORA-2020-eead172880 has been pushed to the Fedora 32 stable repository. If problem still persists, please make note of it in this bug report. -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 Fedora Update System changed: What|Removed |Added Status|ON_QA |CLOSED Resolution|--- |ERRATA Last Closed||2020-11-11 01:19:20 --- Comment #16 from Fedora Update System --- FEDORA-2020-febd6e24ac has been pushed to the Fedora 33 stable repository. If problem still persists, please make note of it in this bug report. -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 --- Comment #15 from Fedora Update System --- FEDORA-2020-eead172880 has been pushed to the Fedora 32 testing repository. In short time you'll be able to install the update with the following command: `sudo dnf install --enablerepo=updates-testing --advisory=FEDORA-2020-eead172880 \*` You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2020-eead172880 See also https://fedoraproject.org/wiki/QA:Updates_Testing for more information on how to test updates. -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 Fedora Update System changed: What|Removed |Added Status|MODIFIED|ON_QA --- Comment #14 from Fedora Update System --- FEDORA-2020-febd6e24ac has been pushed to the Fedora 33 testing repository. In short time you'll be able to install the update with the following command: `sudo dnf install --enablerepo=updates-testing --advisory=FEDORA-2020-febd6e24ac \*` You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2020-febd6e24ac See also https://fedoraproject.org/wiki/QA:Updates_Testing for more information on how to test updates. -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 Fedora Update System changed: What|Removed |Added Status|POST|MODIFIED --- Comment #12 from Fedora Update System --- FEDORA-2020-febd6e24ac has been submitted as an update to Fedora 33. https://bodhi.fedoraproject.org/updates/FEDORA-2020-febd6e24ac -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 Fedora Update System changed: What|Removed |Added Status|POST|MODIFIED --- Comment #12 from Fedora Update System --- FEDORA-2020-febd6e24ac has been submitted as an update to Fedora 33. https://bodhi.fedoraproject.org/updates/FEDORA-2020-febd6e24ac --- Comment #13 from Fedora Update System --- FEDORA-2020-eead172880 has been submitted as an update to Fedora 32. https://bodhi.fedoraproject.org/updates/FEDORA-2020-eead172880 -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 --- Comment #11 from Gwyn Ciesla --- (fedscm-admin): The Pagure repository was created at https://src.fedoraproject.org/rpms/python-netpyne -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 Elliott Sales de Andrade changed: What|Removed |Added Status|ASSIGNED|POST Whiteboard|NotReady| Flags|fedora-review? |fedora-review+ --- Comment #10 from Elliott Sales de Andrade --- LGTM now; approved. -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592
--- Comment #9 from Ankur Sinha (FranciscoD) ---
(In reply to Elliott Sales de Andrade from comment #7)
> Why can't pyneuroml be packaged in Fedora?
pyneuroml is a wrapper around jneuroml and *bundles* its prebuilt jar. While I
was able to unbundle that, jneuroml itself cannot currently be included in
Fedora because building it from source requires one to package lots of java
deps, like the whole spring framework. So neither jneuroml, nor packages that
depend on it can currently be included in Fedora. They are all in the
NeuroFedora copr:
https://docs.fedoraproject.org/en-US/neurofedora/copr/
(In reply to Elliott Sales de Andrade from comment #8)
> - Replace %{__python3} with %{python3}
> - netpyne/support/stackedBarGraph.py is GPLv3, and not reflected in License
Done.
Updated spec/srpm:
Spec URL:
https://ankursinha.fedorapeople.org/python-netpyne/python-netpyne.spec
SRPM URL:
https://ankursinha.fedorapeople.org/python-netpyne/python-netpyne-0.9.7-2.20201009git548ffc6.fc33.src.rpm
Changelog:
* Tue Oct 13 2020 Ankur Sinha -
0.9.7-2.20201009git548ffc6
- Update license to include GPLv3+
- Add comment to explain why pyneuroml cannot be included in Fedora
- use python3 instead of __python3
Cheers,
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[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592
--- Comment #8 from Elliott Sales de Andrade ---
- Replace %{__python3} with %{python3}
- netpyne/support/stackedBarGraph.py is GPLv3, and not reflected in License
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[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 --- Comment #7 from Elliott Sales de Andrade --- Why can't pyneuroml be packaged in Fedora? -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 --- Comment #6 from Ankur Sinha (FranciscoD) --- I updated to the latest snapshot that includes a bunch of fixes: Spec URL: https://ankursinha.fedorapeople.org/python-netpyne/python-netpyne.spec SRPM URL: https://ankursinha.fedorapeople.org/python-netpyne/python-netpyne-0.9.7-2.20201009git548ffc6.fc33.src.rpm (It needs the latest neuron build) -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 --- Comment #5 from Ankur Sinha (FranciscoD) --- Hi Elliott, Sorry for the wait. Here's the updated spec/srpm: Spec URL: https://ankursinha.fedorapeople.org/python-netpyne/python-netpyne.spec SRPM URL: https://ankursinha.fedorapeople.org/python-netpyne/python-netpyne-0.9.7-1.fc33.src.rpm pyneuroml is an optional dependency (which depends on lots of java things and so only made it to the NeuroFedora extras COPR repository), so we can proceed here. I've run all the tests with the COPR enabled in mock to ensure that the tests that need pyneuroml also run fine. Cheers, Ankur -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 --- Comment #4 from Ankur Sinha (FranciscoD) --- *** Bug 1886601 has been marked as a duplicate of this bug. *** -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 Elliott Sales de Andrade changed: What|Removed |Added Whiteboard||NotReady --- Comment #3 from Elliott Sales de Andrade --- I assume you're still waiting. -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 Bug 1731592 depends on bug 1731594, which changed state. Bug 1731594 Summary: Review Request: python-matplotlib-scalebar - Artist for matplotlib to display a scale bar https://bugzilla.redhat.com/show_bug.cgi?id=1731594 What|Removed |Added Status|ON_QA |CLOSED Resolution|--- |ERRATA -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592
--- Comment #2 from Ankur Sinha (FranciscoD) ---
(In reply to Elliott Sales de Andrade from comment #1)
> License check shows BSD and GPLv3 licenses. Please correct the License field
> and add a comment with the breakdown.
Corrected.
> Tests do not pass even with python3-matplotlib-scalebar installed.
Turns out it also needs pyNeuroML which we haven't packaged yet. I'll go work
on that now.
https://github.com/Neurosim-lab/netpyne/blob/development/.travis.yml
>
> There are some hidden files in the docs (see rpmlint output) that you may
> wish
> to remove.
Removed.
> The URL should be https://pypi.org/project/%{pypi_name}
Corrected.
Here's the updated spec/srpm in the meantime, but this review is now blocked
until I get pyneuroml in:
Spec URL:
https://ankursinha.fedorapeople.org/python-netpyne/python-netpyne.spec
SRPM URL:
https://ankursinha.fedorapeople.org/python-netpyne/python-netpyne-0.9.2-1.fc30.src.rpm
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[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592
Elliott Sales de Andrade changed:
What|Removed |Added
Status|NEW |ASSIGNED
CC||quantum.anal...@gmail.com
Assignee|nob...@fedoraproject.org|quantum.anal...@gmail.com
Flags||fedora-review?
--- Comment #1 from Elliott Sales de Andrade ---
License check shows BSD and GPLv3 licenses. Please correct the License field
and add a comment with the breakdown.
Tests do not pass even with python3-matplotlib-scalebar installed.
There are some hidden files in the docs (see rpmlint output) that you may wish
to remove.
The URL should be https://pypi.org/project/%{pypi_name}
Package Review
==
Legend:
[x] = Pass, [!] = Fail, [-] = Not applicable, [?] = Not evaluated
[ ] = Manual review needed
Issues:
===
- Header files in -devel subpackage, if present.
Note: python-netpyne-doc : /usr/share/doc/python-netpyne-
doc/examples/LFPrecording/mod/misc.h python-netpyne-doc :
/usr/share/doc/python-netpyne-doc/examples/M1detailed/mod/misc.h python-
netpyne-doc : /usr/share/doc/python-netpyne-
doc/examples/PTcell/mod/misc.h python-netpyne-doc :
/usr/share/doc/python-netpyne-doc/examples/batchCell/misc.h python-
netpyne-doc : /usr/share/doc/python-netpyne-
doc/examples/rxd_net/mod/misc.h
See: https://docs.fedoraproject.org/en-US/packaging-
guidelines/#_devel_packages
= MUST items =
Generic:
[x]: Package is licensed with an open-source compatible license and meets
other legal requirements as defined in the legal section of Packaging
Guidelines.
[!]: License field in the package spec file matches the actual license.
Note: Checking patched sources after %prep for licenses. Licenses
found: "Unknown or generated", "Expat License", "BSD 2-clause
"Simplified" License", "GPL (v3 or later)". 507 files have unknown
license. Detailed output of licensecheck in
1731592-python-netpyne/licensecheck.txt
[x]: License file installed when any subpackage combination is installed.
[x]: Package contains no bundled libraries without FPC exception.
[x]: Changelog in prescribed format.
[x]: Sources contain only permissible code or content.
[-]: Package contains desktop file if it is a GUI application.
[x]: Development files must be in a -devel package
[x]: Package uses nothing in %doc for runtime.
[x]: Package consistently uses macros (instead of hard-coded directory
names).
[x]: Package is named according to the Package Naming Guidelines.
[?]: Package does not generate any conflict.
[x]: Package obeys FHS, except libexecdir and /usr/target.
[-]: If the package is a rename of another package, proper Obsoletes and
Provides are present.
[x]: Requires correct, justified where necessary.
[x]: Spec file is legible and written in American English.
[-]: Package contains systemd file(s) if in need.
[x]: Package is not known to require an ExcludeArch tag.
[x]: Large documentation must go in a -doc subpackage. Large could be size
(~1MB) or number of files.
Note: Documentation size is 10240 bytes in 1 files.
[x]: Package complies to the Packaging Guidelines
[x]: Package successfully compiles and builds into binary rpms on at least
one supported primary architecture.
[x]: Package installs properly.
[x]: Rpmlint is run on all rpms the build produces.
Note: There are rpmlint messages (see attachment).
[x]: If (and only if) the source package includes the text of the
license(s) in its own file, then that file, containing the text of the
license(s) for the package is included in %license.
[x]: Package requires other packages for directories it uses.
[x]: Package must own all directories that it creates.
[x]: Package does not own files or directories owned by other packages.
[x]: Package uses either %{buildroot} or $RPM_BUILD_ROOT
[x]: Package does not run rm -rf %{buildroot} (or $RPM_BUILD_ROOT) at the
beginning of %install.
[x]: Macros in Summary, %description expandable at SRPM build time.
[x]: Dist tag is present.
[x]: Package does not contain duplicates in %files.
[x]: Permissions on files are set properly.
[x]: Package must not depend on deprecated() packages.
[x]: Package use %makeinstall only when make install DESTDIR=... doesn't
work.
[x]: Package is named using only allowed ASCII characters.
[x]: Package does not use a name that already exists.
[x]: Package is not relocatable.
[x]: Sources used to build the package match the upstream source, as
provided in the spec URL.
[x]: Spec file name must match the spec package %{name}, in the format
%{name}.spec.
[x]: File names are valid UTF-8.
[x]: Packages must not store files under /srv, /opt or /usr/local
Python:
[x]: Python eggs must not download any dependencies during
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 Ankur Sinha (FranciscoD) changed: What|Removed |Added Depends On||1731594 ||(python-matplotlib-scalebar ||) Referenced Bugs: https://bugzilla.redhat.com/show_bug.cgi?id=1731594 [Bug 1731594] Review Request: python-matplotlib-scalebar - Artist for matplotlib to display a scale bar -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
[Bug 1731592] Review Request: python-netpyne - Develop, simulate and analyse biological neuronal networks in NEURON
https://bugzilla.redhat.com/show_bug.cgi?id=1731592 Ankur Sinha (FranciscoD) changed: What|Removed |Added Blocks||1276941 (fedora-neuro) Alias||python-netpyne Referenced Bugs: https://bugzilla.redhat.com/show_bug.cgi?id=1276941 [Bug 1276941] Fedora NeuroImaging and NeuroScience tracking bug -- You are receiving this mail because: You are on the CC list for the bug. You are always notified about changes to this product and component ___ package-review mailing list -- package-review@lists.fedoraproject.org To unsubscribe send an email to package-review-le...@lists.fedoraproject.org Fedora Code of Conduct: https://docs.fedoraproject.org/en-US/project/code-of-conduct/ List Guidelines: https://fedoraproject.org/wiki/Mailing_list_guidelines List Archives: https://lists.fedoraproject.org/archives/list/package-review@lists.fedoraproject.org
