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Bug 1839352 - Review Request: python-pypet - Parameter exploration toolbox
Summary: Review Request: python-pypet - Parameter exploration toolbox
Keywords:
Status: CLOSED ERRATA
Alias: None
Product: Fedora
Classification: Fedora
Component: Package Review
Version: rawhide
Hardware: All
OS: Linux
medium
medium
Target Milestone: ---
Assignee: Jerry James
QA Contact: Fedora Extras Quality Assurance
URL:
Whiteboard:
Depends On:
Blocks: fedora-neuro, NeuroFedora
TreeView+ depends on / blocked
 
Reported: 2020-05-23 15:53 UTC by Ankur Sinha (FranciscoD)
Modified: 2020-06-11 22:56 UTC (History)
2 users (show)

Fixed In Version:
Doc Type: If docs needed, set a value
Doc Text:
Clone Of:
Environment:
Last Closed: 2020-06-07 19:45:41 UTC
Type: ---
Embargoed:
loganjerry: fedora-review+


Attachments (Terms of Use)

Description Ankur Sinha (FranciscoD) 2020-05-23 15:53:26 UTC
Spec URL: https://ankursinha.fedorapeople.org/python-pypet/python-pypet.spec
SRPM URL: https://ankursinha.fedorapeople.org/python-pypet/python-pypet-0.4.3-1.fc32.src.rpm

Description: 
The new python parameter exploration toolkit: pypet manages exploration of the
parameter space of any numerical simulation in python, thereby storing your
data into HDF5 files for you. Moreover, pypet offers a new data container which
lets you access all your parameters and results from a single source. Data I/O
of your simulations and analyses becomes a piece of cake!

Fedora Account System Username: ankursinha

Comment 1 Jerry James 2020-05-27 21:23:04 UTC
I will take this review.

Comment 2 Jerry James 2020-05-27 21:57:30 UTC
Package Review
==============

Legend:
[x] = Pass, [!] = Fail, [-] = Not applicable, [?] = Not evaluated


Issues:
=======
- There is a non-fatal error building the documentation.  Look for several
  instances of this in the build log:

  ! LaTeX Error: File `anyfontsize.sty' not found.
  Type X to quit or <RETURN> to proceed,
  or enter new name. (Default extension: sty)
  Enter file name: 
  ! Emergency stop.
  <read *> 
         
  l.8 \usepackage
                 {bm}^^M
  No pages of output.
  Transcript written on math.log.
  WARNING: display latex 'O(1)': latex exited with error

  You can fix this by adding BuildRequires: tex(anyfontsize.sty).

===== 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.
[x]: License field in the package spec file matches the actual license.
     Note: Checking patched sources after %prep for licenses. Licenses
     found: "Unknown or generated", "BSD 3-clause "New" or "Revised"
     License". 219 files have unknown license. Detailed output of
     licensecheck in /home/jamesjer/1839352-python-pypet/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.
[-]: 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.
[x]: 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 20480 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: No rpmlint messages.
[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 the build
     process.
[x]: A package which is used by another package via an egg interface should
     provide egg info.
[x]: Package meets the Packaging Guidelines::Python
[x]: Package contains BR: python2-devel or python3-devel
[x]: Packages MUST NOT have dependencies (either build-time or runtime) on
     packages named with the unversioned python- prefix unless no properly
     versioned package exists. Dependencies on Python packages instead MUST
     use names beginning with python2- or python3- as appropriate.
[x]: Python packages must not contain %{pythonX_site(lib|arch)}/* in %files
[x]: Binary eggs must be removed in %prep

===== SHOULD items =====

Generic:
[-]: Uses parallel make %{?_smp_mflags} macro.
[-]: If the source package does not include license text(s) as a separate
     file from upstream, the packager SHOULD query upstream to include it.
[x]: Final provides and requires are sane (see attachments).
[x]: Fully versioned dependency in subpackages if applicable.
[?]: Package functions as described.
[x]: Latest version is packaged.
[x]: Package does not include license text files separate from upstream.
[-]: Sources are verified with gpgverify first in %prep if upstream
     publishes signatures.
     Note: gpgverify is not used.
[-]: Description and summary sections in the package spec file contains
     translations for supported Non-English languages, if available.
[x]: Package should compile and build into binary rpms on all supported
     architectures.
[!]: %check is present and all tests pass.
     Packager notes that some tests fail and that contact with upstream has
     been made on the issue.
[x]: Packages should try to preserve timestamps of original installed
     files.
[x]: Reviewer should test that the package builds in mock.
[x]: Buildroot is not present
[x]: Package has no %clean section with rm -rf %{buildroot} (or
     $RPM_BUILD_ROOT)
[x]: No file requires outside of /etc, /bin, /sbin, /usr/bin, /usr/sbin.
[x]: Packager, Vendor, PreReq, Copyright tags should not be in spec file
[x]: Sources can be downloaded from URI in Source: tag
[x]: SourceX is a working URL.
[x]: Spec use %global instead of %define unless justified.

===== EXTRA items =====

Generic:
[x]: Rpmlint is run on all installed packages.
     Note: No rpmlint messages.
[x]: Spec file according to URL is the same as in SRPM.


Rpmlint
-------
Checking: python3-pypet-0.4.3-1.fc33.noarch.rpm
          python-pypet-doc-0.4.3-1.fc33.noarch.rpm
          python-pypet-0.4.3-1.fc33.src.rpm
3 packages and 0 specfiles checked; 0 errors, 0 warnings.


Rpmlint (installed packages)
----------------------------
2 packages and 0 specfiles checked; 0 errors, 0 warnings.


Source checksums
----------------
https://github.com/SmokinCaterpillar/pypet/archive/0.4.3/pypet-0.4.3.tar.gz :
  CHECKSUM(SHA256) this package     : 1f61fac0126d9771048b8907cbae42d6121abce3e8548f212adcc84a2b53a3e2
  CHECKSUM(SHA256) upstream package : 1f61fac0126d9771048b8907cbae42d6121abce3e8548f212adcc84a2b53a3e2


Requires
--------
python3-pypet (rpmlib, GLIBC filtered):
    python(abi)
    python3.8dist(numpy)
    python3.8dist(pandas)
    python3.8dist(scipy)
    python3.8dist(tables)

python-pypet-doc (rpmlib, GLIBC filtered):


Provides
--------
python3-pypet:
    python-pypet
    python3-pypet
    python3.8-pypet
    python3.8dist(pypet)
    python3dist(pypet)

python-pypet-doc:
    python-pypet-doc


Generated by fedora-review 0.7.5 (5fa5b7e) last change: 2020-02-16
Command line :/usr/bin/fedora-review -b 1839352 -m fedora-rawhide-x86_64
Buildroot used: fedora-rawhide-x86_64
Active plugins: Generic, Python, Shell-api
Disabled plugins: Perl, Ocaml, PHP, R, Ruby, SugarActivity, Haskell, C/C++, fonts, Java
Disabled flags: EPEL6, EPEL7, DISTTAG, BATCH, EXARCH

Comment 3 Ankur Sinha (FranciscoD) 2020-05-28 09:18:56 UTC
Thanks Jerry! I've added the missing BRs required for the docs now:

Spec URL: https://ankursinha.fedorapeople.org/python-pypet/python-pypet.spec
SRPM URL: https://ankursinha.fedorapeople.org/python-pypet/python-pypet-0.4.3-1.fc32.src.rpm


* Thu May 28 2020 Ankur Sinha <ankursinha AT fedoraproject DOT org> - 0.4.3-1
- Add missing BRs for docs

Cheers,

Comment 4 Jerry James 2020-05-28 16:31:22 UTC
Looks good.  This package is APPROVED.  You will probably want to build it into the python 3.9 side tag, or talk to Miro if that isn't feasible.

Comment 5 Gwyn Ciesla 2020-05-28 17:01:06 UTC
(fedscm-admin):  The Pagure repository was created at https://src.fedoraproject.org/rpms/python-pypet

Comment 6 Fedora Update System 2020-05-28 18:31:36 UTC
FEDORA-2020-b4d6de6d8f has been submitted as an update to Fedora 32. https://bodhi.fedoraproject.org/updates/FEDORA-2020-b4d6de6d8f

Comment 7 Fedora Update System 2020-05-28 18:31:37 UTC
FEDORA-2020-668ef6991f has been submitted as an update to Fedora 31. https://bodhi.fedoraproject.org/updates/FEDORA-2020-668ef6991f

Comment 8 Fedora Update System 2020-05-29 02:45:20 UTC
FEDORA-2020-b4d6de6d8f 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-b4d6de6d8f \*`
You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2020-b4d6de6d8f

See also https://fedoraproject.org/wiki/QA:Updates_Testing for more information on how to test updates.

Comment 9 Fedora Update System 2020-05-29 03:03:20 UTC
FEDORA-2020-668ef6991f has been pushed to the Fedora 31 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-2020-668ef6991f \*`
You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2020-668ef6991f

See also https://fedoraproject.org/wiki/QA:Updates_Testing for more information on how to test updates.

Comment 10 Fedora Update System 2020-06-02 12:54:44 UTC
FEDORA-2020-45e052ea70 has been submitted as an update to Fedora 32. https://bodhi.fedoraproject.org/updates/FEDORA-2020-45e052ea70

Comment 11 Fedora Update System 2020-06-03 03:11:47 UTC
FEDORA-2020-45e052ea70 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 upgrade --enablerepo=updates-testing --advisory=FEDORA-2020-45e052ea70`
You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2020-45e052ea70

See also https://fedoraproject.org/wiki/QA:Updates_Testing for more information on how to test updates.

Comment 12 Fedora Update System 2020-06-07 19:45:41 UTC
FEDORA-2020-668ef6991f has been pushed to the Fedora 31 stable repository.
If problem still persists, please make note of it in this bug report.

Comment 13 Fedora Update System 2020-06-11 22:56:40 UTC
python-pypet-0.5.0-1.fc32 has been pushed to the Fedora 32 stable repository. If problems still persist, please make note of it in this bug report.


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