make sure that coverage.xml includes file path prefix #140

gro1m · 2022-03-21T22:32:54Z

move pytest section from setup.cfg to pytest.ini
fix coverage by not using pytest-cov
pin pytest v7 in test-requirements

aconrad · 2022-03-22T16:57:11Z

Hi @gro1m, thanks for trying to get this to work! I checked out your branch and ran it locally, and the coverage still generates filename without pycobertura/ as prefix, and I'm still getting the same warning:

CoverageWarning: --include is ignored because --source is set (include-ignored)

Can you get it to work? What commands are you running?

I don't know why this is happening, and unless you do, we might need to reach out to the coveragepy folks about it. My Google searches weren't fruitful and all I get to is the official docs that mention:

Warnings

...

“–include is ignored because –source is set (include-ignored)”
Both --include and --source were specified while running code. Both are meant to focus measurement on a particular part of your source code, so --include is ignored in favor of --source.

Source: https://coverage.readthedocs.io/en/coverage-4.5.1x/cmd.html#warnings

gro1m · 2022-03-22T19:26:27Z

Hi @aconrad

It has to work - there are no warnings anymore :)

(base) $ git branch
  feature/add-regex
* feature/cleanup-source-and-include
  feature/hideable-columns
  master
(base) $ conda activate py39
(py39) $ conda list
# packages in environment at ~/opt/anaconda3/envs/py39:
#
# Name                    Version                   Build  Channel
attrs                     21.4.0                   pypi_0    pypi
black                     21.12b0                  pypi_0    pypi
bleach                    4.1.0                    pypi_0    pypi
build                     0.7.0                    pypi_0    pypi
ca-certificates           2021.10.26           hecd8cb5_2  
certifi                   2021.10.8        py39hecd8cb5_0  
charset-normalizer        2.0.7                    pypi_0    pypi
click                     8.0.3                    pypi_0    pypi
colorama                  0.4.4                    pypi_0    pypi
coverage                  6.3.2                    pypi_0    pypi
distlib                   0.3.4                    pypi_0    pypi
docutils                  0.18                     pypi_0    pypi
filelock                  3.4.2                    pypi_0    pypi
idna                      3.3                      pypi_0    pypi
importlib-metadata        4.8.2                    pypi_0    pypi
iniconfig                 1.1.1                    pypi_0    pypi
jinja2                    3.0.3                    pypi_0    pypi
keyring                   23.2.1                   pypi_0    pypi
libcxx                    12.0.0               h2f01273_0  
libffi                    3.3                  hb1e8313_2  
lxml                      4.7.1                    pypi_0    pypi
markupsafe                2.0.1                    pypi_0    pypi
mock                      4.0.3                    pypi_0    pypi
mypy-extensions           0.4.3                    pypi_0    pypi
ncurses                   6.3                  hca72f7f_2  
openssl                   1.1.1l               h9ed2024_0  
packaging                 21.3                     pypi_0    pypi
pathspec                  0.9.0                    pypi_0    pypi
pep517                    0.12.0                   pypi_0    pypi
pip                       21.2.4           py39hecd8cb5_0  
pkginfo                   1.8.1                    pypi_0    pypi
pluggy                    1.0.0                    pypi_0    pypi
py                        1.11.0                   pypi_0    pypi
pycobertura               2.1.0                     dev_0    <develop>
pygments                  2.10.0                   pypi_0    pypi
pyparsing                 3.0.6                    pypi_0    pypi
pytest                    7.1.1                    pypi_0    pypi
pytest-cov                3.0.0                    pypi_0    pypi
python                    3.9.7                h88f2d9e_1  
readline                  8.1                  h9ed2024_0  
readme-renderer           30.0                     pypi_0    pypi
requests                  2.26.0                   pypi_0    pypi
requests-toolbelt         0.9.1                    pypi_0    pypi
rfc3986                   1.5.0                    pypi_0    pypi
ruamel-yaml               0.17.21                  pypi_0    pypi
ruamel-yaml-clib          0.2.6                    pypi_0    pypi
setuptools                58.0.4           py39hecd8cb5_0  
six                       1.16.0                   pypi_0    pypi
sqlite                    3.36.0               hce871da_0  
tabulate                  0.8.9                    pypi_0    pypi
tk                        8.6.11               h7bc2e8c_0  
tomli                     1.2.2                    pypi_0    pypi
tox                       3.24.5                   pypi_0    pypi
tqdm                      4.62.3                   pypi_0    pypi
twine                     3.6.0                    pypi_0    pypi
tzdata                    2021e                hda174b7_0  
urllib3                   1.26.7                   pypi_0    pypi
virtualenv                20.13.0                  pypi_0    pypi
webencodings              0.5.1                    pypi_0    pypi
wheel                     0.37.0             pyhd3eb1b0_1  
xz                        5.2.5                h1de35cc_0  
zipp                      3.6.0                    pypi_0    pypi
zlib                      1.2.11               h1de35cc_3  
(py39) $ pycobertura show coverage.xml
Filename                 Stmts    Miss  Cover    Missing
---------------------  -------  ------  -------  ---------
__init__.py                  2       0  100.00%
cli.py                      78       0  100.00%
cobertura.py               206       0  100.00%
filesystem.py               87       0  100.00%
reporters.py               192       0  100.00%
utils.py                   118       1  99.15%   38
templates/__init__.py        0       0  100.00%
templates/filters.py        12       0  100.00%
TOTAL                      695       1  99.86%
(py39) $ pytest
============================================================================================= test session starts ==============================================================================================
platform darwin -- Python 3.9.7, pytest-7.1.1, pluggy-1.0.0 -- ~/opt/anaconda3/envs/py39/bin/python
cachedir: .pytest_cache
rootdir: ~/vscode-projects/pycobertura, configfile: tox.ini
plugins: cov-3.0.0
collected 139 items                                                                                                                                                                                            

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---------------------------------------------------------------- generated xml file: /Users/michaelgross/vscode-projects/pycobertura/junit.xml -----------------------------------------------------------------
============================================================================================= 139 passed in 0.55s ==============================================================================================
(py39) $

gro1m · 2022-03-22T19:28:41Z

But the prefix is missing in the pycobertura show command, there we would need an --include option instead of --source...

aconrad · 2022-03-23T22:33:10Z

I don't understand what changed with this PR. I thought the coverage.xml file would contain filenames such as filename="pycobertura/cli.py" instead of filename="cli.py". Is that not what changed?

gro1m · 2022-03-26T11:50:50Z

Hi @aconrad
I try to explain it again. I moved to pytest.ini, but in principal it does not matter.
The output of pytest is correct, but the subsequent show command not, because pytest uses the coverage library, but pycobertura does not (compare setup.cfg install_requires block to test_requirements.txt, which actually should go in a test_requires block in setup.cfg):

(py39) $ pytest
====================================================================== test session starts =======================================================================
platform darwin -- Python 3.9.7, pytest-7.1.1, pluggy-1.0.0 -- ~/opt/anaconda3/envs/py39/bin/python
cachedir: .pytest_cache
rootdir: ~/vscode-projects/pycobertura, configfile: pytest.ini
plugins: cov-3.0.0
collected 139 items                                                                                                                                              

tests/test_cli.py::test_exit_codes PASSED                                                                                                                  [  0%]
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======================================================================== warnings summary ========================================================================
../../opt/anaconda3/envs/py39/lib/python3.9/site-packages/coverage/inorout.py:472
  ~/opt/anaconda3/envs/py39/lib/python3.9/site-packages/coverage/inorout.py:472: CoverageWarning: --include is ignored because --source is set (include-ignored)
    self.warn("--include is ignored because --source is set", slug="include-ignored")

-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
----------------------------------------- generated xml file:~/vscode-projects/pycobertura/junit.xml ------------------------------------------

---------- coverage: platform darwin, python 3.9.7-final-0 -----------
Name                                Stmts   Miss  Cover   Missing
-----------------------------------------------------------------
pycobertura/__init__.py                 2      0   100%
pycobertura/cli.py                     78      0   100%
pycobertura/cobertura.py              206      0   100%
pycobertura/filesystem.py              87      0   100%
pycobertura/reporters.py              192      0   100%
pycobertura/templates/__init__.py       0      0   100%
pycobertura/templates/filters.py       12      0   100%
pycobertura/utils.py                  118      1    99%   38
-----------------------------------------------------------------
TOTAL                                 695      1    99%
Coverage XML written to file coverage.xml

================================================================= 139 passed, 1 warning in 0.91s =================================================================
(py39) $ pycobertura show coverage.xml
Filename                 Stmts    Miss  Cover    Missing
---------------------  -------  ------  -------  ---------
__init__.py                  2       0  100.00%
cli.py                      78       0  100.00%
cobertura.py               206       0  100.00%
filesystem.py               87       0  100.00%
reporters.py               192       0  100.00%
utils.py                   118       1  99.15%   38
templates/__init__.py        0       0  100.00%
templates/filters.py        12       0  100.00%
TOTAL                      695       1  99.86%

gro1m · 2022-03-26T11:51:32Z

We can make the warning disappear, if we want, because I think it is not relevant (it is a wrong warning).

gro1m · 2022-03-26T18:58:06Z

Hi @aconrad
Sorry for the irritation, but it is really confusing :)
Unfortunately your observation is true: the problem remains. Although the output on the console is correct, the generated coverage.xml is not. I fear we need to open an issue at https://github.com/nedbat/coveragepy, because nedbat/coveragepy#578 cannot be fixed with the current PR nor the proposed fix.

aconrad · 2022-04-07T04:52:22Z

Happy to merge this, but my understanding is that it's just moving code around, right?

gro1m · 2022-04-17T21:35:04Z

Hi @aconrad
This will work now - I will still need to fix the formatting, but then we should be good to work.
The hint from @nedbat to drop pytest-cov was key :)

aconrad

I'm on my phone right now but I'll have to check out the coverage output on my laptop today. Thanks for looking into that @gro1m ! This looks really promising!

test-requirements.txt

tox.ini

.coveragerc

…ral settings

.coveragerc

aconrad

This is looking awesome, I'd like to merge this. Thank you for your investigation and for taking the time to post a report to the coveragepy project to get our question answered! ❤️

Can you just confirm whether we need omit = or not?

…st.ini

tox.ini

Co-authored-by: Alexandre Conrad-Dormoy <alexandre.conrad@gmail.com>

…om/gro1m/pycobertura into feature/cleanup-source-and-include

gro1m · 2022-04-18T17:08:29Z

@aconrad Do we need an update on the CHANGES.md as well?

pytest.ini

aconrad · 2022-04-18T17:51:08Z

@aconrad Do we need an update on the CHANGES.md as well?

Hmm, good question. I think this PR is part of dropping py36 and supporting py37 and onward. This change is already documented and where you've been credited, this PR is just a "bug" that needed to be fixed that we hadn't addressed the first time around.

So no, I don't think we need to document it per se. 👍

gro1m added 2 commits March 21, 2022 23:32

move pytest section from setup.cfg to tox.ini

c961125

fix warning

0a62521

gro1m changed the title ~~[Draft] move pytest section from setup.cfg to tox.ini~~ move pytest section from setup.cfg to tox.ini Mar 21, 2022

gro1m mentioned this pull request Mar 21, 2022

update coverage to version 6 #135

Merged

gro1m added 2 commits March 24, 2022 22:37

disable_warnings include-ignored as per pytest-dev/pytest-cov#369

0798aeb

move pytest section to pytest ini

8952e82

gro1m mentioned this pull request Apr 10, 2022

Wrong warning about --source is set and printed coverage summary does not match with generated coverage xml nedbat/coveragepy#1355

Closed

gro1m added 3 commits April 13, 2022 20:38

try to fix filepath prefix

ee0218c

fix coverage not using pytest-cov

7aef57b

include pytest in test requirements

ec3f549

remove main part from cli.py

d1d3aeb

This was referenced Apr 18, 2022

Different coverage.xml generated for Python 3.7 through 3.9 #133

Closed

move test requirements into setup.cfg #141

Closed

Export JSON as a list of objects #146

Closed

gro1m changed the title ~~move pytest section from setup.cfg to tox.ini~~ make sure that coverage.xml includes file path prefix Apr 18, 2022