Test discovery with pytest fails, because pytest is run in the base conda env

Type: Bug

Behaviour

Test discovery with pytest fails.

From looking at the output, it seems that pytest is run in my base conda environment, not in the environment for this particular project. My base conda environment has an old, no longer supported Python version and no pytest installed; however, a recent version of python and pytest are installed in the environment that I use for this project and that I want to run the tests in.

I verified that "Python: Select Interpreter ..." is set to the correct environment and this is confirmed by the little icon on the status bar at the bottom right that displays "Python 3.11.7 ('sherpaciao')", where "sherpaciao" is a conda env with pytest. Running pytest in the terminal in that conda env works as extected.

Note that the condo env in the Python output (see full output below) is set to "CONDA_PREFIX":"/Users/guenther/mambaforge","CONDA_PROMPT_MODIFIER":"(base) while the warning a few lines down from that addresses the correct conda env: [warning] could not find a pixi interpreter for the interpreter at /Users/guenther/mambaforge/envs/sherpaciao/bin/python.

Steps to reproduce:

I hope that this can be debugged from the console/setting output since it's probably related to some setting that is wrong; I suspect that it's not easy to reproduce.

Diagnostic data

Output for Python in the Output panel (View→Output, change the drop-down the upper-right of the Output panel to Python)

2024-09-17 11:53:33.212 [info] Discover tests for workspace name: sherpa - uri: /Users/guenther/code/sherpa
2024-09-17 11:53:33.212 [info] Running discovery for pytest using the new test adapter.
2024-09-17 11:53:33.213 [info] All environment variables set for pytest discovery: {"ADS_API_TOKEN":"WPnK3GVwUCbcUvZzM2JcvKAkngy9lg2DPNS8Ss3A","COMMAND_MODE":"unix2003","CONDA_DEFAULT_ENV":"base","CONDA_EXE":"/Users/guenther/mambaforge/bin/conda","CONDA_PREFIX":"/Users/guenther/mambaforge","CONDA_PROMPT_MODIFIER":"(base) ","CONDA_PYTHON_EXE":"/Users/guenther/mambaforge/bin/python","CONDA_SHLVL":"1","DISPLAY":"/private/tmp/com.apple.launchd.T5UouRP3vi/org.xquartz:0","HOME":"/Users/guenther","LOGNAME":"guenther","MallocNanoZone":"0","OLDPWD":"/","ORIGINAL_XDG_CURRENT_DESKTOP":"undefined","PS1":"(base) %m %~> ","PWD":"/","SHELL":"/bin/zsh","SHLVL":"0","SSH_AUTH_SOCK":"/private/tmp/com.apple.launchd.9lE2FhSB4I/Listeners","TMPDIR":"/var/folders/r7/f0qh27rn207bwwvt3s7v5gh40000gn/T/","USER":"guenther","VSCODE_AMD_ENTRYPOINT":"vs/workbench/api/node/extensionHostProcess","VSCODE_CODE_CACHE_PATH":"/Users/guenther/Library/Application Support/Code/CachedData/38c31bc77e0dd6ae88a4e9cc93428cc27a56ba40","VSCODE_CRASH_REPORTER_PROCESS_TYPE":"extensionHost","VSCODE_CWD":"/","VSCODE_HANDLES_UNCAUGHT_ERRORS":"true","VSCODE_IPC_HOOK":"/Users/guenther/Library/Application Support/Code/1.93-main.sock","VSCODE_NLS_CONFIG":"{\"userLocale\":\"en-us\",\"osLocale\":\"en-us\",\"resolvedLanguage\":\"en\",\"defaultMessagesFile\":\"/Applications/Visual Studio Code.app/Contents/Resources/app/out/nls.messages.json\",\"locale\":\"en-us\",\"availableLanguages\":{}}","VSCODE_PID":"83602","XPC_FLAGS":"0x0","XPC_SERVICE_NAME":"application.com.microsoft.VSCode.82204521.82204529","XUVTOP":"/Users/guenther/data/CHIANTI","_":"/Applications/Visual Studio Code.app/Contents/MacOS/Electron","__CFBundleIdentifier":"com.microsoft.VSCode","__CF_USER_TEXT_ENCODING":"0x1F5:0x0:0x0","ELECTRON_RUN_AS_NODE":"1","VSCODE_L10N_BUNDLE_LOCATION":"","PATH":"/Users/guenther/mambaforge/bin:/Users/guenther/mambaforge/condabin:/opt/local/bin:/opt/local/sbin:/usr/local/bin:/System/Cryptexes/App/usr/bin:/usr/bin:/bin:/usr/sbin:/sbin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/local/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/appleinternal/bin:/opt/X11/bin:/Library/Apple/usr/bin:/Library/TeX/texbin","PYTHONPATH":"/Users/guenther/.vscode/extensions/ms-python.python-2024.14.1-darwin-arm64/python_files","TEST_RUN_PIPE":"/var/folders/r7/f0qh27rn207bwwvt3s7v5gh40000gn/T/python-test-discovery-331c548a6db514ee3062.sock"}
2024-09-17 11:53:33.214 [warning] could not find a pixi interpreter for the interpreter at /Users/guenther/mambaforge/envs/sherpaciao/bin/python
2024-09-17 11:53:33.216 [info] > python -m pytest -p vscode_pytest --collect-only
2024-09-17 11:53:33.216 [info] cwd: .
2024-09-17 11:53:33.272 [error] /Users/guenther/mambaforge/bin/python: No module named pytest

2024-09-17 11:53:33.275 [error] Subprocess exited unsuccessfully with exit code 1 and signal null on workspace /Users/guenther/code/sherpa.
2024-09-17 11:53:33.275 [error] Subprocess exited unsuccessfully with exit code 1 and signal null on workspace /Users/guenther/code/sherpa. Creating and sending error discovery payload
2024-09-17 11:53:33.275 [error] pytest test discovery error for workspace:  /Users/guenther/code/sherpa 
  
 The python test process was terminated before it could exit on its own, the process errored with: Code: 1, Signal: null for workspace /Users/guenther/code/sherpa
2024-09-17 12:07:41.517 [info] Native locator: Refresh started
2024-09-17 12:07:41.559 [info] Conda environment manager found at: /Users/guenther/mambaforge/bin/conda
2024-09-17 12:07:41.739 [info] Native locator: Refresh finished in 199 ms

Extension version: 2024.14.1
VS Code version: Code 1.93.1 (Universal) (38c31bc77e0dd6ae88a4e9cc93428cc27a56ba40, 2024-09-11T17:20:05.685Z)
OS version: Darwin arm64 23.6.0
Modes:

Python version (& distribution if applicable, e.g. Anaconda): 3.11.7
Type of virtual environment used (e.g. conda, venv, virtualenv, etc.): Conda
Value of the python.languageServer setting: Default

User Settings


languageServer: "Pylance"

testing
• pytestEnabled: true

Installed Extensions

Extension Name	Extension Id	Version
Code Spell Checker	streetsidesoftware.code-spell-checker	3.0.1
GitHub Actions	github.vscode-github-actions	0.26.5
GitHub Copilot	GitHub.copilot	1.229.0
GitHub Copilot Chat	GitHub.copilot-chat	0.20.1
GitHub Pull Requests	GitHub.vscode-pull-request-github	0.96.0
GitLens — Git supercharged	eamodio.gitlens	15.5.1
JavaScript Debugger	ms-vscode.js-debug	1.93.0
JavaScript Debugger Companion Extension	ms-vscode.js-debug-companion	1.1.3
Jupyter	ms-toolsai.jupyter	2024.8.1
Jupyter Cell Tags	ms-toolsai.vscode-jupyter-cell-tags	0.1.9
Jupyter Keymap	ms-toolsai.jupyter-keymap	1.1.2
Jupyter Notebook Renderers	ms-toolsai.jupyter-renderers	1.0.19
LaTeX Workshop	James-Yu.latex-workshop	10.3.2
Live Server	ritwickdey.LiveServer	5.7.9
LTeX – LanguageTool grammar/spell checking	valentjn.vscode-ltex	13.1.0
Makefile Tools	ms-vscode.makefile-tools	0.11.13
Pylance	ms-python.vscode-pylance	2024.9.1
Python	ms-python.python	2024.14.1
Python Debugger	ms-python.debugpy	2024.10.0
Table Visualizer for JavaScript Profiles	ms-vscode.vscode-js-profile-table	1.0.9
Trailing Whitespace	jkiviluoto.tws	1.0.1

System Info

Item	Value
CPUs	Apple M1 (8 x 2400)
GPU Status	2d_canvas: enabled canvas_oop_rasterization: enabled_on direct_rendering_display_compositor: disabled_off_ok gpu_compositing: enabled multiple_raster_threads: enabled_on opengl: enabled_on rasterization: enabled raw_draw: disabled_off_ok skia_graphite: disabled_off video_decode: enabled video_encode: enabled webgl: enabled webgl2: enabled webgpu: enabled webnn: disabled_off
Load (avg)	4, 3, 3
Memory (System)	16.00GB (0.09GB free)
Process Argv	--crash-reporter-id e2a97932-7d55-44e5-bb05-555f7819c1cd
Screen Reader	no
VM	0%

A/B Experiments

vsliv368:30146709
vspor879:30202332
vspor708:30202333
vspor363:30204092
vscod805cf:30301675
binariesv615:30325510
vsaa593:30376534
py29gd2263:31024239
c4g48928:30535728
azure-dev_surveyone:30548225
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pythongtdpath:30769146
welcomedialogc:30910334
pythonnoceb:30805159
asynctok:30898717
pythonmypyd1:30879173
h48ei257:31000450
pythontbext0:30879054
accentitlementsc:30995553
dsvsc016:30899300
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cppperfnew:31000557
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pythonait:31006305
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impr_priority:31102340
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refactort:31108082
pythonrstrctxt:31112756
flightc:31134773
wkspc-onlycs-t:31132770
nativeloc1:31134641
wkspc-ranged-c:31125598
cf971741:31134768
pme_test_t:31118333
defaultse:31133495
ei213698:31121563
iacca1:31138162

Hi! So to confirm, If you run python -m pytest --collect-only from your command line it works fine bc it has the right interpreter selected? Then secondly this path is the old one? Where it is looking for the pytest module: /Users/guenther/mambaforge/bin/python: No module named pytest. Thanks

Hi! So to confirm, If you run python -m pytest --collect-only from your command line it works fine bc it has the right interpreter selected?

Yes.

Then secondly this path is the old one? Where it is looking for the pytest module: /Users/guenther/mambaforge/bin/python: No module named pytest.

Yes.

Anthony Kim (@anthonykim1)

besides "CONDA_PREFIX":"/Users/guenther/mambaforge","CONDA_PROMPT_MODIFIER":"(base) any other notable settings? Anthony Kim (@anthonykim1) I am using the createActiveEnvironment command like this, any thoughts on how to produce more logging or what else could be going wrong? If not I can make a change to add additional logging to look at this

Except for conda, there should be nothing special going in that session. I should not that it's also not the first time that I see this, but I finally got annoyed enough to file an issue.
That means it's not something that is special to this conda environment: VSCode always tries to run purest in my base environment.

Eleanor Boyd (@eleanorjboyd)

Don't think

[warning] could not find a pixi interpreter for the interpreter at /Users/guenther/mambaforge/envs/sherpaciao/bin/python

is related to this issue.

Eleanor Boyd (@eleanorjboyd) It may be the ordering of:

vscode-python/src/client/common/process/pythonExecutionFactory.ts

Lines 130 to 135 in c314bab

    
           const condaExecutionService = await this.createCondaExecutionService(pythonPath, processService); 
        
           if (condaExecutionService) { 
        
               return condaExecutionService; 
        
           } 
        
           const env = createPythonEnv(pythonPath, processService, this.fileSystem); 
        
           return createPythonService(processService, env);

where createActivatedEnvironment just returns on the conda conditional without getting to the desired

const env = createPythonEnv(pythonPath, processService, this.fileSystem);

in this scneario. This seem the closest to what is "forcing" the use of conda rather than a desired venv?? in this case.

To the best of my knowledge (from googling all parts of this error message) [warning] could not find a pixi interpreter for the interpreter at /Users/guenther/mambaforge/envs/sherpaciao/bin/python is unrelated (I think from the IPython notebook extension). It's only relevant here in that it shows that at least some extensions are looking in the right place for the Python interpreter.

Anthony Kim (@anthonykim1)

Anthony Kim (@anthonykim1) please open this issue because it is not closed at all

Eleanor Boyd (@eleanorjboyd)

Eleanor Boyd (@eleanorjboyd) let's continue on this.

zljubisic

Hi all,
I confirm I have this issue :( and this isn't very pleasant.

zljubisic Hans Moritz Günther (@hamogu), do you guys have a workaround for running the tests in VS Code? Is there anything better than running it from the terminal?

Still seeing this issue, too, after upgrading the python in my python env from py3.9 to py3.10

Fixed this by re-installing vscode.

Seems it has been fixed in v2024.17.2024101501 (pre-release)

Argh, I tried reinstalling, even tried the Insiders version, but I had no luck, this is still happening.

Jeremie Charlet (@jcharlet)

Jeremie Charlet (@jcharlet) It is irrelevant with vscode insider. You should switch the python extension to pre-release version.

Same issue, super annoying

Hi folks, please give the latest pre-release of Python extension (or v2024.17.2024101501 or higher) a try.
This is unrelated to insider or vs code version itself.

Yes, there is a solution for it. I am using wsl, so I opened settings and looked for wsl python locator option and set it to "js".
Default "native" doesn't work.

I'm having a related issue. I'm working on a machine with multiple anaconda installations and vscode seems to query them at startup using the "native" locator. This is what appears in the output log:

2024-12-05 16:59:42.824 [info] Experiment 'pythonRecommendTensorboardExt' is active
2024-12-05 16:59:42.824 [info] Experiment 'pythonSurveyNotification' is active
2024-12-05 16:59:42.824 [info] Experiment 'pythonTerminalEnvVarActivation' is active
2024-12-05 16:59:42.824 [info] Experiment 'pythonTestAdapter' is active
2024-12-05 16:59:42.824 [info] Native locator: Refresh started
2024-12-05 16:59:44.047 [info] > pyenv which python
2024-12-05 16:59:44.047 [info] cwd: .
2024-12-05 16:59:44.105 [info] > /datascope/slurm/miniconda3/bin/conda info --json
2024-12-05 16:59:46.693 [info] Conda environment manager found at: /usr/local/miniconda3/bin/conda
2024-12-05 16:59:46.713 [info] Conda environment manager found at: /datascope/slurm/miniconda3/bin/conda
2024-12-05 16:59:46.718 [info] Conda environment manager found at: /datascope/slurm/aarch64/miniconda3/bin/conda
2024-12-05 16:59:46.816 [info] Conda environment manager found at: /home/dobos/project/lsst/conda/bin/conda
2024-12-05 16:59:46.833 [info] Native locator: Refresh finished in 4967 ms

I don't know where those paths are coming from because they're not listed when I simply run /datascope/slurm/miniconda3/bin/conda info --json. I have the python.condaPath value configured to the one I want to use but vscode insists on picking up the last one in the above list which is of course incorrect because the environment I want to use is under a different conda installation. This is very annoying because I have to switch back and forth between conda installation (x64 and aarch64) as well as various environments.

I'd like to confirm that setting the python locator from native to js solves the issue I reported above, and the python extension finds the correct conda installation based on the selected environment, and can discover the list of unit test.

Yes, there is a solution for it. I am using wsl, so I opened settings and looked for wsl python locator option and set it to "js". Default "native" doesn't work.

THX! spent the whole day trying to fix this pain in the ass, when I work with env from poetry everything is ok, now I needed switched to conda and this problem arose

also used Wsl, vscode (version 1.89.1)

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Test discovery with pytest fails, because pytest is run in the base conda env #24122

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	const condaExecutionService = await this.createCondaExecutionService(pythonPath, processService);
	if (condaExecutionService) {
	return condaExecutionService;
	}
	const env = createPythonEnv(pythonPath, processService, this.fileSystem);
	return createPythonService(processService, env);

Test discovery with pytest fails, because pytest is run in the base conda env #24122

Description

Behaviour

Steps to reproduce:

Diagnostic data

Activity

eleanorjboyd commented on Sep 23, 2024

hamogu commented on Sep 23, 2024

eleanorjboyd commented on Sep 23, 2024

hamogu commented on Sep 23, 2024

anthonykim1 commented on Sep 23, 2024

hamogu commented on Sep 23, 2024

17 remaining items

zljubisic commented on Oct 13, 2024

zljubisic commented on Oct 13, 2024

jcharlet commented on Oct 14, 2024

ktmud commented on Oct 14, 2024

wohenbushuang commented on Oct 15, 2024

jcharlet commented on Oct 17, 2024

wohenbushuang commented on Oct 17, 2024

tvatter commented on Oct 17, 2024

anthonykim1 commented on Oct 17, 2024

zljubisic commented on Oct 17, 2024

dobos commented on Dec 5, 2024

dobos commented on Dec 5, 2024

oleg-korshunov commented on Dec 22, 2024

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