Conda env not removed when failing in pip stage

[prihoda]

Bug report

Expected behavior and actual behavior

Conda env is correctly removed after failing in conda env creation stage. However, if it fails in pip installation stage (can be a network error for example), the error is displayed and the pipeline run fails as expected, but the environment is kept. So in subsequent runs, user can get confusing error messages that a certain package does not exist, since it runs in the failed environment.

Steps to reproduce the problem

Use this conda env yml:

channels:
  - nodefaults
  - conda-forge
dependencies:
  - python = 3.11
  - pip
  - pip:
      - nonexistentpackage

Program output

      Collecting package metadata (repodata.json): ...working... done
      Solving environment: ...working... done
      
      Downloading and Extracting Packages
      
      Preparing transaction: ...working... done
      Verifying transaction: ...working... done
      Executing transaction: ...working... done
      Installing pip dependencies: ...working... Ran pip subprocess with arguments:
      ['/Users/prihodad/Library/Application Support/ovo/workdir/work/conda/env-56ad78d602a61cd3-4ef8249679916ddf5a4ded787317a380/bin/python', '-m', 'pip', 'install', '-U', '-r', '/Users/prihodad/Documents/projects/ovo/ovo/pipeline/containers/boltz/condaenv.wn99havt.requirements.txt', '--exists-action=b']
      Pip subprocess output:
      
      ! ! ! Warning ! ! !
      
      You are using an experimental build of OpenMM v7.5.1.
      This is NOT SUITABLE for production!
      It has not been properly tested on this platform and we cannot guarantee it provides accurate results.
      
      
      
      failed
      
      
      ==> WARNING: A newer version of conda exists. <==
        current version: 22.11.1
        latest version: 25.7.0
      
      Please update conda by running
      
          $ conda update -n base -c conda-forge conda
      
      Or to minimize the number of packages updated during conda update use
      
           conda install conda=25.7.0
      
      
      Pip subprocess error:
      ERROR: Could not find a version that satisfies the requirement nonexistentpackage (from versions: none)
      ERROR: No matching distribution found for nonexistentpackage
      
      
      CondaEnvException: Pip failed



 -- Check '.nextflow.log' file for details

Environment

• Nextflow version: any
• Java version: any
• Operating system: any
• Bash version: any

Additional context