Update only base conda env

[marcelotrevisani]

Please update just the base env, it is common to have others environment activated and I don't want to update them. The important bit that should be updated is the base env, I modified the code to update just the base environment in conda and also in mamba.

Standards checklist:

• The PR title is descriptive.
• I have read CONTRIBUTING.md
• The code compiles (cargo build)
• The code passes rustfmt (cargo fmt)
• The code passes clippy (cargo clippy)
• The code passes tests (cargo test)
• Optional: I have tested the code myself
  • I also tested that Topgrade skips the step where needed

If you developed a feature or a bug fix for someone else and you do not have the
means to test it, please tag this person here.

[SteveLauC]

I am not familiar with these 2 tools, and since you are a member of conda, in your opinion, do you think updating only the base environment is suitable for most users?

If yes, do you think it is necessary to add a configuration entry to updating all environments, like this:

# Updating all the environments instead of just the base one
[conda]
update_all = true

[mamba]
update_all = true

[marcelotrevisani]

I am not familiar with these 2 tools, and since you are a member of conda, in your opinion, do you think updating only the base environment is suitable for most users?

If yes, do you think it is necessary to add a configuration entry to updating all environments, like this:

# Updating all the environments instead of just the base one
[conda]
update_all = true

[mamba]
update_all = true

hey, sorry for my delay.

Usually people want to update conda/mamba and not all the environments, the current behaviour will update the environment that is activated. I don't think to update all environments should be a default behaviour or even if it should be a feature, it might be optional, but I doubt that much people will enable it.

Just to be clear, conda and also mamba are installed just in the base environment, that is the environment where resides just conda/mamba dependencies and tools responsible to manage all the environments, that is the reason I am proposing to change it to be just the base env.

[SteveLauC]

In r-darwish/topgrade#829, the op said:

Which exact commands should Topgrade run?

I'd say conda update --all -y, but I'm not sure it upgrades all the environments and not only the currently selected one.

Considering that, this PR LGTM:)

[codecov]

Codecov Report

Merging #495 (2448c67) into master (9cd155f) will decrease coverage by 0.15%.
The diff coverage is 2.12%.

@@            Coverage Diff            @@
##           master    #495      +/-   ##
=========================================
- Coverage    3.50%   3.36%   -0.15%     
=========================================
  Files          27      31       +4     
  Lines        3141    4194    +1053     
=========================================
+ Hits          110     141      +31     
- Misses       3031    4053    +1022     

Impacted Files	Coverage Δ
src/command.rs	0.00% <0.00%> (ø)
src/ctrlc/interrupted.rs	0.00% <ø> (ø)
src/error.rs	0.00% <0.00%> (ø)
src/execution_context.rs	0.00% <0.00%> (ø)
src/executor.rs	0.00% <0.00%> (ø)
src/main.rs	0.36% <0.00%> (-0.06%)	⬇️
src/report.rs	0.00% <0.00%> (ø)
src/runner.rs	0.00% <0.00%> (ø)
src/steps/containers.rs	0.00% <0.00%> (ø)
src/steps/emacs.rs	0.00% <0.00%> (ø)
... and 20 more