Env vars exported from shell scripts fail to render in subsequent templates

[bartsmykla]

Describe the bug
Env vars exported from a shell script and loaded via _.source fail to render in subsequent env var templates. This behavior is inconsistent with how variables defined directly in the [env] section work.

This issue does not occur when the variable is defined directly in the [env] section.

This is a followup for #3755

To Reproduce

1. Create a shell script .mise/env.sh with the following content:

   export __GENERATE_TOOLS_DIR="foo"

2. Define the following in your configuration:

   [env]
   _.source = ".mise/env.sh"
   
   _.path = [
       "{{ env.__GENERATE_TOOLS_DIR }}",
   ]

3. Run any task or any mise command

Expected behavior
The env var {{ env.__GENERATE_TOOLS_DIR }} should resolve to the value set in the shell script (foo), and _.path should render correctly.

mise doctor output

version: 2024.12.17 macos-arm64 (6abef71 2024-12-21)
activated: yes
shims_on_path: no

build_info:
  Target: aarch64-apple-darwin
  Features: DEFAULT, NATIVE_TLS, OPENSSL
  Built: Sat, 21 Dec 2024 16:00:07 +0000
  Rust Version: rustc 1.83.0 (90b35a623 2024-11-26)
  Profile: release

shell:
  /opt/homebrew/bin/fish
  fish, version 3.7.1

dirs:
  cache: ~/Library/Caches/mise
  config: ~/.config/mise
  data: ~/.local/share/mise
  shims: ~/.local/share/mise/shims
  state: ~/.local/state/mise

config_files:
  ~/.config/mise/config.toml
  ~/foo/mise.toml

ignored_config_files: (none)

backends:
  aqua
  asdf
  cargo
  core
  dotnet
  gem
  go
  npm
  pipx
  spm
  ubi
  vfox

plugins:
  clang-format           git@github.com:higebu/asdf-llvm.git#c527fd9
  kube-controller-tools  git@github.com:jimmidyson/asdf-kube-controller-tools.git#37526dc
  oapi-codegen           git@github.com:dylanrayboss/asdf-oapi-codegen.git#a988840

toolset:
  aqua:GoogleContainerTools/container-structure-test@1.19.3
  aqua:etcd-io/etcd@3.5.17
  aqua:golangci/golangci-lint@1.62.0
  aqua:helm/helm@3.16.4
  aqua:jqlang/jq@1.7.1
  aqua:koalaman/shellcheck@0.10.0
  aqua:kubernetes-sigs/kubebuilder@4.3.1
  aqua:kubernetes/kubectl@1.32.0
  aqua:norwoodj/helm-docs@1.11.0
  aqua:protocolbuffers/protobuf-go/protoc-gen-go@1.28.1
  aqua:protocolbuffers/protobuf/protoc@3.20.0
  aqua:stackrox/kube-linter@0.6.5
  asdf:kube-controller-tools@0.16.5
  asdf:oapi-codegen@2.4.1
  core:go@1.23.4
  go:github.com/envoyproxy/protoc-gen-validate@v1.1.0
  go:github.com/google/osv-scanner/cmd/osv-scanner@1.9.1
  go:github.com/onsi/ginkgo/v2/ginkgo@2.22.0
  go:github.com/pubg/protoc-gen-jsonschema@0.6.2
  go:google.golang.org/grpc/cmd/protoc-gen-go-grpc@1.1.0
  ubi:hadolint/hadolint@2.12.0
  ubi:jdx/usage@1.7.2
  ubi:k3d-io/k3d@5.7.5
  ubi:kubernetes-sigs/kind@0.26.0
  ubi:mikefarah/yq@4.30.8

path:
  ~/.local/share/mise/installs/container-structure-test/1.19.3
  ~/.local/share/mise/installs/etcd/3.5.17/etcd-v3.5.17-darwin-amd64
  ~/.local/share/mise/installs/go/1.23.4/bin
  ~/.local/share/mise/installs/ginkgo/2.22.0/bin
  ~/.local/share/mise/installs/golangci-lint/1.62.0/golangci-lint-1.62.0-darwin-arm64
  ~/.local/share/mise/installs/hadolint/2.12.0/bin
  ~/.local/share/mise/installs/helm/3.16.4/darwin-arm64
  ~/.local/share/mise/installs/helm-docs/1.11.0
  ~/.local/share/mise/installs/jq/1.7.1
  ~/.local/share/mise/installs/k3d/5.7.5/bin
  ~/.local/share/mise/installs/kind/0.26.0/bin
  ~/.local/share/mise/installs/kube-controller-tools/0.16.5/bin
  ~/.local/share/mise/installs/kube-linter/0.6.5
  ~/.local/share/mise/installs/kubebuilder/4.3.1
  ~/.local/share/mise/installs/kubectl/1.32.0
  ~/.local/share/mise/installs/oapi-codegen/2.4.1/bin
  ~/.local/share/mise/installs/osv-scanner/1.9.1/bin
  ~/.local/share/mise/installs/protoc/3.20.0/bin
  ~/.local/share/mise/installs/protoc-gen-go/1.28.1
  ~/.local/share/mise/installs/protoc-gen-go-grpc/1.1.0/bin
  ~/.local/share/mise/installs/protoc-gen-jsonschema/0.6.2/bin
  ~/.local/share/mise/installs/protoc-gen-validate/v1.1.0/bin
  ~/.local/share/mise/installs/shellcheck/0.10.0/shellcheck-v0.10.0
  ~/.local/share/mise/installs/yq/4.30.8/bin
  ~/.local/share/mise/installs/usage/1.7.2/bin
  ~/.local/share/mise/installs/go/1.23.4/bin
  ~/.local/bin
  /opt/homebrew/bin
  /opt/homebrew/sbin
  /opt/homebrew/opt/make/libexec/gnubin
  /opt/homebrew/opt/coreutils/libexec/gnubin
  ~/.cargo/bin
  /bin
  ~/go/bin
  ~/bin
  /usr/local/opt/libiconv/bin
  /usr/local/sbin
  /usr/local/opt/ruby/bin
  /usr/local/opt/curl/bin
  /usr/local/opt/fzf/bin
  /opt/homebrew/opt/fzf/bin
  /usr/local/bin
  /System/Cryptexes/App/usr/bin
  /usr/bin
  /usr/sbin
  /sbin
  /Library/Apple/usr/bin
  /usr/local/MacGPG2/bin
  /Applications/Wireshark.app/Contents/MacOS

env_vars:
  MISE_SHELL=fish

settings:
  experimental  true ~/.config/mise/config.toml
  experimental  true ~/foo/mise.toml

No problems found

[jdx]

there is a TODO in the code which addresses why this happens—path gets loaded before tools. You can work around by having separate [[env]] sections. I probably won't work on this but would happily accept a PR.

mise/src/config/config_file/mise_toml.rs

Line 838 in 53c9144

// TODO: parse these in the order they're defined somehow