Refactor git commands and increase test coverage

[pjbgf]

https://entire.io/gh/entireio/cli/trails/2c852be685c4

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Note

Medium Risk
Touches git fetch/push/ls-remote execution and auth header injection paths (including protocol/URL resolution), which can break checkpoint sync and resume flows if incorrect. Risk is mitigated by substantial new unit + integration coverage, but behavior changes around filtered fetches and HTTPS/SSH handling need careful review.

Overview
Refactors checkpoint git CLI execution into checkpoint/remote/git.go, replacing the old strategy-level token wrapper with higher-level remote.Fetch/remote.Push/remote.LsRemote helpers that always disable terminal prompts and optionally inject ENTIRE_CHECKPOINT_TOKEN via http.extraHeader for HTTPS remotes (with validation and one-time SSH warning).

Adjusts fetch behavior to better handle partial clones: metadata and resume-related fetches now explicitly suppress --filter=blob:none when blob content is required, and resume --force now skips the interactive “fetch from remote?” prompt. URL parsing/derivation is updated to preserve non-standard ports and generate correct checkpoint URLs for SSH-with-port cases.

Adds significant new coverage: unit tests for command/target extraction and push target resolution, integration tests with an in-process HTTPS git server validating authenticated push/fetch routing (including separate checkpoint remotes), plus a new integration test ensuring resume fetches full blobs even when filtered_fetches is enabled.

^{Reviewed by Cursor Bugbot for commit b3ac65b. Configure here.}

[Copilot]

Pull request overview

This PR refactors git network operations (push/fetch/ls-remote) into a dedicated checkpoint/remote helper layer (including checkpoint token injection) and adds new integration coverage for HTTPS remotes and non-standard ports.

Changes:

• Replace ad-hoc exec.Command("git", ...) usage in push/reconcile paths with checkpoint/remote wrappers (Fetch, Push, LsRemote, ResolveFetchTarget).
• Extend URL parsing/derivation to preserve non-standard ports and adjust SSH URL derivation accordingly.
• Add new integration tests for HTTPS remotes (TLS + auth header requirements) and enhance integration test environment configurability.

Reviewed changes

Copilot reviewed 15 out of 15 changed files in this pull request and generated 1 comment.

Show a summary per file

File	Description
go.mod	Promotes go-billy/v6 to a direct dependency (used by new HTTPS integration tests).
cmd/entire/cli/strategy/push_v2.go	Switches v2 ref push/fetch/ls-remote flows to checkpoint/remote wrappers.
cmd/entire/cli/strategy/push_common.go	Switches branch push/fetch logic to checkpoint/remote and removes local URL detection helper.
cmd/entire/cli/strategy/metadata_reconcile.go	Uses checkpoint/remote wrappers for ls-remote/fetch in reconcile flows.
cmd/entire/cli/strategy/checkpoint_token.go	Deletes old strategy-scoped git+token helper (logic moved/centralized).
cmd/entire/cli/strategy/checkpoint_remote_test.go	Adds checkpoint URL derivation tests for non-standard ports; removes old isURL test.
cmd/entire/cli/strategy/checkpoint_remote.go	Uses checkpoint/remote.Fetch for URL-based fetches.
cmd/entire/cli/integration_test/testenv.go	Adds ExtraEnv to pass per-test env vars to CLI subprocesses.
cmd/entire/cli/integration_test/http_remote_test.go	New HTTPS remote integration tests (token-required push + routing behavior).
cmd/entire/cli/gitremote/gitremote.go	Preserves port in parsed host (u.Host) for scheme URLs.
cmd/entire/cli/gitremote/gitremote_test.go	Adds coverage for parsing hosts with ports and standard-port behavior.
cmd/entire/cli/git_operations.go	Migrates fetch/push helpers to checkpoint/remote wrappers.
cmd/entire/cli/checkpoint/remote/util.go	Updates checkpoint URL derivation for SSH when host includes a port.
cmd/entire/cli/checkpoint/remote/git_test.go	Moves/expands tests to the remote package; adds IsURL coverage.
cmd/entire/cli/checkpoint/remote/git.go	New centralized git command wrapper layer (token injection + filtered fetches).

[pjbgf]

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