Merge remote-tracking branch 'origin/main' into codex/pr2442-resolve-conflicts

# Conflicts:
#	src/specify_cli/__init__.py
#	tests/test_authentication.py

Author: PascalThuet

CHANGELOG.md

@@ -2,6 +2,20 @@
 
 <!-- insert new changelog below this comment -->
 
+## [0.9.3] - 2026-06-03
+
+### Changed
+
+- fix: render script command hints with active agent separator (#2649)
+- chore(tests): fix ruff lint violations in tests/ (#2827)
+- fix(workflows): validate run_id in RunState.load before touching the … (#2813)
+- feat(cli): implement specify self upgrade (#2475)
+- feat(workflows): allow resume to accept updated workflow inputs (#2815)
+- catalog: rename "superpowers-bridge" to "superspec" (v1.0.1) (#2772)
+- fix(cli): force UTF-8 stdout/stderr on Windows to prevent UnicodeEncodeError (#2817)
+- fix(plan): clarify quickstart validation guide scope (#2805)
+- chore: release 0.9.2, begin 0.9.3.dev0 development (#2823)
+
 ## [0.9.2] - 2026-06-02
 
 ### Changed

pyproject.toml

@@ -1,6 +1,6 @@
 [project]
 name = "specify-cli"
-version = "0.9.3.dev0"
+version = "0.9.4.dev0"
 description = "Specify CLI, part of GitHub Spec Kit. A tool to bootstrap your projects for Spec-Driven Development (SDD)."
 requires-python = ">=3.11"
 dependencies = [

scripts/bash/check-prerequisites.sh

@@ -117,20 +117,20 @@ check_feature_branch "$CURRENT_BRANCH" "$HAS_GIT" || exit 1
 # Validate required directories and files
 if [[ ! -d "$FEATURE_DIR" ]]; then
     echo "ERROR: Feature directory not found: $FEATURE_DIR" >&2
-    echo "Run __SPECKIT_COMMAND_SPECIFY__ first to create the feature structure." >&2
+    echo "Run $(format_speckit_command specify "$REPO_ROOT") first to create the feature structure." >&2
     exit 1
 fi
 
 if [[ ! -f "$IMPL_PLAN" ]]; then
     echo "ERROR: plan.md not found in $FEATURE_DIR" >&2
-    echo "Run __SPECKIT_COMMAND_PLAN__ first to create the implementation plan." >&2
+    echo "Run $(format_speckit_command plan "$REPO_ROOT") first to create the implementation plan." >&2
     exit 1
 fi
 
 # Check for tasks.md if required
 if $REQUIRE_TASKS && [[ ! -f "$TASKS" ]]; then
     echo "ERROR: tasks.md not found in $FEATURE_DIR" >&2
-    echo "Run __SPECKIT_COMMAND_TASKS__ first to create the task list." >&2
+    echo "Run $(format_speckit_command tasks "$REPO_ROOT") first to create the task list." >&2
     exit 1
 fi
 

scripts/bash/common.sh

@@ -307,6 +307,83 @@ has_jq() {
     command -v jq >/dev/null 2>&1
 }
 
+get_invoke_separator() {
+    local repo_root="${1:-$(get_repo_root)}"
+    if [[ "${_SPECIFY_INVOKE_SEPARATOR_CACHE_REPO_ROOT:-}" == "$repo_root" && -n "${_SPECIFY_INVOKE_SEPARATOR_CACHE_VALUE:-}" ]]; then
+        printf '%s\n' "$_SPECIFY_INVOKE_SEPARATOR_CACHE_VALUE"
+        return 0
+    fi
+
+    local integration_json="$repo_root/.specify/integration.json"
+    local separator="."
+    local parsed_with_jq=0
+
+    if [[ -f "$integration_json" ]]; then
+        if command -v jq >/dev/null 2>&1; then
+            local jq_separator
+            if jq_separator=$(jq -r '(.default_integration // .integration // "") as $k | if $k == "" then "." else (.integration_settings[$k].invoke_separator // ".") end' "$integration_json" 2>/dev/null); then
+                parsed_with_jq=1
+                case "$jq_separator" in
+                    "."|"-") separator="$jq_separator" ;;
+                esac
+            fi
+        fi
+
+        if [[ "$parsed_with_jq" -eq 0 ]] && command -v python3 >/dev/null 2>&1; then
+            if separator=$(python3 - "$integration_json" <<'PY' 2>/dev/null
+import json
+import sys
+
+try:
+    with open(sys.argv[1], encoding="utf-8") as fh:
+        state = json.load(fh)
+    key = state.get("default_integration") or state.get("integration") or ""
+    settings = state.get("integration_settings")
+    separator = "."
+    if isinstance(key, str) and isinstance(settings, dict):
+        entry = settings.get(key)
+        if isinstance(entry, dict) and entry.get("invoke_separator") in {".", "-"}:
+            separator = entry["invoke_separator"]
+    print(separator)
+except Exception:
+    print(".")
+PY
+); then
+                case "$separator" in
+                    "."|"-") ;;
+                    *) separator="." ;;
+                esac
+            else
+                separator="."
+            fi
+        fi
+    fi
+
+    _SPECIFY_INVOKE_SEPARATOR_CACHE_REPO_ROOT="$repo_root"
+    _SPECIFY_INVOKE_SEPARATOR_CACHE_VALUE="$separator"
+    printf '%s\n' "$separator"
+}
+
+format_speckit_command() {
+    local command_name="$1"
+    local repo_root="${2:-$(get_repo_root)}"
+    local separator
+    if [[ "${_SPECIFY_INVOKE_SEPARATOR_CACHE_REPO_ROOT:-}" == "$repo_root" && -n "${_SPECIFY_INVOKE_SEPARATOR_CACHE_VALUE:-}" ]]; then
+        separator="$_SPECIFY_INVOKE_SEPARATOR_CACHE_VALUE"
+    else
+        separator=$(get_invoke_separator "$repo_root")
+        _SPECIFY_INVOKE_SEPARATOR_CACHE_REPO_ROOT="$repo_root"
+        _SPECIFY_INVOKE_SEPARATOR_CACHE_VALUE="$separator"
+    fi
+
+    command_name="${command_name#/}"
+    command_name="${command_name#speckit.}"
+    command_name="${command_name#speckit-}"
+    command_name="${command_name//./$separator}"
+
+    printf '/speckit%s%s\n' "$separator" "$command_name"
+}
+
 # Escape a string for safe embedding in a JSON value (fallback when jq is unavailable).
 # Handles backslash, double-quote, and JSON-required control character escapes (RFC 8259).
 json_escape() {

scripts/bash/setup-tasks.sh

@@ -35,13 +35,13 @@ fi
 
 if [[ ! -f "$IMPL_PLAN" ]]; then
     echo "ERROR: plan.md not found in $FEATURE_DIR" >&2
-    echo "Run __SPECKIT_COMMAND_PLAN__ first to create the implementation plan." >&2
+    echo "Run $(format_speckit_command plan "$REPO_ROOT") first to create the implementation plan." >&2
     exit 1
 fi
 
 if [[ ! -f "$FEATURE_SPEC" ]]; then
     echo "ERROR: spec.md not found in $FEATURE_DIR" >&2
-    echo "Run __SPECKIT_COMMAND_SPECIFY__ first to create the feature structure." >&2
+    echo "Run $(format_speckit_command specify "$REPO_ROOT") first to create the feature structure." >&2
     exit 1
 fi
 

scripts/powershell/check-prerequisites.ps1

@@ -89,20 +89,23 @@ if (-not (Test-FeatureBranch -Branch $paths.CURRENT_BRANCH -HasGit:$paths.HAS_GI
 # Validate required directories and files
 if (-not (Test-Path $paths.FEATURE_DIR -PathType Container)) {
     Write-Output "ERROR: Feature directory not found: $($paths.FEATURE_DIR)"
-    Write-Output "Run __SPECKIT_COMMAND_SPECIFY__ first to create the feature structure."
+    $specifyCommand = Format-SpecKitCommand -CommandName 'specify' -RepoRoot $paths.REPO_ROOT
+    Write-Output "Run $specifyCommand first to create the feature structure."
     exit 1
 }
 
 if (-not (Test-Path $paths.IMPL_PLAN -PathType Leaf)) {
     Write-Output "ERROR: plan.md not found in $($paths.FEATURE_DIR)"
-    Write-Output "Run __SPECKIT_COMMAND_PLAN__ first to create the implementation plan."
+    $planCommand = Format-SpecKitCommand -CommandName 'plan' -RepoRoot $paths.REPO_ROOT
+    Write-Output "Run $planCommand first to create the implementation plan."
     exit 1
 }
 
 # Check for tasks.md if required
 if ($RequireTasks -and -not (Test-Path $paths.TASKS -PathType Leaf)) {
     Write-Output "ERROR: tasks.md not found in $($paths.FEATURE_DIR)"
-    Write-Output "Run __SPECKIT_COMMAND_TASKS__ first to create the task list."
+    $tasksCommand = Format-SpecKitCommand -CommandName 'tasks' -RepoRoot $paths.REPO_ROOT
+    Write-Output "Run $tasksCommand first to create the task list."
     exit 1
 }
 

scripts/powershell/common.ps1

@@ -355,6 +355,58 @@ function Test-DirHasFiles {
     }
 }
 
+function Get-InvokeSeparator {
+    param([string]$RepoRoot = (Get-RepoRoot))
+
+    if ($null -eq $script:SpecKitInvokeSeparatorCache) {
+        $script:SpecKitInvokeSeparatorCache = @{}
+    }
+    if ($script:SpecKitInvokeSeparatorCache.ContainsKey($RepoRoot)) {
+        return $script:SpecKitInvokeSeparatorCache[$RepoRoot]
+    }
+
+    $separator = '.'
+    $integrationJson = Join-Path $RepoRoot '.specify/integration.json'
+    if (Test-Path -LiteralPath $integrationJson -PathType Leaf) {
+        try {
+            $state = Get-Content -LiteralPath $integrationJson -Raw | ConvertFrom-Json
+            $key = if ($state.default_integration) { [string]$state.default_integration } elseif ($state.integration) { [string]$state.integration } else { '' }
+            if ($key -and $state.integration_settings) {
+                $settingProperty = $state.integration_settings.PSObject.Properties[$key]
+                if ($settingProperty) {
+                    $setting = $settingProperty.Value
+                    if ($setting -and ($setting.invoke_separator -eq '.' -or $setting.invoke_separator -eq '-')) {
+                        $separator = [string]$setting.invoke_separator
+                    }
+                }
+            }
+        } catch {
+            $separator = '.'
+        }
+    }
+
+    $script:SpecKitInvokeSeparatorCache[$RepoRoot] = $separator
+    return $separator
+}
+
+function Format-SpecKitCommand {
+    param(
+        [Parameter(Mandatory = $true)][string]$CommandName,
+        [string]$RepoRoot = (Get-RepoRoot)
+    )
+
+    $separator = Get-InvokeSeparator -RepoRoot $RepoRoot
+    $name = $CommandName.TrimStart('/')
+    if ($name.StartsWith('speckit.')) {
+        $name = $name.Substring(8)
+    } elseif ($name.StartsWith('speckit-')) {
+        $name = $name.Substring(8)
+    }
+    $name = $name -replace '\.', $separator
+
+    return "/speckit$separator$name"
+}
+
 # Find a usable Python 3 executable (python3, python, or py -3).
 # Returns the command/arguments as an array, or $null if none found.
 function Get-Python3Command {

scripts/powershell/setup-tasks.ps1

@@ -28,13 +28,15 @@ if (-not (Test-FeatureJsonMatchesFeatureDir -RepoRoot $paths.REPO_ROOT -ActiveFe
 
 if (-not (Test-Path $paths.IMPL_PLAN -PathType Leaf)) {
     [Console]::Error.WriteLine("ERROR: plan.md not found in $($paths.FEATURE_DIR)")
-    [Console]::Error.WriteLine("Run __SPECKIT_COMMAND_PLAN__ first to create the implementation plan.")
+    $planCommand = Format-SpecKitCommand -CommandName 'plan' -RepoRoot $paths.REPO_ROOT
+    [Console]::Error.WriteLine("Run $planCommand first to create the implementation plan.")
     exit 1
 }
 
 if (-not (Test-Path $paths.FEATURE_SPEC -PathType Leaf)) {
     [Console]::Error.WriteLine("ERROR: spec.md not found in $($paths.FEATURE_DIR)")
-    [Console]::Error.WriteLine("Run __SPECKIT_COMMAND_SPECIFY__ first to create the feature structure.")
+    $specifyCommand = Format-SpecKitCommand -CommandName 'specify' -RepoRoot $paths.REPO_ROOT
+    [Console]::Error.WriteLine("Run $specifyCommand first to create the feature structure.")
     exit 1
 }
 

src/specify_cli/__init__.py

@@ -1626,6 +1626,7 @@ def extension_add(
     extension: str = typer.Argument(help="Extension name or path"),
     dev: bool = typer.Option(False, "--dev", help="Install from local directory"),
     from_url: Optional[str] = typer.Option(None, "--from", help="Install from custom URL"),
+    force: bool = typer.Option(False, "--force", help="Overwrite if already installed"),
     priority: int = typer.Option(10, "--priority", help="Resolution priority (lower = higher precedence, default 10)"),
 ):
     """Install an extension."""
@@ -1640,6 +1641,9 @@ def extension_add(
     manager = ExtensionManager(project_root)
     speckit_version = get_speckit_version()
 
+    if force:
+        console.print("[yellow]--force:[/yellow] Will overwrite if already installed")
+
     # Prompt for URL-based installs BEFORE the spinner so the user can
     # actually see and respond to the confirmation (the Rich status
     # spinner overwrites the typer.confirm prompt line, making it appear
@@ -1690,11 +1694,15 @@ def extension_add(
                     console.print(f"[red]Error:[/red] No extension.yml found in {source_path}")
                     raise typer.Exit(1)
 
+                if force:
+                    console.print(f"[yellow]--force:[/yellow] Installing from [cyan]{source_path}[/cyan] (will overwrite if already installed)...")
+
                 manifest = manager.install_from_directory(
                     source_path,
                     speckit_version,
                     priority=priority,
                     link_commands=True,
+                    force=force
                 )
 
             elif from_url:
@@ -1724,7 +1732,7 @@ def extension_add(
                     zip_path.write_bytes(zip_data)
 
                     # Install from downloaded ZIP
-                    manifest = manager.install_from_zip(zip_path, speckit_version, priority=priority)
+                    manifest = manager.install_from_zip(zip_path, speckit_version, priority=priority, force=force)
                 # ExtensionError covers an oversized body (via error_type) and the
                 # ValidationError/ExtensionError raised by install_from_zip; URL
                 # scheme is validated above. Catching these instead of a blanket
@@ -1741,7 +1749,9 @@ def extension_add(
                 # Try bundled extensions first (shipped with spec-kit)
                 bundled_path = _locate_bundled_extension(extension)
                 if bundled_path is not None:
-                    manifest = manager.install_from_directory(bundled_path, speckit_version, priority=priority)
+                    manifest = manager.install_from_directory(
+                        bundled_path, speckit_version, priority=priority, force=force
+                    )
                 else:
                     # Install from catalog (also resolves display names to IDs)
                     catalog = ExtensionCatalog(project_root)
@@ -1762,7 +1772,9 @@ def extension_add(
                     if resolved_id != extension:
                         bundled_path = _locate_bundled_extension(resolved_id)
                         if bundled_path is not None:
-                            manifest = manager.install_from_directory(bundled_path, speckit_version, priority=priority)
+                            manifest = manager.install_from_directory(
+                                bundled_path, speckit_version, priority=priority, force=force
+                            )
 
                     if bundled_path is None:
                         # Bundled extensions without a download URL must come from the local package
@@ -1798,7 +1810,7 @@ def extension_add(
 
                         try:
                             # Install from downloaded ZIP
-                            manifest = manager.install_from_zip(zip_path, speckit_version, priority=priority)
+                            manifest = manager.install_from_zip(zip_path, speckit_version, priority=priority, force=force)
                         finally:
                             # Clean up downloaded ZIP
                             if zip_path.exists():