// Copyright 2015 The Vanadium Authors. All rights reserved.
// Use of this source code is governed by a BSD-style
// license that can be found in the LICENSE file.

package project

import (
	"bytes"
	"encoding/xml"
	"fmt"
	"hash/fnv"
	"io"
	"io/ioutil"
	"net/http"
	"net/url"
	"os"
	"path/filepath"
	"sort"
	"strings"
	"sync"
	"time"

	"fuchsia.googlesource.com/jiri"
	"fuchsia.googlesource.com/jiri/collect"
	"fuchsia.googlesource.com/jiri/git"
	"fuchsia.googlesource.com/jiri/gitutil"
	"fuchsia.googlesource.com/jiri/googlesource"
	"fuchsia.googlesource.com/jiri/log"
	"fuchsia.googlesource.com/jiri/runutil"
)

var (
	JiriProject = "release.go.jiri"
	JiriName    = "jiri"
	JiriPackage = "fuchsia.googlesource.com/jiri"
)

var (
	// time in minutes
	DefaultHookTimeout = uint(5)
)

// CL represents a changelist.
type CL struct {
	// Author identifies the author of the changelist.
	Author string
	// Email identifies the author's email.
	Email string
	// Description holds the description of the changelist.
	Description string
}

// Manifest represents a setting used for updating the universe.
type Manifest struct {
	Imports      []Import      `xml:"imports>import"`
	LocalImports []LocalImport `xml:"imports>localimport"`
	Projects     []Project     `xml:"projects>project"`
	Hooks        []Hook        `xml:"hooks>hook"`
	XMLName      struct{}      `xml:"manifest"`
}

// ManifestFromBytes returns a manifest parsed from data, with defaults filled
// in.
func ManifestFromBytes(data []byte) (*Manifest, error) {
	m := new(Manifest)
	if err := xml.Unmarshal(data, m); err != nil {
		return nil, err
	}
	if err := m.fillDefaults(); err != nil {
		return nil, err
	}
	return m, nil
}

// ManifestFromFile returns a manifest parsed from the contents of filename,
// with defaults filled in.
//
// Note that unlike ProjectFromFile, ManifestFromFile does not convert project
// paths to absolute paths because it's possible to load a manifest with a
// specific root directory different from jirix.Root.  The usual way to load a
// manifest is through LoadManifest, which does absolutize the paths, and uses
// the correct root directory.
func ManifestFromFile(jirix *jiri.X, filename string) (*Manifest, error) {
	data, err := jirix.NewSeq().ReadFile(filename)
	if err != nil {
		return nil, err
	}
	m, err := ManifestFromBytes(data)
	if err != nil {
		return nil, fmt.Errorf("invalid manifest %s: %v", filename, err)
	}
	return m, nil
}

var (
	newlineBytes       = []byte("\n")
	emptyImportsBytes  = []byte("\n  <imports></imports>\n")
	emptyProjectsBytes = []byte("\n  <projects></projects>\n")
	emptyHooksBytes    = []byte("\n  <hooks></hooks>\n")

	endElemBytes        = []byte("/>\n")
	endImportBytes      = []byte("></import>\n")
	endLocalImportBytes = []byte("></localimport>\n")
	endProjectBytes     = []byte("></project>\n")
	endHookBytes        = []byte("></hook>\n")

	endImportSoloBytes  = []byte("></import>")
	endProjectSoloBytes = []byte("></project>")
	endElemSoloBytes    = []byte("/>")
)

// deepCopy returns a deep copy of Manifest.
func (m *Manifest) deepCopy() *Manifest {
	x := new(Manifest)
	x.Imports = append([]Import(nil), m.Imports...)
	x.LocalImports = append([]LocalImport(nil), m.LocalImports...)
	x.Projects = append([]Project(nil), m.Projects...)
	x.Hooks = append([]Hook(nil), m.Hooks...)
	return x
}

// ToBytes returns m as serialized bytes, with defaults unfilled.
func (m *Manifest) ToBytes() ([]byte, error) {
	m = m.deepCopy() // avoid changing manifest when unfilling defaults.
	if err := m.unfillDefaults(); err != nil {
		return nil, err
	}
	data, err := xml.MarshalIndent(m, "", "  ")
	if err != nil {
		return nil, fmt.Errorf("manifest xml.Marshal failed: %v", err)
	}
	// It's hard (impossible?) to get xml.Marshal to elide some of the empty
	// elements, or produce short empty elements, so we post-process the data.
	data = bytes.Replace(data, emptyImportsBytes, newlineBytes, -1)
	data = bytes.Replace(data, emptyProjectsBytes, newlineBytes, -1)
	data = bytes.Replace(data, emptyHooksBytes, newlineBytes, -1)
	data = bytes.Replace(data, endImportBytes, endElemBytes, -1)
	data = bytes.Replace(data, endLocalImportBytes, endElemBytes, -1)
	data = bytes.Replace(data, endProjectBytes, endElemBytes, -1)
	data = bytes.Replace(data, endHookBytes, endElemBytes, -1)
	if !bytes.HasSuffix(data, newlineBytes) {
		data = append(data, '\n')
	}
	return data, nil
}

func safeWriteFile(jirix *jiri.X, filename string, data []byte) error {
	tmp := filename + ".tmp"
	return jirix.NewSeq().
		MkdirAll(filepath.Dir(filename), 0755).
		WriteFile(tmp, data, 0644).
		Rename(tmp, filename).
		Done()
}

type LocalConfig struct {
	Ignore   bool     `xml:"ignore"`
	NoUpdate bool     `xml:"no-update"`
	NoRebase bool     `xml:"no-rebase"`
	XMLName  struct{} `xml:"config"`
}

// Reads localConfig from given reader. Returns incorrect bytes
func (lc *LocalConfig) ReadFrom(r io.Reader) (int64, error) {
	return 1, xml.NewDecoder(r).Decode(lc)
}

func LocalConfigFromFile(jirix *jiri.X, filename string) (LocalConfig, error) {
	var lc LocalConfig
	f, err := os.Open(filename)
	if os.IsNotExist(err) {
		return lc, nil
	} else if err != nil {
		return lc, err
	}
	_, err = lc.ReadFrom(f)
	return lc, err
}

// Writes the localConfig to given writer. Returns incorrect bytes
func (lc *LocalConfig) WriteTo(writer io.Writer) (int64, error) {
	encoder := xml.NewEncoder(writer)
	encoder.Indent("", " ")
	return 1, encoder.Encode(lc)
}

func (lc *LocalConfig) ToFile(jirix *jiri.X, filename string) error {
	if err := os.MkdirAll(filepath.Dir(filename), 0755); err != nil {
		return err
	}
	writer, err := os.Create(filename)
	if err != nil {
		return err
	}
	defer writer.Close()
	_, err = lc.WriteTo(writer)
	return err
}

func WriteLocalConfig(jirix *jiri.X, project Project, lc LocalConfig) error {
	configFile := filepath.Join(project.Path, jiri.ProjectMetaDir, jiri.ProjectConfigFile)
	return lc.ToFile(jirix, configFile)
}

// Hook represents a hook to run
type Hook struct {
	Name        string   `xml:"name,attr"`
	Action      string   `xml:"action,attr"`
	ProjectName string   `xml:"project,attr"`
	XMLName     struct{} `xml:"hook"`
	ActionPath  string   `xml:"-"`
}

// HookKey is a unique string for a project.
type HookKey string

type Hooks map[HookKey]Hook

// Key returns the unique HookKey for the hook.
func (h Hook) Key() HookKey {
	return MakeHookKey(h.Name, h.ProjectName)
}

// MakeHookKey returns the hook key, given the hook and project name.
func MakeHookKey(name, projectName string) HookKey {
	return HookKey(name + KeySeparator + projectName)
}

func (h *Hook) validate() error {
	if strings.Contains(h.Name, KeySeparator) {
		return fmt.Errorf("bad hook: name cannot contain %q: %+v", KeySeparator, *h)
	}
	if strings.Contains(h.ProjectName, KeySeparator) {
		return fmt.Errorf("bad hook: project cannot contain %q: %+v", KeySeparator, *h)
	}
	return nil
}

// ProjectsByPath implements the Sort interface. It sorts Projects by
// the Path field.
type ProjectsByPath []Project

func (projects ProjectsByPath) Len() int {
	return len(projects)
}
func (projects ProjectsByPath) Swap(i, j int) {
	projects[i], projects[j] = projects[j], projects[i]
}
func (projects ProjectsByPath) Less(i, j int) bool {
	return projects[i].Path+string(filepath.Separator) < projects[j].Path+string(filepath.Separator)
}

// HooksByName implements the Sort interface. It sorts Hooks by the Name
// field.
type HooksByName []Hook

func (hooks HooksByName) Len() int {
	return len(hooks)
}
func (hooks HooksByName) Swap(i, j int) {
	hooks[i], hooks[j] = hooks[j], hooks[i]
}
func (hooks HooksByName) Less(i, j int) bool {
	return hooks[i].Name < hooks[j].Name
}

// ToFile writes the manifest m to a file with the given filename, with
// defaults unfilled and all project paths relative to the jiri root.
func (m *Manifest) ToFile(jirix *jiri.X, filename string) error {
	// Replace absolute paths with relative paths to make it possible to move
	// the root directory locally.
	projects := []Project{}
	for _, project := range m.Projects {
		if err := project.relativizePaths(jirix.Root); err != nil {
			return err
		}
		projects = append(projects, project)
	}
	// Sort the projects and hooks to ensure that the output of "jiri
	// snapshot" is deterministic.  Sorting the hooks by name allows
	// some control over the ordering of the hooks in case that is
	// necessary.
	sort.Sort(ProjectsByPath(projects))
	m.Projects = projects
	sort.Sort(HooksByName(m.Hooks))
	data, err := m.ToBytes()
	if err != nil {
		return err
	}
	return safeWriteFile(jirix, filename, data)
}

func (m *Manifest) fillDefaults() error {
	for index := range m.Imports {
		if err := m.Imports[index].fillDefaults(); err != nil {
			return err
		}
	}
	for index := range m.LocalImports {
		if err := m.LocalImports[index].validate(); err != nil {
			return err
		}
	}
	for index := range m.Projects {
		if err := m.Projects[index].fillDefaults(); err != nil {
			return err
		}
	}
	return nil
}

func (m *Manifest) unfillDefaults() error {
	for index := range m.Imports {
		if err := m.Imports[index].unfillDefaults(); err != nil {
			return err
		}
	}
	for index := range m.LocalImports {
		if err := m.LocalImports[index].validate(); err != nil {
			return err
		}
	}
	for index := range m.Projects {
		if err := m.Projects[index].unfillDefaults(); err != nil {
			return err
		}
	}
	return nil
}

type MultiError []error

func (m MultiError) Error() string {
	s := []string{}
	n := 0
	for _, e := range m {
		if e != nil {
			s = append(s, e.Error())
			n++
		}
	}
	sort.Strings(s)
	switch n {
	case 0:
		return "(0 errors)"
	case 1:
		return s[0]
	case 2:
		return s[0] + " (and 1 other error not shown here)"
	}
	return fmt.Sprintf("%s (and %d other errors not shown here)", s[0], n-1)
}

// Import represents a remote manifest import.
type Import struct {
	// Manifest file to use from the remote manifest project.
	Manifest string `xml:"manifest,attr,omitempty"`
	// Name is the name of the remote manifest project, used to determine the
	// project key.
	Name string `xml:"name,attr,omitempty"`
	// Remote is the remote manifest project to import.
	Remote string `xml:"remote,attr,omitempty"`
	// RemoteBranch is the name of the remote branch to track.
	RemoteBranch string `xml:"remotebranch,attr,omitempty"`
	// Root path, prepended to all project paths specified in the manifest file.
	Root    string   `xml:"root,attr,omitempty"`
	XMLName struct{} `xml:"import"`
}

func (i *Import) fillDefaults() error {
	if i.RemoteBranch == "" {
		i.RemoteBranch = "master"
	}
	return i.validate()
}

func (i *Import) unfillDefaults() error {
	if i.RemoteBranch == "master" {
		i.RemoteBranch = ""
	}
	return i.validate()
}

func (i *Import) validate() error {
	if i.Manifest == "" || i.Remote == "" {
		return fmt.Errorf("bad import: both manifest and remote must be specified")
	}
	return nil
}

func (i *Import) toProject(path string) (Project, error) {
	p := Project{
		Name:         i.Name,
		Path:         path,
		Remote:       i.Remote,
		RemoteBranch: i.RemoteBranch,
	}
	err := p.fillDefaults()
	return p, err
}

// ProjectKey returns the unique ProjectKey for the imported project.
func (i *Import) ProjectKey() ProjectKey {
	return MakeProjectKey(i.Name, i.Remote)
}

// projectKeyFileName returns a file name based on the ProjectKey.
func (i *Import) projectKeyFileName() string {
	// TODO(toddw): Disallow weird characters from project names.
	hash := fnv.New64a()
	hash.Write([]byte(i.ProjectKey()))
	return fmt.Sprintf("%s_%x", i.Name, hash.Sum64())
}

// cycleKey returns a key based on the remote and manifest, used for
// cycle-detection.  It's only valid for new-style remote imports; it's empty
// for the old-style local imports.
func (i *Import) cycleKey() string {
	if i.Remote == "" {
		return ""
	}
	// We don't join the remote and manifest with a slash or any other url-safe
	// character, since that might not be unique.  E.g.
	//   remote:   https://foo.com/a/b    remote:   https://foo.com/a
	//   manifest: c                      manifest: b/c
	// In both cases, the key would be https://foo.com/a/b/c.
	return i.Remote + " + " + i.Manifest
}

// LocalImport represents a local manifest import.
type LocalImport struct {
	// Manifest file to import from.
	File    string   `xml:"file,attr,omitempty"`
	XMLName struct{} `xml:"localimport"`
}

func (i *LocalImport) validate() error {
	if i.File == "" {
		return fmt.Errorf("bad localimport: must specify file: %+v", *i)
	}
	return nil
}

// ProjectKey is a unique string for a project.
type ProjectKey string

// MakeProjectKey returns the project key, given the project name and remote.
func MakeProjectKey(name, remote string) ProjectKey {
	return ProjectKey(name + KeySeparator + remote)
}

// KeySeparator is a reserved string used in ProjectKeys and HookKeys.
// It cannot occur in Project or Hook names.
const KeySeparator = "="

// ProjectKeys is a slice of ProjectKeys implementing the Sort interface.
type ProjectKeys []ProjectKey

func (pks ProjectKeys) Len() int           { return len(pks) }
func (pks ProjectKeys) Less(i, j int) bool { return string(pks[i]) < string(pks[j]) }
func (pks ProjectKeys) Swap(i, j int)      { pks[i], pks[j] = pks[j], pks[i] }

// Project represents a jiri project.
type Project struct {
	// Name is the project name.
	Name string `xml:"name,attr,omitempty"`
	// Path is the path used to store the project locally. Project
	// manifest uses paths that are relative to the root directory.
	// When a manifest is parsed (e.g. in RemoteProjects), the program
	// logic converts the relative paths to an absolute paths, using
	// the current root as a prefix.
	Path string `xml:"path,attr,omitempty"`
	// Remote is the project remote.
	Remote string `xml:"remote,attr,omitempty"`
	// RemoteBranch is the name of the remote branch to track.
	RemoteBranch string `xml:"remotebranch,attr,omitempty"`
	// Revision is the revision the project should be advanced to during "jiri
	// update".  If Revision is set, RemoteBranch will be ignored.  If Revision
	// is not set, "HEAD" is used as the default.
	Revision string `xml:"revision,attr,omitempty"`
	// HistoryDepth is the depth flag passed to git clone and git fetch
	// commands. It is used to limit downloading large histories for large
	// projects.
	HistoryDepth int `xml:"historydepth,attr,omitempty"`
	// GerritHost is the gerrit host where project CLs will be sent.
	GerritHost string `xml:"gerrithost,attr,omitempty"`
	// GitHooks is a directory containing git hooks that will be installed for
	// this project.
	GitHooks string `xml:"githooks,attr,omitempty"`

	XMLName struct{} `xml:"project"`

	// This is used to store computed key. This is useful when remote and
	// local projects are same but have different name or remote
	ComputedKey ProjectKey `xml:"-"`

	// This stores the local configuration file for the project
	LocalConfig LocalConfig `xml:"-"`
}

// ProjectFromFile returns a project parsed from the contents of filename,
// with defaults filled in and all paths absolute.
func ProjectFromFile(jirix *jiri.X, filename string) (*Project, error) {
	data, err := jirix.NewSeq().ReadFile(filename)
	if err != nil {
		return nil, err
	}

	p := new(Project)
	if err := xml.Unmarshal(data, p); err != nil {
		return nil, err
	}
	if err := p.fillDefaults(); err != nil {
		return nil, err
	}
	p.absolutizePaths(jirix.Root)
	return p, nil
}

// ToFile writes the project p to a file with the given filename, with defaults
// unfilled and all paths relative to the jiri root.
func (p Project) ToFile(jirix *jiri.X, filename string) error {
	if err := p.unfillDefaults(); err != nil {
		return err
	}
	// Replace absolute paths with relative paths to make it possible to move
	// the root directory locally.
	if err := p.relativizePaths(jirix.Root); err != nil {
		return err
	}
	data, err := xml.Marshal(p)
	if err != nil {
		return fmt.Errorf("project xml.Marshal failed: %v", err)
	}
	// Same logic as Manifest.ToBytes, to make the output more compact.
	data = bytes.Replace(data, endProjectSoloBytes, endElemSoloBytes, -1)
	if !bytes.HasSuffix(data, newlineBytes) {
		data = append(data, '\n')
	}
	return safeWriteFile(jirix, filename, data)
}

// absolutizePaths makes all relative paths absolute by prepending basepath.
func (p *Project) absolutizePaths(basepath string) {
	if p.Path != "" && !filepath.IsAbs(p.Path) {
		p.Path = filepath.Join(basepath, p.Path)
	}
	if p.GitHooks != "" && !filepath.IsAbs(p.GitHooks) {
		p.GitHooks = filepath.Join(basepath, p.GitHooks)
	}
}

// relativizePaths makes all absolute paths relative to basepath.
func (p *Project) relativizePaths(basepath string) error {
	if filepath.IsAbs(p.Path) {
		relPath, err := filepath.Rel(basepath, p.Path)
		if err != nil {
			return err
		}
		p.Path = relPath
	}
	if filepath.IsAbs(p.GitHooks) {
		relGitHooks, err := filepath.Rel(basepath, p.GitHooks)
		if err != nil {
			return err
		}
		p.GitHooks = relGitHooks
	}
	return nil
}

// Key returns the unique ProjectKey for the project.
func (p Project) Key() ProjectKey {
	if p.ComputedKey == "" {
		p.ComputedKey = MakeProjectKey(p.Name, p.Remote)
	}
	return p.ComputedKey
}

func (p *Project) fillDefaults() error {
	if p.RemoteBranch == "" {
		p.RemoteBranch = "master"
	}
	if p.Revision == "" {
		p.Revision = "HEAD"
	}
	return p.validate()
}

func (p *Project) unfillDefaults() error {
	if p.RemoteBranch == "master" {
		p.RemoteBranch = ""
	}
	if p.Revision == "HEAD" {
		p.Revision = ""
	}
	return p.validate()
}

func (p *Project) validate() error {
	if strings.Contains(p.Name, KeySeparator) {
		return fmt.Errorf("bad project: name cannot contain %q: %+v", KeySeparator, *p)
	}
	return nil
}

// CacheDirPath returns a generated path to a directory that can be used as a reference repo
// for the given project.
func (p *Project) CacheDirPath(jirix *jiri.X) (string, error) {
	if jirix.Cache != "" {
		url, err := url.Parse(p.Remote)
		if err != nil {
			return "", err
		}
		dirname := url.Host + strings.Replace(strings.Replace(url.Path, "-", "--", -1), "/", "-", -1)
		referenceDir := filepath.Join(jirix.Cache, dirname)
		return referenceDir, nil
	}
	return "", nil
}

func (p *Project) writeJiriRevisionFiles(jirix *jiri.X) error {
	g := git.NewGit(p.Path)
	file := filepath.Join(p.Path, ".git", "JIRI_HEAD")
	head := "ref: refs/remotes/origin/master"
	var err error
	if p.Revision != "" {
		head, err = g.CurrentRevisionForRef(p.Revision)
		if err != nil {
			return fmt.Errorf("Cannot find revision for ref %q for project %s(%s): %s", p.Revision, p.Name, p.Path, err)
		}
	} else if p.RemoteBranch != "" {
		head = "ref: refs/remotes/origin/" + p.RemoteBranch
	}
	if err := safeWriteFile(jirix, file, []byte(head)); err != nil {
		return err
	}
	file = filepath.Join(p.Path, ".git", "JIRI_LAST_BASE")
	if rev, err := g.CurrentRevision(); err != nil {
		return fmt.Errorf("Cannot find current revision for for project %s(%s): %s", p.Name, p.Path, err)
	} else {
		return safeWriteFile(jirix, file, []byte(rev))
	}
}

func isPathDir(dir string) bool {
	if dir != "" {
		if fi, err := os.Stat(dir); err == nil {
			return fi.IsDir()
		}
	}
	return false
}

// Projects maps ProjectKeys to Projects.
type Projects map[ProjectKey]Project

// toSlice returns a slice of Projects in the Projects map.
func (ps Projects) toSlice() []Project {
	var pSlice []Project
	for _, p := range ps {
		pSlice = append(pSlice, p)
	}
	return pSlice
}

// Find returns all projects in Projects with the given key or name.
func (ps Projects) Find(keyOrName string) Projects {
	projects := Projects{}
	if p, ok := ps[ProjectKey(keyOrName)]; ok {
		projects[ProjectKey(keyOrName)] = p
	} else {
		for key, p := range ps {
			if keyOrName == p.Name {
				projects[key] = p
			}
		}
	}
	return projects
}

// FindUnique returns the project in Projects with the given key or name, and
// returns an error if none or multiple matching projects are found.
func (ps Projects) FindUnique(keyOrName string) (Project, error) {
	var p Project
	projects := ps.Find(keyOrName)
	if len(projects) == 0 {
		return p, fmt.Errorf("no projects found with key or name %q", keyOrName)
	}
	if len(projects) > 1 {
		return p, fmt.Errorf("multiple projects found with name %q", keyOrName)
	}
	// Return the only project in projects.
	for _, project := range projects {
		p = project
	}
	return p, nil
}

// ScanMode determines whether LocalProjects should scan the local filesystem
// for projects (FullScan), or optimistically assume that the local projects
// will match those in the manifest (FastScan).
type ScanMode bool

const (
	FastScan = ScanMode(false)
	FullScan = ScanMode(true)
)

func (sm ScanMode) String() string {
	if sm == FastScan {
		return "FastScan"
	} else {
		return "FullScan"
	}
}

// Update represents an update of projects as a map from
// project names to a collections of commits.
type Update map[string][]CL

// CreateSnapshot creates a manifest that encodes the current state of
// HEAD of all projects and writes this snapshot out to the given file.
func CreateSnapshot(jirix *jiri.X, file string, localManifest bool) error {
	jirix.TimerPush("create snapshot")
	defer jirix.TimerPop()

	manifest := Manifest{}

	// Add all local projects to manifest.
	localProjects, err := LocalProjects(jirix, FullScan)
	if err != nil {
		return err
	}
	for _, project := range localProjects {
		manifest.Projects = append(manifest.Projects, project)
	}

	_, hooks, err := LoadManifestFile(jirix, jirix.JiriManifestFile(), localProjects, localManifest)
	if err != nil {
		return err
	}
	for _, hook := range hooks {
		manifest.Hooks = append(manifest.Hooks, hook)
	}

	return manifest.ToFile(jirix, file)
}

// CheckoutSnapshot updates project state to the state specified in the given
// snapshot file.  Note that the snapshot file must not contain remote imports.
func CheckoutSnapshot(jirix *jiri.X, snapshot string, gc bool, runHookTimeout uint) error {
	// Find all local projects.
	scanMode := FastScan
	if gc {
		scanMode = FullScan
	}
	localProjects, err := LocalProjects(jirix, scanMode)
	if err != nil {
		return err
	}
	remoteProjects, hooks, err := LoadSnapshotFile(jirix, snapshot)
	if err != nil {
		return err
	}
	if err := updateProjects(jirix, localProjects, remoteProjects, hooks, gc, runHookTimeout, false /*rebaseUntracked*/, false /*rebaseAll*/, true /*snapshot*/); err != nil {
		return err
	}
	return WriteUpdateHistorySnapshot(jirix, snapshot, false)
}

// LoadSnapshotFile loads the specified snapshot manifest.  If the snapshot
// manifest contains a remote import, an error will be returned.
func LoadSnapshotFile(jirix *jiri.X, snapshot string) (Projects, Hooks, error) {
	if _, err := os.Stat(snapshot); err != nil {
		if !os.IsNotExist(err) {
			return nil, nil, err
		}
		u, err := url.ParseRequestURI(snapshot)
		if err != nil {
			return nil, nil, fmt.Errorf("%q is neither a URL nor a valid file path", snapshot)
		}
		jirix.Logger.Infof("Getting snapshot from URL %q", u)
		resp, err := http.Get(u.String())
		if err != nil {
			return nil, nil, fmt.Errorf("Error getting snapshot from URL %q: %v", u, err)
		}
		defer resp.Body.Close()
		tmpFile, err := ioutil.TempFile("", "snapshot")
		if err != nil {
			return nil, nil, fmt.Errorf("Error creating tmp file: %v", err)
		}
		snapshot = tmpFile.Name()
		defer os.Remove(snapshot)
		if _, err = io.Copy(tmpFile, resp.Body); err != nil {
			return nil, nil, fmt.Errorf("Error writing to tmp file: %v", err)
		}

	}
	return LoadManifestFile(jirix, snapshot, nil, false)
}

// CurrentProjectKey gets the key of the current project from the current
// directory by reading the jiri project metadata located in a directory at the
// root of the current repository.
func CurrentProjectKey(jirix *jiri.X) (ProjectKey, error) {
	topLevel, err := gitutil.New(jirix).TopLevel()
	if err != nil {
		return "", nil
	}
	metadataDir := filepath.Join(topLevel, jiri.ProjectMetaDir)
	if _, err := jirix.NewSeq().Stat(metadataDir); err == nil {
		project, err := ProjectFromFile(jirix, filepath.Join(metadataDir, jiri.ProjectMetaFile))
		if err != nil {
			return "", err
		}
		return project.Key(), nil
	}
	return "", nil
}

// setProjectRevisions sets the current project revision for
// each project as found on the filesystem
func setProjectRevisions(jirix *jiri.X, projects Projects) (Projects, error) {
	jirix.TimerPush("set revisions")
	defer jirix.TimerPop()
	for name, project := range projects {
		g := git.NewGit(project.Path)
		revision, err := g.CurrentRevision()
		if err != nil {
			return nil, fmt.Errorf("Can't get revision for project %q: %v", project.Name, err)
		}
		project.Revision = revision
		projects[name] = project
	}
	return projects, nil
}

// LocalProjects returns projects on the local filesystem.  If all projects in
// the manifest exist locally and scanMode is set to FastScan, then only the
// projects in the manifest that exist locally will be returned.  Otherwise, a
// full scan of the filesystem will take place, and all found projects will be
// returned.
func LocalProjects(jirix *jiri.X, scanMode ScanMode) (Projects, error) {
	jirix.TimerPush("local projects")
	defer jirix.TimerPop()

	latestSnapshot := jirix.UpdateHistoryLatestLink()
	latestSnapshotExists, err := jirix.NewSeq().IsFile(latestSnapshot)
	if err != nil {
		return nil, err
	}
	if scanMode == FastScan && latestSnapshotExists {
		// Fast path: Full scan was not requested, and we have a snapshot containing
		// the latest update.  Check that the projects listed in the snapshot exist
		// locally.  If not, then fall back on the slow path.
		//
		// An error will be returned if the snapshot contains remote imports, since
		// that would cause an infinite loop; we'd need local projects, in order to
		// load the snapshot, in order to determine the local projects.
		snapshotProjects, _, err := LoadSnapshotFile(jirix, latestSnapshot)
		if err != nil {
			return nil, err
		}
		projectsExist, err := projectsExistLocally(jirix, snapshotProjects)
		if err != nil {
			return nil, err
		}
		if projectsExist {
			for key, p := range snapshotProjects {
				localConfigFile := filepath.Join(p.Path, jiri.ProjectMetaDir, jiri.ProjectConfigFile)
				if p.LocalConfig, err = LocalConfigFromFile(jirix, localConfigFile); err != nil {
					return nil, fmt.Errorf("Error while reading config for project %s(%s): %s", p.Name, p.Path, err)
				}
				snapshotProjects[key] = p
			}
			return setProjectRevisions(jirix, snapshotProjects)
		}
	}

	// Slow path: Either full scan was requested, or projects exist in manifest
	// that were not found locally.  Do a recursive scan of all projects under
	// the root.
	projects := Projects{}
	jirix.TimerPush("scan fs")
	err = findLocalProjects(jirix, jirix.Root, projects)
	jirix.TimerPop()
	if err != nil {
		return nil, err
	}
	return setProjectRevisions(jirix, projects)
}

// projectsExistLocally returns true iff all the given projects exist on the
// local filesystem.
// Note that this may return true even if there are projects on the local
// filesystem not included in the provided projects argument.
func projectsExistLocally(jirix *jiri.X, projects Projects) (bool, error) {
	jirix.TimerPush("match manifest")
	defer jirix.TimerPop()
	for _, p := range projects {
		isLocal, err := isLocalProject(jirix, p.Path)
		if err != nil {
			return false, err
		}
		if !isLocal {
			return false, nil
		}
	}
	return true, nil
}

// LoadManifest loads the manifest, starting with the .jiri_manifest file,
// resolving remote and local imports.  Returns the projects specified by
// the manifest.
//
// WARNING: LoadManifest cannot be run multiple times in parallel!  It invokes
// git operations which require a lock on the filesystem.  If you see errors
// about ".git/index.lock exists", you are likely calling LoadManifest in
// parallel.
func LoadManifest(jirix *jiri.X) (Projects, Hooks, error) {
	jirix.TimerPush("load manifest")
	defer jirix.TimerPop()
	file := jirix.JiriManifestFile()
	localProjects, err := LocalProjects(jirix, FastScan)
	if err != nil {
		return nil, nil, err
	}
	return LoadManifestFile(jirix, file, localProjects, false)
}

// LoadManifestFile loads the manifest starting with the given file, resolving
// remote and local imports.  Local projects are used to resolve remote imports;
// if nil, encountering any remote import will result in an error.
//
// WARNING: LoadManifestFile cannot be run multiple times in parallel!  It
// invokes git operations which require a lock on the filesystem.  If you see
// errors about ".git/index.lock exists", you are likely calling
// LoadManifestFile in parallel.
func LoadManifestFile(jirix *jiri.X, file string, localProjects Projects, localManifest bool) (Projects, Hooks, error) {
	ld := newManifestLoader(localProjects, false)
	if err := ld.Load(jirix, "", file, "", localManifest); err != nil {
		return nil, nil, err
	}
	return ld.Projects, ld.Hooks, nil
}

func LoadUpdatedManifest(jirix *jiri.X, localProjects Projects, localManifest bool) (Projects, Hooks, string, error) {
	jirix.TimerPush("load updated manifest")
	defer jirix.TimerPop()
	ld := newManifestLoader(localProjects, true)
	if err := ld.Load(jirix, "", jirix.JiriManifestFile(), "", localManifest); err != nil {
		return nil, nil, ld.TmpDir, err
	}
	return ld.Projects, ld.Hooks, ld.TmpDir, nil
}

func matchLocalWithRemote(localProjects, remoteProjects Projects) {
	localKeysNotInRemote := make(map[ProjectKey]bool)
	for key, _ := range localProjects {
		if _, ok := remoteProjects[key]; !ok {
			localKeysNotInRemote[key] = true
		}
	}
	// no stray local projects
	if len(localKeysNotInRemote) == 0 {
		return
	}

	for remoteKey, remoteProject := range remoteProjects {
		if _, ok := localProjects[remoteKey]; !ok {
			for localKey, _ := range localKeysNotInRemote {
				localProject := localProjects[localKey]
				// Also do matching for name when we support remote rename
				if localProject.Remote == remoteProject.Remote && localProject.Path == remoteProject.Path {
					delete(localProjects, localKey)
					delete(localKeysNotInRemote, localKey)
					// Change local project key
					localProject.ComputedKey = remoteKey
					localProjects[remoteKey] = localProject
					// no more stray local projects
					if len(localKeysNotInRemote) == 0 {
						return
					}
					break
				}
			}
		}
	}
}

// UpdateUniverse updates all local projects and tools to match the remote
// counterparts identified in the manifest. Optionally, the 'gc' flag can be
// used to indicate that local projects that no longer exist remotely should be
// removed.
func UpdateUniverse(jirix *jiri.X, gc bool, localManifest bool, rebaseUntracked bool, rebaseAll bool, runHookTimeout uint) (e error) {
	jirix.Logger.Infof("Updating all projects")

	updateFn := func(scanMode ScanMode) error {
		jirix.TimerPush(fmt.Sprintf("update universe: %s", scanMode))
		defer jirix.TimerPop()

		// Find all local projects.
		localProjects, err := LocalProjects(jirix, scanMode)
		if err != nil {
			return err
		}

		// Determine the set of remote projects and match them up with the locals.
		remoteProjects, hooks, tmpLoadDir, err := LoadUpdatedManifest(jirix, localProjects, localManifest)
		matchLocalWithRemote(localProjects, remoteProjects)

		// Make sure we clean up the tmp dir used to load remote manifest projects.
		if tmpLoadDir != "" {
			s := jirix.NewSeq()
			defer collect.Error(func() error { return s.RemoveAll(tmpLoadDir).Done() }, &e)
		}

		if err != nil {
			return err
		}

		// Actually update the projects.
		return updateProjects(jirix, localProjects, remoteProjects, hooks, gc, runHookTimeout, rebaseUntracked, rebaseAll, false /*snapshot*/)
	}

	// Specifying gc should always force a full filesystem scan.
	if gc {
		return updateFn(FullScan)
	}

	// Attempt a fast update, which uses the latest snapshot to avoid doing
	// a filesystem scan.  Sometimes the latest snapshot can have problems, so if
	// any errors come up, fallback to the slow path.
	err := updateFn(FastScan)
	if err != nil {
		if err2 := updateFn(FullScan); err2 != nil {
			return fmt.Errorf("%v, %v", err, err2)
		}
	}

	return nil
}

// WriteUpdateHistorySnapshot creates a snapshot of the current state of all
// projects and writes it to the update history directory.
func WriteUpdateHistorySnapshot(jirix *jiri.X, snapshotPath string, localManifest bool) error {
	seq := jirix.NewSeq()
	snapshotFile := filepath.Join(jirix.UpdateHistoryDir(), time.Now().Format(time.RFC3339))
	if err := CreateSnapshot(jirix, snapshotFile, localManifest); err != nil {
		return err
	}

	latestLink, secondLatestLink := jirix.UpdateHistoryLatestLink(), jirix.UpdateHistorySecondLatestLink()

	// If the "latest" symlink exists, point the "second-latest" symlink to its value.
	latestLinkExists, err := seq.IsFile(latestLink)
	if err != nil {
		return err
	}
	if latestLinkExists {
		latestFile, err := os.Readlink(latestLink)
		if err != nil {
			return err
		}
		if err := seq.RemoveAll(secondLatestLink).Symlink(latestFile, secondLatestLink).Done(); err != nil {
			return err
		}
	}

	// Point the "latest" update history symlink to the new snapshot file.  Try
	// to keep the symlink relative, to make it easy to move or copy the entire
	// update_history directory.
	if rel, err := filepath.Rel(filepath.Dir(latestLink), snapshotFile); err == nil {
		snapshotFile = rel
	}
	return seq.RemoveAll(latestLink).Symlink(snapshotFile, latestLink).Done()
}

// CleanupProjects restores the given jiri projects back to their detached
// heads, resets to the specified revision if there is one, and gets rid of
// all the local changes. If "cleanupBranches" is true, it will also delete all
// the non-master branches.
func CleanupProjects(jirix *jiri.X, localProjects Projects, cleanupBranches bool) (e error) {
	remoteProjects, _, err := LoadManifest(jirix)
	if err != nil {
		return err
	}
	cleanLimit := make(chan struct{}, jirix.Jobs)
	errs := make(chan error, len(localProjects))
	var wg sync.WaitGroup
	for _, local := range localProjects {
		wg.Add(1)
		cleanLimit <- struct{}{}
		go func(local Project) {
			defer func() { <-cleanLimit }()
			defer wg.Done()

			if local.LocalConfig.Ignore || local.LocalConfig.NoUpdate {
				jirix.Logger.Warningf("Project %s(%s) won't be updated due to it's local-config\n\n", local.Name, local.Path)
				return
			}
			remote, ok := remoteProjects[local.Key()]
			if !ok {
				jirix.Logger.Errorf("Not cleaning project %q(%v). It was not found in manifest\n\n", local.Name, local.Path)
				jirix.IncrementFailures()
				return
			}
			if err := resetLocalProject(jirix, local, remote, cleanupBranches); err != nil {
				errs <- fmt.Errorf("Erorr cleaning project %q: %v", local.Name, err)
			}
		}(local)
	}
	wg.Wait()
	close(errs)

	multiErr := make(MultiError, 0)
	for err := range errs {
		multiErr = append(multiErr, err)
	}
	if len(multiErr) != 0 {
		return multiErr
	}
	return nil
}

// resetLocalProject checks out the detached_head, cleans up untracked files
// and uncommitted changes, and optionally deletes all the branches except master.
func resetLocalProject(jirix *jiri.X, local, remote Project, cleanupBranches bool) error {
	scm := gitutil.New(jirix, gitutil.RootDirOpt(local.Path))
	g := git.NewGit(local.Path)
	headRev, err := GetHeadRevision(jirix, remote)
	if err != nil {
		return err
	} else {
		if headRev, err = g.CurrentRevisionForRef(headRev); err != nil {
			return fmt.Errorf("Cannot find revision for ref %q for project %q: %v", headRev, local.Name, err)
		}
	}
	if local.Revision != headRev {
		if err := scm.CheckoutBranch(headRev, gitutil.DetachOpt(true), gitutil.ForceOpt(true)); err != nil {
			return err
		}
	}
	// Cleanup changes.
	if err := scm.RemoveUntrackedFiles(); err != nil {
		return err
	}
	if !cleanupBranches {
		return nil
	}

	// Delete all the other branches.
	branches, _, err := g.GetBranches()
	if err != nil {
		return fmt.Errorf("Cannot get branches for project %q: %v", local.Name, err)
	}
	for _, branch := range branches {
		if err := scm.DeleteBranch(branch, gitutil.ForceOpt(true)); err != nil {
			return err
		}
	}
	return nil
}

// isLocalProject returns true if there is a project at the given path.
func isLocalProject(jirix *jiri.X, path string) (bool, error) {
	// Existence of a metadata directory is how we know we've found a
	// Jiri-maintained project.
	metadataDir := filepath.Join(path, jiri.ProjectMetaDir)
	if _, err := jirix.NewSeq().Stat(metadataDir); err != nil {
		if runutil.IsNotExist(err) {
			return false, nil
		}
		return false, err
	}
	return true, nil
}

// ProjectAtPath returns a Project struct corresponding to the project at the
// path in the filesystem.
func ProjectAtPath(jirix *jiri.X, path string) (Project, error) {
	metadataFile := filepath.Join(path, jiri.ProjectMetaDir, jiri.ProjectMetaFile)
	project, err := ProjectFromFile(jirix, metadataFile)
	if err != nil {
		return Project{}, err
	}
	localConfigFile := filepath.Join(path, jiri.ProjectMetaDir, jiri.ProjectConfigFile)
	if project.LocalConfig, err = LocalConfigFromFile(jirix, localConfigFile); err != nil {
		return *project, fmt.Errorf("Error while reading config for project %s(%s): %s", project.Name, path, err)
	}
	return *project, nil
}

// findLocalProjects scans the filesystem for all projects.  Note that project
// directories can be nested recursively.
func findLocalProjects(jirix *jiri.X, path string, projects Projects) error {
	log := make(chan string, 1)
	var wg sync.WaitGroup
	wg.Add(2)
	go func() {
		defer wg.Done()
		for str := range log {
			jirix.Logger.Warningf("%s", str)
		}
	}()
	errs := make(chan error, 1)
	multiErr := make(MultiError, 0)
	go func() {
		defer wg.Done()
		for err := range errs {
			multiErr = append(multiErr, err)
		}
	}()
	var pwg sync.WaitGroup
	limit := make(chan struct{}, jirix.Jobs)
	var processPath func(path string)
	projectsMutex := &sync.Mutex{}
	processPath = func(path string) {
		defer pwg.Done()
		limit <- struct{}{}
		defer func() { <-limit }()
		isLocal, err := isLocalProject(jirix, path)
		if err != nil {
			errs <- fmt.Errorf("Error while processing path %q: %v", path, err)
			return
		}
		if isLocal {
			project, err := ProjectAtPath(jirix, path)
			if err != nil {
				errs <- fmt.Errorf("Error while processing path %q: %v", path, err)
				return
			}
			if path != project.Path {
				logs := []string{fmt.Sprintf("Project %q has path %s, but was found in %s.", project.Name, project.Path, path),
					fmt.Sprintf("jiri will treat it as a stale project. To remove this warning please delete this or move it out of your root folder\n\n")}
				log <- strings.Join(logs, "\n")
				return
			}
			projectsMutex.Lock()
			if p, ok := projects[project.Key()]; ok {
				projectsMutex.Unlock()
				errs <- fmt.Errorf("name conflict: both %s and %s contain project with key %v", p.Path, project.Path, project.Key())
				return
			}
			projects[project.Key()] = project
			projectsMutex.Unlock()
		}

		// Recurse into all the sub directories.
		fileInfos, err := ioutil.ReadDir(path)
		if err != nil {
			errs <- fmt.Errorf("cannot read dir %q: %v", path, err)
			return
		}
		for _, fileInfo := range fileInfos {
			if fileInfo.IsDir() && !strings.HasPrefix(fileInfo.Name(), ".") {
				pwg.Add(1)
				go processPath(filepath.Join(path, fileInfo.Name()))
			}
		}
	}
	pwg.Add(1)
	processPath(path)
	pwg.Wait()
	close(errs)
	close(log)
	wg.Wait()
	if len(multiErr) != 0 {
		return multiErr
	}
	return nil
}

func fetchAll(jirix *jiri.X, project Project) error {
	if project.Remote == "" {
		return fmt.Errorf("project %q does not have a remote", project.Name)
	}
	g := git.NewGit(project.Path)
	if err := g.SetRemoteUrl("origin", project.Remote); err != nil {
		return err
	}
	if project.HistoryDepth > 0 {
		return gitutil.New(jirix, gitutil.RootDirOpt(project.Path)).Fetch("origin", gitutil.PruneOpt(true),
			gitutil.DepthOpt(project.HistoryDepth), gitutil.UpdateShallowOpt(true))
	} else {
		return gitutil.New(jirix, gitutil.RootDirOpt(project.Path)).Fetch("origin", gitutil.PruneOpt(true))
	}
}

func GetHeadRevision(jirix *jiri.X, project Project) (string, error) {
	if err := project.fillDefaults(); err != nil {
		return "", err
	}
	// Having a specific revision trumps everything else.
	if project.Revision != "HEAD" {
		return project.Revision, nil
	}
	return "origin/" + project.RemoteBranch, nil
}

func checkoutHeadRevision(jirix *jiri.X, project Project, forceCheckout bool) error {
	revision, err := GetHeadRevision(jirix, project)
	if err != nil {
		return err
	}
	git := gitutil.New(jirix, gitutil.RootDirOpt(project.Path))
	return git.CheckoutBranch(revision, gitutil.DetachOpt(true), gitutil.ForceOpt(forceCheckout))
}

func tryRebase(jirix *jiri.X, project Project, branch string) (bool, error) {
	scm := gitutil.New(jirix, gitutil.RootDirOpt(project.Path))
	if err := scm.Rebase(branch); err != nil {
		err := scm.RebaseAbort()
		return false, err
	}
	return true, nil
}

// syncProjectMaster checks out latest detached head if project is on one
// else it rebases current branch onto its tracking branch
func syncProjectMaster(jirix *jiri.X, project Project, state ProjectState, rebaseUntracked bool, rebaseAll bool, snapshot bool) error {
	cwd, err := os.Getwd()
	if err != nil {
		return err
	}
	relativePath, err := filepath.Rel(cwd, project.Path)
	if err != nil {
		// Just use the full path if an error occurred.
		relativePath = project.Path
	}
	if project.LocalConfig.Ignore || project.LocalConfig.NoUpdate {
		jirix.Logger.Warningf("Project %s(%s) won't be updated due to it's local-config\n\n", project.Name, relativePath)
		return nil
	}

	scm := gitutil.New(jirix, gitutil.RootDirOpt(project.Path))
	g := git.NewGit(project.Path)

	if uncommitted, err := g.HasUncommittedChanges(); err != nil {
		return fmt.Errorf("Cannot get uncommited changes for project %q: %s", project.Name, err)
	} else if uncommitted {
		msg := fmt.Sprintf("Project %s(%s) contains uncommited changes.", project.Name, relativePath)
		msg += fmt.Sprintf("\nCommit or discard the changes and try again.\n\n")
		jirix.Logger.Errorf(msg)
		jirix.IncrementFailures()
		return nil
	}

	if state.CurrentBranch.Name == "" || snapshot { // detached head
		if err := checkoutHeadRevision(jirix, project, false); err != nil {
			revision, err2 := GetHeadRevision(jirix, project)
			if err2 != nil {
				return err2
			}
			gitCommand := jirix.Color.Yellow("git -C %q checkout --detach %s", relativePath, revision)
			msg := fmt.Sprintf("For project %q, not able to checkout latest, error: %s", project.Name, err)
			msg += fmt.Sprintf("\nPlease checkout manually use: '%s'\n\n", gitCommand)
			jirix.Logger.Errorf(msg)
			jirix.IncrementFailures()
		}
		if snapshot || !rebaseAll {
			return nil
		}
		// This should run after program exit so that detached head can be restored
		defer func() {
			if err := checkoutHeadRevision(jirix, project, false); err != nil {
				// This should not happen, panic
				panic(fmt.Sprintf("for project %s(%s), not able to checkout head revision: %s", project.Name, relativePath, err))
			}
		}()
	} else if rebaseAll {
		// This should run after program exit so that original branch can be restored
		defer func() {
			if err := scm.CheckoutBranch(state.CurrentBranch.Name); err != nil {
				// This should not happen, panic
				panic(fmt.Sprintf("for project %s(%s), not able to checkout branch %q: %s", project.Name, relativePath, state.CurrentBranch.Name, err))
			}
		}()
	}

	// if rebase flag is false, merge fast forward current branch
	if !rebaseAll && state.CurrentBranch.Tracking != nil {
		tracking := state.CurrentBranch.Tracking
		if tracking.Revision == state.CurrentBranch.Revision {
			return nil
		}
		if project.LocalConfig.NoRebase {
			jirix.Logger.Warningf("For project %s(%s), not merging your local branches due to it's local-config\n\n", project.Name, relativePath)
			return nil
		}
		if err := scm.Merge(tracking.Name, gitutil.FfOnlyOpt(true)); err != nil {
			msg := fmt.Sprintf("For project %s(%s), not able to fast forward your local branch %q to %q\n\n", project.Name, relativePath, state.CurrentBranch.Name, tracking.Name)
			jirix.Logger.Errorf(msg)
			jirix.IncrementFailures()
		}
		return nil
	}

	branches := state.Branches
	if !rebaseAll {
		branches = []BranchState{state.CurrentBranch}
	}
	rebaseUntrackedMessage := false
	headRevision, err := GetHeadRevision(jirix, project)
	if err != nil {
		return err
	}
	branchesContainingHead, err := scm.ListBranchesContainingRef(headRevision)
	if err != nil {
		return err
	}
	for _, branch := range branches {
		if branch.Tracking != nil { // tracked branch
			if branch.Revision == branch.Tracking.Revision {
				continue
			}
			if project.LocalConfig.NoRebase {
				jirix.Logger.Warningf("For project %s(%s), not rebasing your local branches due to it's local-config\n\n", project.Name, relativePath)
				break
			}

			if err := scm.CheckoutBranch(branch.Name); err != nil {
				msg := fmt.Sprintf("For project %s(%s), not able to rebase your local branch %q onto %q", project.Name, relativePath, branch.Name, branch.Tracking.Name)
				msg += "\nPlease do it manually\n\n"
				jirix.Logger.Errorf(msg)
				jirix.IncrementFailures()
				continue
			}
			rebaseSuccess, err := tryRebase(jirix, project, branch.Tracking.Name)
			if err != nil {
				return err
			}
			if rebaseSuccess {
				jirix.Logger.Debugf("For project %q, rebased your local branch %q on %q", project.Name, branch.Name, branch.Tracking.Name)
			} else {
				msg := fmt.Sprintf("For project %s(%s), not able to rebase your local branch %q onto %q", project.Name, relativePath, branch.Name, branch.Tracking.Name)
				msg += "\nPlease do it manually\n\n"
				jirix.Logger.Errorf(msg)
				jirix.IncrementFailures()
				continue
			}
		} else {
			if branchesContainingHead[branch.Name] {
				continue
			}
			if rebaseUntracked {
				if project.LocalConfig.NoRebase {
					jirix.Logger.Warningf("For project %s(%s), not rebasing your local branches due to it's local-config\n\n", project.Name, relativePath)
					break
				}

				if err := scm.CheckoutBranch(branch.Name); err != nil {
					msg := fmt.Sprintf("For project %s(%s), not able to rebase your untracked branch %q onto JIRI_HEAD.", project.Name, relativePath, branch.Name)
					msg += "\nPlease do it manually\n\n"
					jirix.Logger.Errorf(msg)
					jirix.IncrementFailures()
					continue
				}
				rebaseSuccess, err := tryRebase(jirix, project, headRevision)
				if err != nil {
					return err
				}
				if rebaseSuccess {
					jirix.Logger.Debugf("For project %q, rebased your untracked branch %q on %q", project.Name, branch.Name, headRevision)
				} else {
					msg := fmt.Sprintf("For project %s(%s), not able to rebase your untracked branch %q onto JIRI_HEAD.", project.Name, relativePath, branch.Name)
					msg += "\nPlease do it manually\n\n"
					jirix.Logger.Errorf(msg)
					jirix.IncrementFailures()
					continue
				}
			} else if !rebaseUntrackedMessage {
				// Post this message only once
				rebaseUntrackedMessage = true
				gitCommand := jirix.Color.Yellow("git -C %q checkout %s && git -C %q rebase %s", relativePath, branch.Name, relativePath, headRevision)
				msg := fmt.Sprintf("For Project %q, branch %q does not track any remote branch.", project.Name, branch.Name)
				msg += fmt.Sprintf("\nTo rebase it update with -rebase-untracked flag, or to rebase it manually run")
				msg += fmt.Sprintf("\n%s\n\n", gitCommand)
				jirix.Logger.Warningf(msg)
				continue
			}
		}
	}
	return nil
}

// newManifestLoader returns a new manifest loader.  The localProjects are used
// to resolve remote imports; if nil, encountering any remote import will result
// in an error.  If update is true, remote manifest import projects that don't
// exist locally are cloned under TmpDir, and inserted into localProjects.
//
// If update is true, remote changes to manifest projects will be fetched, and
// manifest projects that don't exist locally will be created in temporary
// directories, and added to localProjects.
func newManifestLoader(localProjects Projects, update bool) *loader {
	return &loader{
		Projects:      make(Projects),
		Hooks:         make(Hooks),
		localProjects: localProjects,
		update:        update,
		manifests:     make(map[string]bool),
	}
}

type loader struct {
	Projects      Projects
	Hooks         Hooks
	TmpDir        string
	localProjects Projects
	update        bool
	cycleStack    []cycleInfo
	manifests     map[string]bool
}

type cycleInfo struct {
	file, key string
}

// loadNoCycles checks for cycles in imports.  There are two types of cycles:
//   file - Cycle in the paths of manifest files in the local filesystem.
//   key  - Cycle in the remote manifests specified by remote imports.
//
// Example of file cycles.  File A imports file B, and vice versa.
//     file=manifest/A              file=manifest/B
//     <manifest>                   <manifest>
//       <localimport file="B"/>      <localimport file="A"/>
//     </manifest>                  </manifest>
//
// Example of key cycles.  The key consists of "remote/manifest", e.g.
//   https://vanadium.googlesource.com/manifest/v2/default
// In the example, key x/A imports y/B, and vice versa.
//     key=x/A                               key=y/B
//     <manifest>                            <manifest>
//       <import remote="y" manifest="B"/>     <import remote="x" manifest="A"/>
//     </manifest>                           </manifest>
//
// The above examples are simple, but the general strategy is demonstrated.  We
// keep a single stack for both files and keys, and push onto each stack before
// running the recursive read or update function, and pop the stack when the
// function is done.  If we see a duplicate on the stack at any point, we know
// there's a cycle.  Note that we know the file for both local and remote
// imports, but we only know the key for remote imports; the key for local
// imports is empty.
//
// A more complex case would involve a combination of local and remote imports,
// using the "root" attribute to change paths on the local filesystem.  In this
// case the key will eventually expose the cycle.
func (ld *loader) loadNoCycles(jirix *jiri.X, root, file, cycleKey string, localManifest bool) error {
	info := cycleInfo{file, cycleKey}
	for _, c := range ld.cycleStack {
		switch {
		case file == c.file:
			return fmt.Errorf("import cycle detected in local manifest files: %q", append(ld.cycleStack, info))
		case cycleKey == c.key && cycleKey != "":
			return fmt.Errorf("import cycle detected in remote manifest imports: %q", append(ld.cycleStack, info))
		}
	}
	ld.cycleStack = append(ld.cycleStack, info)
	if err := ld.load(jirix, root, file, localManifest); err != nil {
		return err
	}
	ld.cycleStack = ld.cycleStack[:len(ld.cycleStack)-1]
	return nil
}

// shortFileName returns the relative path if file is relative to root,
// otherwise returns the file name unchanged.
func shortFileName(root, file string) string {
	if p := root + string(filepath.Separator); strings.HasPrefix(file, p) {
		return file[len(p):]
	}
	return file
}

func (ld *loader) Load(jirix *jiri.X, root, file, cycleKey string, localManifest bool) error {
	jirix.TimerPush("load " + shortFileName(jirix.Root, file))
	defer jirix.TimerPop()
	return ld.loadNoCycles(jirix, root, file, cycleKey, localManifest)
}

func (ld *loader) load(jirix *jiri.X, root, file string, localManifest bool) error {
	if ld.manifests[file] {
		return nil
	}
	ld.manifests[file] = true
	m, err := ManifestFromFile(jirix, file)
	if err != nil {
		return err
	}
	// Process remote imports.
	for _, remote := range m.Imports {
		nextRoot := filepath.Join(root, remote.Root)
		remote.Name = filepath.Join(nextRoot, remote.Name)
		key := remote.ProjectKey()
		p, ok := ld.localProjects[key]
		if !ok {
			if !ld.update || localManifest {
				jirix.Logger.Warningf("import %q not found locally, getting from server.\n\n", remote.Name)
			}
			// The remote manifest project doesn't exist locally.  Clone it into a
			// temp directory, and add it to ld.localProjects.
			if ld.TmpDir == "" {
				if ld.TmpDir, err = ioutil.TempDir("", "jiri-load"); err != nil {
					return fmt.Errorf("TempDir() failed: %v", err)
				}
			}
			path := filepath.Join(ld.TmpDir, remote.projectKeyFileName())
			if p, err = remote.toProject(path); err != nil {
				return err
			}
			if err := jirix.NewSeq().MkdirAll(path, 0755).Done(); err != nil {
				return err
			}
			if err := gitutil.New(jirix).Clone(p.Remote, path, gitutil.NoCheckoutOpt(true)); err != nil {
				return err
			}
			p.Revision = "HEAD"
			p.RemoteBranch = remote.RemoteBranch
			if err := checkoutHeadRevision(jirix, p, false); err != nil {
				return fmt.Errorf("Not able to checkout head for %s(%s): %v", p.Name, p.Path, err)
			}
			ld.localProjects[key] = p
		}
		// Reset the project to its specified branch and load the next file.  Note
		// that we call load() recursively, so multiple files may be loaded by
		// resetAndLoad.
		p.Revision = "HEAD"
		p.RemoteBranch = remote.RemoteBranch
		nextFile := filepath.Join(p.Path, remote.Manifest)
		if err := ld.resetAndLoad(jirix, nextRoot, nextFile, remote.cycleKey(), p, localManifest); err != nil {
			return err
		}
	}
	// Process local imports.
	for _, local := range m.LocalImports {
		// TODO(toddw): Add our invariant check that the file is in the same
		// repository as the current remote import repository.
		nextFile := filepath.Join(filepath.Dir(file), local.File)
		if err := ld.Load(jirix, root, nextFile, "", localManifest); err != nil {
			return err
		}
	}

	hookMap := make(map[string][]*Hook)

	for idx, _ := range m.Hooks {
		hook := &m.Hooks[idx]
		if err := hook.validate(); err != nil {
			return err
		}
		hookMap[hook.ProjectName] = append(hookMap[hook.ProjectName], hook)
	}

	// Collect projects.
	for _, project := range m.Projects {
		// Make paths absolute by prepending <root>.
		project.absolutizePaths(filepath.Join(jirix.Root, root))

		if hooks, ok := hookMap[project.Name]; ok {
			for _, hook := range hooks {
				hook.ActionPath = project.Path
			}
		}

		// Prepend the root to the project name.  This will be a noop if the import is not rooted.
		project.Name = filepath.Join(root, project.Name)
		key := project.Key()
		if dup, ok := ld.Projects[key]; ok && dup != project {
			// TODO(toddw): Tell the user the other conflicting file.
			return fmt.Errorf("duplicate project %q found in %v", key, shortFileName(jirix.Root, file))
		}
		ld.Projects[key] = project
	}

	for _, hook := range m.Hooks {
		if hook.ActionPath == "" {
			return fmt.Errorf("invalid hook \"%v\" for project \"%v\"", hook.Name, hook.ProjectName)
		}
		key := hook.Key()
		ld.Hooks[key] = hook
	}
	return nil
}

func (ld *loader) resetAndLoad(jirix *jiri.X, root, file, cycleKey string, project Project, localManifest bool) (e error) {
	if localManifest {
		return ld.Load(jirix, root, file, cycleKey, localManifest)
	}

	// Reset the local branch to what's specified on the project.  We only
	// fetch on updates; non-updates just perform the reset.
	if ld.update {
		if err := fetchAll(jirix, project); err != nil {
			return fmt.Errorf("Fetch failed for project(%v), %v", project.Path, err)
		}
	}

	scm := gitutil.New(jirix, gitutil.RootDirOpt(project.Path))
	g := git.NewGit(project.Path)
	var currentRevision string
	var err error
	if scm.IsOnBranch() {
		currentRevision, err = scm.CurrentBranchName()
	} else {
		currentRevision, err = g.CurrentRevision()
	}
	if err != nil {
		return err
	}
	stashed, err := scm.Stash()
	if err != nil {
		return err
	}
	// After running the function, checkout the original branch,
	// and stash pop if necessary.
	defer collect.Error(func() error {
		if err := scm.CheckoutBranch(currentRevision); err != nil {
			return err
		}
		if stashed {
			return scm.StashPop()
		}
		return nil
	}, &e)
	if err := checkoutHeadRevision(jirix, project, false); err != nil {
		return fmt.Errorf("Not able to checkout head for %s(%s): %v", project.Name, project.Path, err)
	}
	return ld.Load(jirix, root, file, cycleKey, localManifest)
}

// groupByGoogleSourceHosts returns a map of googlesource host to a Projects
// map where all project remotes come from that host.
func groupByGoogleSourceHosts(ps Projects) map[string]Projects {
	m := make(map[string]Projects)
	for _, p := range ps {
		if !googlesource.IsGoogleSourceRemote(p.Remote) {
			continue
		}
		u, err := url.Parse(p.Remote)
		if err != nil {
			continue
		}
		host := u.Scheme + "://" + u.Host
		if _, ok := m[host]; !ok {
			m[host] = Projects{}
		}
		m[host][p.Key()] = p
	}
	return m
}

// getRemoteHeadRevisions attempts to get the repo statuses from remote for
// projects at HEAD so we can detect when a local project is already
// up-to-date.
func getRemoteHeadRevisions(jirix *jiri.X, remoteProjects Projects) Projects {
	projectsAtHead := Projects{}
	ps := make(Projects)
	for k, rp := range remoteProjects {
		ps[k] = rp
		if rp.Revision == "HEAD" {
			projectsAtHead[rp.Key()] = rp
		}
	}
	gsHostsMap := groupByGoogleSourceHosts(projectsAtHead)
	for host, projects := range gsHostsMap {
		// Create a slice of branch names, with duplicates removed.
		branchesMap := make(map[string]bool)
		for _, p := range projects {
			branchesMap[p.RemoteBranch] = true
		}
		branches := make([]string, 0, len(branchesMap))
		for b, _ := range branchesMap {
			branches = append(branches, b)
		}

		repoStatuses, err := googlesource.GetRepoStatuses(jirix, host, branches)
		if err != nil {
			// Log the error but don't fail.
			fmt.Fprintf(jirix.Stderr(), "Error fetching repo statuses from remote: %v\n", err)
			continue
		}
		for _, p := range projects {
			u, err := url.Parse(p.Remote)
			if err != nil {
				continue
			}
			status, ok := repoStatuses[strings.Trim(u.Path, "/")]
			if !ok {
				continue
			}
			rev, ok := status.Branches[p.RemoteBranch]
			if !ok || rev == "" {
				continue
			}
			rp := ps[p.Key()]
			rp.Revision = rev
			ps[p.Key()] = rp
		}
	}
	return ps
}

// updateCache creates the cache or updates it if already present.
func updateCache(jirix *jiri.X, remoteProjects Projects) error {
	if jirix.Cache == "" {
		return nil
	}

	errs := make(chan error, len(remoteProjects))
	var wg sync.WaitGroup
	processingPath := make(map[string]bool)
	fetchLimit := make(chan struct{}, jirix.Jobs)
	for _, project := range remoteProjects {
		if cacheDirPath, err := project.CacheDirPath(jirix); err == nil {
			if processingPath[cacheDirPath] {
				continue
			}
			processingPath[cacheDirPath] = true
			wg.Add(1)
			fetchLimit <- struct{}{}
			if err := project.fillDefaults(); err != nil {
				errs <- err
				continue
			}
			go func(dir, remote string, depth int, branch string) {
				defer func() { <-fetchLimit }()
				defer wg.Done()
				if isPathDir(dir) {
					// Cache already present, update it
					// TODO : update this after implementing FetchAll using g
					if _, err := os.Stat(filepath.Join(dir, "shallow")); err == nil {
						// Shallow cache, fetch only manifest tracked remote branch
						refspec := fmt.Sprintf("+refs/heads/%s:refs/heads/%s", branch, branch)
						if err := gitutil.New(jirix, gitutil.RootDirOpt(dir)).FetchRefspec("origin", refspec, gitutil.PruneOpt(true)); err != nil {
							errs <- err
						}
						return
					}
					if err := gitutil.New(jirix, gitutil.RootDirOpt(dir)).Fetch("origin", gitutil.PruneOpt(true)); err != nil {
						errs <- err
					}
					return
				} else {
					// Create cache
					// TODO : If we in future need to support two projects with same remote url,
					// one with shallow checkout and one with full, we should create two caches
					if err := gitutil.New(jirix).CloneMirror(remote, dir, depth); err != nil {
						errs <- err
					}
					return

				}
			}(cacheDirPath, project.Remote, project.HistoryDepth, project.RemoteBranch)
		} else {
			errs <- err
		}
	}
	wg.Wait()
	close(errs)

	multiErr := make(MultiError, 0)
	for err := range errs {
		multiErr = append(multiErr, err)
	}
	if len(multiErr) != 0 {
		return multiErr
	}

	return nil
}

func fetchLocalProjects(jirix *jiri.X, localProjects, remoteProjects Projects) error {
	fetchLimit := make(chan struct{}, jirix.Jobs)
	errs := make(chan error, len(localProjects))
	var wg sync.WaitGroup
	for key, project := range localProjects {
		if r, ok := remoteProjects[key]; ok {
			if project.LocalConfig.Ignore || project.LocalConfig.NoUpdate {
				jirix.Logger.Warningf("Not updating remotes for project %s(%s) due to its local-config\n\n", project.Name, project.Path)
				continue
			}
			wg.Add(1)
			fetchLimit <- struct{}{}
			project.HistoryDepth = r.HistoryDepth
			go func(project Project) {
				defer func() { <-fetchLimit }()
				defer wg.Done()
				if err := fetchAll(jirix, project); err != nil {
					errs <- fmt.Errorf("fetch failed for %v: %v", project.Name, err)
					return
				}
			}(project)
		}
	}
	wg.Wait()
	close(errs)

	multiErr := make(MultiError, 0)
	for err := range errs {
		multiErr = append(multiErr, err)
	}
	if len(multiErr) != 0 {
		return multiErr
	}
	return nil
}

// This function creates worktree and runs create operation in parallel
func runCreateOperations(jirix *jiri.X, ops []createOperation) MultiError {
	count := len(ops)
	if count == 0 {
		return nil
	}

	type workTree struct {
		// dir is the top level directory in which operations will be performed
		dir string
		// op is an ordered list of operations that must be performed serially,
		// affecting dir
		ops []operation
		// after contains a tree of work that must be performed after ops
		after map[string]*workTree
	}
	head := &workTree{
		dir:   "",
		ops:   []operation{},
		after: make(map[string]*workTree),
	}

	for _, op := range ops {

		node := head
		parts := strings.Split(op.Project().Path, string(filepath.Separator))
		// walk down the file path tree, creating any work tree nodes as required
		for _, part := range parts {
			if part == "" {
				continue
			}
			next, ok := node.after[part]
			if !ok {
				next = &workTree{
					dir:   part,
					ops:   []operation{},
					after: make(map[string]*workTree),
				}
				node.after[part] = next
			}
			node = next
		}
		node.ops = append(node.ops, op)
	}

	workQueue := make(chan *workTree, count)
	errs := make(chan error, count)
	var wg sync.WaitGroup
	processTree := func(tree *workTree) {
		defer wg.Done()
		for _, op := range tree.ops {
			jirix.Logger.Debugf("%v", op)
			if err := op.Run(jirix); err != nil {
				errs <- fmt.Errorf("Creating project %q: %v", op.Project().Name, err)
				return
			}
		}
		for _, v := range tree.after {
			wg.Add(1)
			workQueue <- v
		}
	}
	wg.Add(1)
	workQueue <- head
	for i := uint(0); i < jirix.Jobs; i++ {
		go func() {
			for tree := range workQueue {
				processTree(tree)
			}
		}()
	}
	wg.Wait()
	close(workQueue)
	close(errs)

	var multiErr MultiError
	for err := range errs {
		multiErr = append(multiErr, err)
	}
	return multiErr
}

type PathTrie struct {
	current  string
	children map[string]*PathTrie
}

func NewPathTrie() *PathTrie {
	return &PathTrie{
		current:  "",
		children: make(map[string]*PathTrie),
	}
}
func (p *PathTrie) Contains(path string) bool {
	parts := strings.Split(path, string(filepath.Separator))
	node := p
	for _, part := range parts {
		if part == "" {
			continue
		}
		child, ok := node.children[part]
		if !ok {
			return false
		}
		node = child
	}
	return true
}

func (p *PathTrie) Insert(path string) {
	parts := strings.Split(path, string(filepath.Separator))
	node := p
	for _, part := range parts {
		if part == "" {
			continue
		}
		child, ok := node.children[part]
		if !ok {
			child = &PathTrie{
				current:  part,
				children: make(map[string]*PathTrie),
			}
			node.children[part] = child
		}
		node = child
	}
}

func runDeleteOperations(jirix *jiri.X, ops []deleteOperation) error {
	notDeleted := NewPathTrie()
	for _, op := range ops {
		if !op.gc {
			jirix.Logger.Debugf("%s", op)
			if err := op.Run(jirix); err != nil {
				return fmt.Errorf("Deleting project %q: %s", op.Project().Name, err)
			}
			continue
		}
		if notDeleted.Contains(op.Project().Path) {
			// not deleting project, add it to trie
			notDeleted.Insert(op.source)
			rmCommand := jirix.Color.Yellow("rm -rf %q", op.source)
			msg := fmt.Sprintf("Project %q won't be deleted because of its sub project(s)", op.project.Name)
			msg += fmt.Sprintf("\nIf you no longer need it, invoke '%s'\n\n", rmCommand)
			jirix.Logger.Warningf(msg)
			continue
		}
		jirix.Logger.Debugf("%s", op)
		if err := op.Run(jirix); err != nil {
			return fmt.Errorf("Deleting project %q: %s", op.Project().Name, err)
		}
		if _, err := os.Stat(op.source); err == nil {
			// project not deleted, add it to trie
			notDeleted.Insert(op.source)
		} else if err != nil && !os.IsNotExist(err) {
			return fmt.Errorf("Checking if %q exists", op.source)
		}
	}
	return nil
}

func runMoveOperations(jirix *jiri.X, ops []moveOperation) error {
	parentSrcPath := ""
	parentDestPath := ""
	for _, op := range ops {
		if parentSrcPath != "" && strings.HasPrefix(op.source, parentSrcPath) {
			op.source = filepath.Join(parentDestPath, strings.Replace(op.source, parentSrcPath, "", 1))
		} else {
			parentSrcPath = op.source
			parentDestPath = op.destination
		}
		jirix.Logger.Debugf("%s", op)
		if err := op.Run(jirix); err != nil {
			return fmt.Errorf("Moving and updating project %q: %s", op.Project().Name, err)
		}
	}
	return nil
}

func runCommonOperations(jirix *jiri.X, ops operations) error {
	for _, op := range ops {
		jirix.Logger.Debugf("%s", op)
		if err := op.Run(jirix); err != nil {
			return fmt.Errorf("Updating project %q: %s", op.Project().Name, err)
		}
	}
	return nil
}

func updateProjects(jirix *jiri.X, localProjects, remoteProjects Projects, hooks Hooks, gc bool, runHookTimeout uint, rebaseUntracked bool, rebaseAll bool, snapshot bool) error {
	jirix.TimerPush("update projects")
	defer jirix.TimerPop()

	jirix.TimerPush("Fetch local projects and get remote revisions")
	errs := make(chan error)
	states := make(map[ProjectKey]*ProjectState, len(localProjects))
	go func() {
		jirix.TimerPush("update cache")
		if err := updateCache(jirix, remoteProjects); err != nil {
			errs <- err
			return
		}
		jirix.TimerPop()
		jirix.TimerPush("fetch local projects")
		if err := fetchLocalProjects(jirix, localProjects, remoteProjects); err != nil {
			errs <- err
			return
		}
		jirix.TimerPop()
		jirix.TimerPush("get project states")
		s, err := GetProjectStates(jirix, localProjects, false)
		if err != nil {
			errs <- err
			return
		}
		jirix.TimerPop()
		for k, v := range s {
			states[k] = v
		}
		errs <- nil
	}()
	var ps Projects
	go func() {
		ps = getRemoteHeadRevisions(jirix, remoteProjects)
		errs <- nil
	}()
	multiErr := make(MultiError, 0)
	for i := 1; i <= 2; i++ {
		if err := <-errs; err != nil {
			multiErr = append(multiErr, err)
		}
	}
	jirix.TimerPop()
	if len(multiErr) != 0 {
		return multiErr
	}
	ops := computeOperations(localProjects, ps, states, gc, rebaseUntracked, rebaseAll, snapshot)
	moveOperations := []moveOperation{}
	deleteOperations := []deleteOperation{}
	updateOperations := operations{}
	createOperations := []createOperation{}
	nullOperations := operations{}
	updates := newFsUpdates()
	for _, op := range ops {
		if err := op.Test(jirix, updates); err != nil {
			return err
		}
		switch o := op.(type) {
		case deleteOperation:
			deleteOperations = append(deleteOperations, o)
		case moveOperation:
			moveOperations = append(moveOperations, o)
		case updateOperation:
			updateOperations = append(updateOperations, o)
		case createOperation:
			createOperations = append(createOperations, o)
		case nullOperation:
			nullOperations = append(nullOperations, o)
		}
	}
	if err := runDeleteOperations(jirix, deleteOperations); err != nil {
		return err
	}
	if err := runMoveOperations(jirix, moveOperations); err != nil {
		return err
	}
	if err := runCommonOperations(jirix, updateOperations); err != nil {
		return err
	}
	if err := runCreateOperations(jirix, createOperations); err != nil {
		return err
	}
	if err := runCommonOperations(jirix, nullOperations); err != nil {
		return err
	}
	jirix.TimerPush("jiri revision files")
	for _, project := range ps {
		if !(project.LocalConfig.Ignore || project.LocalConfig.NoUpdate) {
			project.writeJiriRevisionFiles(jirix)
		}
	}
	jirix.TimerPop()
	if err := runHooks(jirix, ops, hooks, runHookTimeout); err != nil {
		return err
	}
	return applyGitHooks(jirix, ops)
}

// runHooks runs all hooks for the given operations.
func runHooks(jirix *jiri.X, ops []operation, hooks Hooks, runHookTimeout uint) error {
	jirix.TimerPush("run hooks")
	defer jirix.TimerPop()
	type result struct {
		outFile *os.File
		errFile *os.File
		err     error
	}
	ch := make(chan result)
	tmpDir, err := ioutil.TempDir("", "run-hooks")
	if err != nil {
		return fmt.Errorf("not able to create tmp dir: %v", err)
	}
	defer os.RemoveAll(tmpDir)
	// Hack until sequence is changed to use logger or is removed
	showHookOutput := jirix.Logger.LoggerLevel >= log.DebugLevel
	for _, hook := range hooks {
		jirix.Logger.Infof("running hook(%v) for project %q", hook.Name, hook.ProjectName)
		go func(hook Hook) {
			outFile, err := ioutil.TempFile(tmpDir, hook.Name+"-out")
			if err != nil {
				ch <- result{nil, nil, err}
				return
			}
			errFile, err := ioutil.TempFile(tmpDir, hook.Name+"-err")
			if err != nil {
				ch <- result{nil, nil, err}
				return
			}

			jirix.Logger.Capture(outFile, errFile).Debugf("output for hook(%v) for project %q", hook.Name, hook.ProjectName)
			jirix.Logger.Capture(outFile, errFile).Errorf("Error for hook(%v) for project %q\n", hook.Name, hook.ProjectName)
			// Hack until sequence is changesd to use logger or is removed
			s := jirix.NewSeq().Verbose(showHookOutput).CaptureAll(outFile, errFile)
			if err := s.Dir(hook.ActionPath).Timeout(time.Duration(runHookTimeout) * time.Minute).Last(filepath.Join(hook.ActionPath, hook.Action)); err != nil {
				ch <- result{outFile, errFile, err}
				return
			}
			ch <- result{outFile, errFile, nil}
		}(hook)

	}
	multiErr := make(MultiError, 0)
	for range hooks {
		out := <-ch
		defer func() {
			if out.outFile != nil {
				out.outFile.Close()
			}
			if out.errFile != nil {
				out.errFile.Close()
			}
		}()
		if out.err != nil && runutil.IsTimeout(out.err) {
			jirix.Logger.Errorf("Timeout while executing hook")
			jirix.IncrementFailures()
			if out.outFile != nil {
				out.outFile.Sync()
				out.outFile.Seek(0, 0)
				io.Copy(os.Stdout, out.outFile)
			}
			multiErr = append(multiErr, out.err)
			continue
		}
		if out.outFile != nil && showHookOutput {
			out.outFile.Sync()
			out.outFile.Seek(0, 0)
			io.Copy(os.Stdout, out.outFile)
		}
		if out.err != nil {
			if out.errFile != nil {
				out.errFile.Sync()
				out.errFile.Seek(0, 0)
				io.Copy(os.Stderr, out.errFile)
			}
			multiErr = append(multiErr, out.err)
		}
	}

	if len(multiErr) != 0 {
		return multiErr
	}
	return nil
}

func applyGitHooks(jirix *jiri.X, ops []operation) error {
	jirix.TimerPush("apply githooks")
	defer jirix.TimerPop()
	s := jirix.NewSeq()
	commitHookMap := make(map[string][]byte)
	for _, op := range ops {
		if op.Kind() != "delete" {
			if op.Project().GerritHost != "" {
				hookPath := filepath.Join(op.Project().Path, ".git", "hooks", "commit-msg")
				commitHook, err := os.Create(hookPath)
				if err != nil {
					return err
				}
				bytes, ok := commitHookMap[op.Project().GerritHost]
				if !ok {
					downloadPath := op.Project().GerritHost + "/tools/hooks/commit-msg"
					response, err := http.Get(downloadPath)
					if err != nil {
						return fmt.Errorf("Error while downloading %q: %v", downloadPath, err)
					}
					defer response.Body.Close()
					if b, err := ioutil.ReadAll(response.Body); err != nil {
						return fmt.Errorf("Error while downloading %q: %v", downloadPath, err)
					} else {
						bytes = b
						commitHookMap[op.Project().GerritHost] = b
					}
				}
				if _, err := commitHook.Write(bytes); err != nil {
					return err
				}
				commitHook.Close()
				if err := os.Chmod(hookPath, 0750); err != nil {
					return err
				}
			}

			// Apply exclusion for /.jiri/. Ideally we'd only write this file on
			// create, but the remote manifest import is move from the temp directory
			// into the final spot, so we need this to apply to both.
			//
			// TODO(toddw): Find a better way to do this.
			excludeDir := filepath.Join(op.Project().Path, ".git", "info")
			excludeFile := filepath.Join(excludeDir, "exclude")
			b, err := ioutil.ReadFile(excludeFile)
			if err != nil {
				if !os.IsNotExist(err) {
					return err
				}
			}
			excludeString := "/.jiri/\n"
			if !strings.Contains(string(b), excludeString) {
				if err := s.MkdirAll(excludeDir, 0755).WriteFile(excludeFile, []byte(excludeString), 0644).Done(); err != nil {
					return err
				}
			}
		}
		if op.Project().GitHooks == "" {
			continue
		}
		// Don't want to run hooks when repo is deleted
		if op.Kind() == "delete" {
			continue
		}
		// Apply git hooks, overwriting any existing hooks.  Jiri is in control of
		// writing all hooks.
		gitHooksDstDir := filepath.Join(op.Project().Path, ".git", "hooks")
		// Copy the specified GitHooks directory into the project's git
		// hook directory.  We walk the file system, creating directories
		// and copying files as we encounter them.
		copyFn := func(path string, info os.FileInfo, err error) error {
			if err != nil {
				return err
			}
			relPath, err := filepath.Rel(op.Project().GitHooks, path)
			if err != nil {
				return err
			}
			dst := filepath.Join(gitHooksDstDir, relPath)
			if info.IsDir() {
				return s.MkdirAll(dst, 0755).Done()
			}
			src, err := s.ReadFile(path)
			if err != nil {
				return err
			}
			// The file *must* be executable to be picked up by git.
			return s.WriteFile(dst, src, 0755).Done()
		}
		if err := filepath.Walk(op.Project().GitHooks, copyFn); err != nil {
			return err
		}
	}
	return nil
}

// writeMetadata stores the given project metadata in the directory
// identified by the given path.
func writeMetadata(jirix *jiri.X, project Project, dir string) (e error) {
	metadataDir := filepath.Join(dir, jiri.ProjectMetaDir)
	if err := os.MkdirAll(metadataDir, os.FileMode(0755)); err != nil {
		return err
	}
	metadataFile := filepath.Join(metadataDir, jiri.ProjectMetaFile)
	return project.ToFile(jirix, metadataFile)
}

// fsUpdates is used to track filesystem updates made by operations.
// TODO(nlacasse): Currently we only use fsUpdates to track deletions so that
// jiri can delete and create a project in the same directory in one update.
// There are lots of other cases that should be covered though, like detecting
// when two projects would be created in the same directory.
type fsUpdates struct {
	deletedDirs map[string]bool
}

func newFsUpdates() *fsUpdates {
	return &fsUpdates{
		deletedDirs: map[string]bool{},
	}
}

func (u *fsUpdates) deleteDir(dir string) {
	dir = filepath.Clean(dir)
	u.deletedDirs[dir] = true
}

func (u *fsUpdates) isDeleted(dir string) bool {
	_, ok := u.deletedDirs[filepath.Clean(dir)]
	return ok
}

type operation interface {
	// Project identifies the project this operation pertains to.
	Project() Project
	// Kind returns the kind of operation.
	Kind() string
	// Run executes the operation.
	Run(jirix *jiri.X) error
	// String returns a string representation of the operation.
	String() string
	// Test checks whether the operation would fail.
	Test(jirix *jiri.X, updates *fsUpdates) error
}

// commonOperation represents a project operation.
type commonOperation struct {
	// project holds information about the project such as its
	// name, local path, and the protocol it uses for version
	// control.
	project Project
	// destination is the new project path.
	destination string
	// source is the current project path.
	source string
	// state is the state of the local project
	state ProjectState
}

func (op commonOperation) Project() Project {
	return op.project
}

// createOperation represents the creation of a project.
type createOperation struct {
	commonOperation
}

func (op createOperation) Kind() string {
	return "create"
}

func (op createOperation) Run(jirix *jiri.X) (e error) {
	s := jirix.NewSeq()

	path, perm := filepath.Dir(op.destination), os.FileMode(0755)
	tmpDirPrefix := strings.Replace(op.Project().Name, "/", ".", -1) + "-"

	// Check the local file system.
	if _, err := os.Stat(op.destination); err != nil {
		if !runutil.IsNotExist(err) {
			return err
		}
	} else {
		if isEmpty, err := isEmpty(op.destination); err != nil {
			return err
		} else if !isEmpty {
			return fmt.Errorf("cannot create %q as it already exists and is not empty", op.destination)
		} else {
			if err := os.RemoveAll(op.destination); err != nil {
				return fmt.Errorf("Not able to delete %q", op.destination)
			}
		}
	}
	// Create a temporary directory for the initial setup of the
	// project to prevent an untimely termination from leaving the
	// root directory in an inconsistent state.
	tmpDir, err := s.MkdirAll(path, perm).TempDir(path, tmpDirPrefix)
	if err != nil {
		return err
	}
	defer collect.Error(func() error { return jirix.NewSeq().RemoveAll(tmpDir).Done() }, &e)

	cache, err := op.project.CacheDirPath(jirix)
	if err != nil {
		return err
	}
	if !isPathDir(cache) {
		cache = ""
	}

	if jirix.Shared && cache != "" {
		if err := gitutil.New(jirix).Clone(cache, tmpDir,
			gitutil.SharedOpt(true),
			gitutil.NoCheckoutOpt(true), gitutil.DepthOpt(op.project.HistoryDepth)); err != nil {
			return err
		}
	} else {
		ref := cache
		if op.project.HistoryDepth > 0 {
			ref = ""
		}
		if err := gitutil.New(jirix).Clone(op.project.Remote, tmpDir,
			gitutil.ReferenceOpt(ref),
			gitutil.NoCheckoutOpt(true), gitutil.DepthOpt(op.project.HistoryDepth)); err != nil {
			return err
		}
	}
	if err := s.Chmod(tmpDir, os.FileMode(0755)).
		Rename(tmpDir, op.destination).Done(); err != nil {
		return err
	}
	if err := checkoutHeadRevision(jirix, op.project, false); err != nil {
		return err
	}

	if err := writeMetadata(jirix, op.project, op.project.Path); err != nil {
		return err
	}

	// Delete inital branch(es)
	if branches, _, err := git.NewGit(op.project.Path).GetBranches(); err != nil {
		jirix.Logger.Warningf("not able to get branches for newly created project %s(%s)\n\n", op.project.Name, op.project.Path)
	} else {
		scm := gitutil.New(jirix, gitutil.RootDirOpt(op.project.Path))
		for _, b := range branches {
			if err := scm.DeleteBranch(b); err != nil {
				jirix.Logger.Warningf("not able to delete branch %s for project %s(%s)\n\n", b, op.project.Name, op.project.Path)
			}
		}
	}
	return nil
}

func (op createOperation) String() string {
	return fmt.Sprintf("create project %q in %q and advance it to %q", op.project.Name, op.destination, fmtRevision(op.project.Revision))
}

func isEmpty(path string) (bool, error) {
	dir, err := os.Open(path)
	if err != nil {
		return false, err
	}
	defer dir.Close()

	if _, err = dir.Readdirnames(1); err != nil && err == io.EOF {
		return true, nil
	} else {
		return false, err
	}
}

func (op createOperation) Test(jirix *jiri.X, updates *fsUpdates) error {
	return nil
}

// deleteOperation represents the deletion of a project.
type deleteOperation struct {
	commonOperation
	// gc determines whether the operation should be executed or
	// whether it should only print a notification.
	gc bool
}

func (op deleteOperation) Kind() string {
	return "delete"
}

func (op deleteOperation) Run(jirix *jiri.X) error {
	s := jirix.NewSeq()
	if op.project.LocalConfig.Ignore {
		jirix.Logger.Warningf("Project %s(%s) won't be deleted due to it's local-config\n\n", op.project.Name, op.source)
		return nil
	}
	if op.gc {
		// Never delete projects with non-master branches, uncommitted
		// work, or untracked content.
		g := git.NewGit(op.project.Path)
		branches, _, err := g.GetBranches()
		if err != nil {
			return fmt.Errorf("Cannot get branches for project %q: %v", op.Project().Name, err)
		}
		uncommitted, err := g.HasUncommittedChanges()
		if err != nil {
			return fmt.Errorf("Cannot get uncommited changes for project %q", op.Project().Name, err)
		}
		untracked, err := g.HasUntrackedFiles()
		if err != nil {
			return fmt.Errorf("Cannot get untracked changes for project %q: %v", op.Project().Name, err)
		}
		extraBranches := false
		for _, branch := range branches {
			if !strings.Contains(branch, "HEAD detached") && branch != "master" {
				extraBranches = true
				break
			}
		}
		if extraBranches || uncommitted || untracked {
			rmCommand := jirix.Color.Yellow("rm -rf %q", op.source)
			unManageCommand := jirix.Color.Yellow("rm -rf %q", filepath.Join(op.source, jiri.ProjectMetaDir))
			msg := fmt.Sprintf("Project %q won't be deleted as it might contain changes", op.project.Name)
			msg += fmt.Sprintf("\nIf you no longer need it, invoke '%s'", rmCommand)
			msg += fmt.Sprintf("\nIf you no longer want jiri to manage it, invoke '%s'\n\n", unManageCommand)
			jirix.Logger.Warningf(msg)
			return nil
		}
		return s.RemoveAll(op.source).Done()
	}
	rmCommand := jirix.Color.Yellow("rm -rf %q", op.source)
	gcCommand := jirix.Color.Yellow("jiri update -gc")
	unManageCommand := jirix.Color.Yellow("rm -rf %q", filepath.Join(op.source, jiri.ProjectMetaDir))
	msg := fmt.Sprintf("Project %q was not deleted", op.project.Name)
	msg += fmt.Sprintf("\nIf you no longer need it, invoke '%s' or invoke '%s' to remove all such local projects", rmCommand, gcCommand)
	msg += fmt.Sprintf("\nIf you no longer want jiri to manage it, invoke '%s'\n\n", unManageCommand)
	jirix.Logger.Warningf(msg)
	return nil
}

func (op deleteOperation) String() string {
	return fmt.Sprintf("delete project %q from %q", op.project.Name, op.source)
}

func (op deleteOperation) Test(jirix *jiri.X, updates *fsUpdates) error {
	if _, err := jirix.NewSeq().Stat(op.source); err != nil {
		if runutil.IsNotExist(err) {
			return fmt.Errorf("cannot delete %q as it does not exist", op.source)
		}
		return err
	}
	updates.deleteDir(op.source)
	return nil
}

// moveOperation represents the relocation of a project.
type moveOperation struct {
	commonOperation
	rebaseUntracked bool
	rebaseAll       bool
	snapshot        bool
}

func (op moveOperation) Kind() string {
	return "move"
}

func (op moveOperation) Run(jirix *jiri.X) error {
	if op.project.LocalConfig.Ignore {
		jirix.Logger.Warningf("Project %s(%s) won't be moved or updated  due to it's local-config\n\n", op.project.Name, op.source)
		return nil
	}
	// If it was nested project it might have been moved with its parent project
	if op.source != op.destination {
		s := jirix.NewSeq()
		path, perm := filepath.Dir(op.destination), os.FileMode(0755)
		if err := s.MkdirAll(path, perm).Rename(op.source, op.destination).Done(); err != nil {
			return err
		}
	}
	if err := syncProjectMaster(jirix, op.project, op.state, op.rebaseUntracked, op.rebaseAll, op.snapshot); err != nil {
		return err
	}
	return writeMetadata(jirix, op.project, op.project.Path)
}

func (op moveOperation) String() string {
	return fmt.Sprintf("move project %q located in %q to %q and advance it to %q", op.project.Name, op.source, op.destination, fmtRevision(op.project.Revision))
}

func (op moveOperation) Test(jirix *jiri.X, updates *fsUpdates) error {
	s := jirix.NewSeq()
	if _, err := s.Stat(op.source); err != nil {
		if runutil.IsNotExist(err) {
			return fmt.Errorf("cannot move %q to %q as the source does not exist", op.source, op.destination)
		}
		return err
	}
	if _, err := s.Stat(op.destination); err != nil {
		if !runutil.IsNotExist(err) {
			return err
		}
	} else {
		return fmt.Errorf("cannot move %q to %q as the destination already exists", op.source, op.destination)
	}
	updates.deleteDir(op.source)
	return nil
}

// updateOperation represents the update of a project.
type updateOperation struct {
	commonOperation
	rebaseUntracked bool
	rebaseAll       bool
	snapshot        bool
}

func (op updateOperation) Kind() string {
	return "update"
}

func (op updateOperation) Run(jirix *jiri.X) error {
	if err := syncProjectMaster(jirix, op.project, op.state, op.rebaseUntracked, op.rebaseAll, op.snapshot); err != nil {
		return err
	}
	return writeMetadata(jirix, op.project, op.project.Path)
}

func (op updateOperation) String() string {
	return fmt.Sprintf("advance/rebase project %q located in %q to %q", op.project.Name, op.source, fmtRevision(op.project.Revision))
}

func (op updateOperation) Test(jirix *jiri.X, _ *fsUpdates) error {
	return nil
}

// nullOperation represents a noop.  It is used for logging and adding project
// information to the current manifest.
type nullOperation struct {
	commonOperation
}

func (op nullOperation) Kind() string {
	return "null"
}

func (op nullOperation) Run(jirix *jiri.X) error {
	return writeMetadata(jirix, op.project, op.project.Path)
}

func (op nullOperation) String() string {
	return fmt.Sprintf("project %q located in %q at revision %q is up-to-date", op.project.Name, op.source, fmtRevision(op.project.Revision))
}

func (op nullOperation) Test(jirix *jiri.X, _ *fsUpdates) error {
	return nil
}

// operations is a sortable collection of operations
type operations []operation

// Len returns the length of the collection.
func (ops operations) Len() int {
	return len(ops)
}

// Less defines the order of operations. Operations are ordered first
// by their type and then by their project path.
//
// The order in which operation types are defined determines the order
// in which operations are performed. For correctness and also to
// minimize the chance of a conflict, the delete operations should
// happen before move operations, which should happen before create
// operations. If two create operations make nested directories, the
// outermost should be created first.
func (ops operations) Less(i, j int) bool {
	vals := make([]int, 2)
	for idx, op := range []operation{ops[i], ops[j]} {
		switch op.Kind() {
		case "delete":
			vals[idx] = 0
		case "move":
			vals[idx] = 1
		case "update":
			vals[idx] = 2
		case "create":
			vals[idx] = 3
		case "null":
			vals[idx] = 4
		}
	}
	if vals[0] != vals[1] {
		return vals[0] < vals[1]
	}
	if vals[0] == 0 {
		// delete sub folder first
		return ops[i].Project().Path+string(filepath.Separator) > ops[j].Project().Path+string(filepath.Separator)
	} else {
		return ops[i].Project().Path+string(filepath.Separator) < ops[j].Project().Path+string(filepath.Separator)
	}
}

// Swap swaps two elements of the collection.
func (ops operations) Swap(i, j int) {
	ops[i], ops[j] = ops[j], ops[i]
}

// computeOperations inputs a set of projects to update and the set of
// current and new projects (as defined by contents of the local file
// system and manifest file respectively) and outputs a collection of
// operations that describe the actions needed to update the target
// projects.
func computeOperations(localProjects, remoteProjects Projects, states map[ProjectKey]*ProjectState, gc, rebaseUntracked, rebaseAll, snapshot bool) operations {
	result := operations{}
	allProjects := map[ProjectKey]bool{}
	for _, p := range localProjects {
		allProjects[p.Key()] = true
	}
	for _, p := range remoteProjects {
		allProjects[p.Key()] = true
	}
	for key, _ := range allProjects {
		var local, remote *Project
		var state *ProjectState
		if project, ok := localProjects[key]; ok {
			local = &project
		}
		if project, ok := remoteProjects[key]; ok {
			remote = &project
		}
		if s, ok := states[key]; ok {
			state = s
		}
		result = append(result, computeOp(local, remote, state, gc, rebaseUntracked, rebaseAll, snapshot))
	}
	sort.Sort(result)
	return result
}

func computeOp(local, remote *Project, state *ProjectState, gc, rebaseUntracked, rebaseAll, snapshot bool) operation {
	switch {
	case local == nil && remote != nil:
		return createOperation{commonOperation{
			destination: remote.Path,
			project:     *remote,
			source:      "",
		}}
	case local != nil && remote == nil:
		return deleteOperation{commonOperation{
			destination: "",
			project:     *local,
			source:      local.Path,
		}, gc}
	case local != nil && remote != nil:
		remote.LocalConfig = local.LocalConfig
		localBranchesNeedUpdating := false
		if !snapshot {
			cb := state.CurrentBranch
			if rebaseAll {
				for _, branch := range state.Branches {
					if branch.Tracking != nil {
						if branch.Revision != branch.Tracking.Revision {
							localBranchesNeedUpdating = true
							break
						}
					} else if rebaseUntracked && rebaseAll {
						// We put checks for untracked-branch updation in syncProjectMaster funtion
						localBranchesNeedUpdating = true
						break
					}
				}
			} else if cb.Name != "" && cb.Tracking != nil && cb.Revision != cb.Tracking.Revision {
				localBranchesNeedUpdating = true
			}
		}
		switch {
		case local.Path != remote.Path:
			// moveOperation also does an update, so we don't need to check the
			// revision here.
			return moveOperation{commonOperation{
				destination: remote.Path,
				project:     *remote,
				source:      local.Path,
				state:       *state,
			}, rebaseUntracked, rebaseAll, snapshot}
		case snapshot && local.Revision != remote.Revision:
			return updateOperation{commonOperation{
				destination: remote.Path,
				project:     *remote,
				source:      local.Path,
				state:       *state,
			}, rebaseUntracked, rebaseAll, snapshot}
		case localBranchesNeedUpdating || (state.CurrentBranch.Name == "" && local.Revision != remote.Revision):
			return updateOperation{commonOperation{
				destination: remote.Path,
				project:     *remote,
				source:      local.Path,
				state:       *state,
			}, rebaseUntracked, rebaseAll, snapshot}
		case state.CurrentBranch.Tracking == nil && local.Revision != remote.Revision:
			return updateOperation{commonOperation{
				destination: remote.Path,
				project:     *remote,
				source:      local.Path,
				state:       *state,
			}, rebaseUntracked, rebaseAll, snapshot}
		default:
			return nullOperation{commonOperation{
				destination: remote.Path,
				project:     *remote,
				source:      local.Path,
				state:       *state,
			}}
		}
	default:
		panic("jiri: computeOp called with nil local and remote")
	}
}

// fmtRevision returns the first 8 chars of a revision hash.
func fmtRevision(r string) string {
	l := 8
	if len(r) < l {
		return r
	}
	return r[:l]
}