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// Copyright (c) 2018-2023, Sylabs Inc. All rights reserved.
// Copyright (c) Contributors to the Apptainer project, established as
// Apptainer a Series of LF Projects LLC.
// This software is licensed under a 3-clause BSD license. Please consult the
// LICENSE.md file distributed with the URIs of this project regarding your
// rights to use or distribute this software.
// Package apps [apps-plugin] provides the functions which are necessary for adding SCI-F apps support
// to Singularity 3.0.0. In 3.1.0+, this package will be able to be built standalone as
// a plugin so it will be maintainable separately from the core Singularity functionality
package apps
import (
"bytes"
"encoding/json"
"fmt"
"os"
"os/exec"
"path/filepath"
"regexp"
"strings"
"sync"
"github.com/sylabs/singularity/v4/internal/pkg/util/bin"
"github.com/sylabs/singularity/v4/pkg/build/types"
"github.com/sylabs/singularity/v4/pkg/sylog"
)
const name = "singularity_apps"
const (
sectionInstall = "appinstall"
sectionFiles = "appfiles"
sectionEnv = "appenv"
sectionTest = "apptest"
sectionHelp = "apphelp"
sectionRun = "apprun"
sectionStart = "appstart"
sectionLabels = "applabels"
)
var sections = map[string]bool{
sectionInstall: true,
sectionFiles: true,
sectionEnv: true,
sectionTest: true,
sectionHelp: true,
sectionRun: true,
sectionStart: true,
sectionLabels: true,
}
var reg = regexp.MustCompile(`[^a-zA-Z0-9_]`)
const (
globalEnv94Base = `## App Global Exports For: %[1]s
SCIF_APPDATA_%[1]s=/scif/data/%[1]s
SCIF_APPMETA_%[1]s=/scif/apps/%[1]s/scif
SCIF_APPROOT_%[1]s=/scif/apps/%[1]s
SCIF_APPBIN_%[1]s=/scif/apps/%[1]s/bin
SCIF_APPLIB_%[1]s=/scif/apps/%[1]s/lib
export SCIF_APPDATA_%[1]s SCIF_APPMETA_%[1]s SCIF_APPROOT_%[1]s SCIF_APPBIN_%[1]s SCIF_APPLIB_%[1]s
`
globalEnv94AppEnv = `export SCIF_APPENV_%[1]s="/scif/apps/%[1]s/scif/env/90-environment.sh"
`
globalEnv94AppLabels = `export SCIF_APPLABELS_%[1]s="/scif/apps/%[1]s/scif/labels.json"
`
globalEnv94AppRun = `export SCIF_APPRUN_%[1]s="/scif/apps/%[1]s/scif/runscript"
`
globalEnv94AppStart = `export SCIF_APPSTART_%[1]s="/scif/apps/%[1]s/scif/startscript"
`
scifEnv01Base = `#!/bin/sh
SCIF_APPNAME=%[1]s
SCIF_APPROOT="/scif/apps/%[1]s"
SCIF_APPMETA="/scif/apps/%[1]s/scif"
SCIF_DATA="/scif/data"
SCIF_APPDATA="/scif/data/%[1]s"
SCIF_APPINPUT="/scif/data/%[1]s/input"
SCIF_APPOUTPUT="/scif/data/%[1]s/output"
export SCIF_APPDATA SCIF_APPNAME SCIF_APPROOT SCIF_APPMETA SCIF_APPINPUT SCIF_APPOUTPUT SCIF_DATA
`
scifRunscriptBase = `#!/bin/sh
%s
`
scifStartscriptBase = `#!/bin/sh
%s
`
scifTestBase = `#!/bin/sh
%s
`
scifInstallBase = `
cd /
. %[1]s/scif/env/01-base.sh
cd %[1]s
%[2]s
cd /
`
)
// App stores the deffile sections of the app
type App struct {
Name string
Install string
Files string
Env string
Test string
Help string
Run string
Start string
Labels string
}
// BuildApp is the type which the build system can use to build an app in a bundle
type BuildApp struct {
Apps map[string]*App `json:"appsDefined"`
sync.Mutex
}
// New returns a new BuildPlugin for the plugin registry to hold
func New() *BuildApp {
return &BuildApp{
Apps: make(map[string]*App),
}
}
// Name returns this handler's name [singularity_apps]
func (pl *BuildApp) Name() string {
return name
}
// HandleSection receives a string of each section from the deffile
func (pl *BuildApp) HandleSection(ident, section string) {
name, sect := getAppAndSection(ident)
if name == "" || sect == "" {
return
}
pl.initApp(name)
app := pl.Apps[name]
switch sect {
case sectionInstall:
app.Install = section
case sectionFiles:
app.Files = section
case sectionEnv:
app.Env = section
case sectionTest:
app.Test = section
case sectionHelp:
app.Help = section
case sectionRun:
app.Run = section
case sectionStart:
app.Start = section
case sectionLabels:
app.Labels = section
default:
return
}
}
func (pl *BuildApp) initApp(name string) {
pl.Lock()
defer pl.Unlock()
_, ok := pl.Apps[name]
if !ok {
pl.Apps[name] = &App{
Name: name,
Install: "",
Files: "",
Env: "",
Test: "",
Help: "",
Run: "",
}
}
}
// getAppAndSection returns the app name and section name from the header of the section:
//
// %SECTION APP ... returns APP, SECTION
func getAppAndSection(ident string) (appName string, sectionName string) {
identSplit := strings.Split(ident, " ")
if len(identSplit) < 2 {
return "", ""
}
if _, ok := sections[identSplit[0]]; !ok {
return "", ""
}
return identSplit[1], identSplit[0]
}
// HandleBundle is a hook where we can modify the bundle
func (pl *BuildApp) HandleBundle(b *types.Bundle) {
if err := pl.createAllApps(b); err != nil {
sylog.Fatalf("Unable to create apps: %s", err)
}
}
func (pl *BuildApp) createAllApps(b *types.Bundle) error {
globalEnv94 := ""
for _, name := range b.Recipe.AppOrder {
app, ok := pl.Apps[name]
if !ok {
return fmt.Errorf("No BuildApp record for app %s", name)
}
sylog.Debugf("Creating %s app in bundle", name)
if err := createAppRoot(b, app); err != nil {
return err
}
if err := writeEnvFile(b, app); err != nil {
return err
}
if err := writeRunscriptFile(b, app); err != nil {
return err
}
if err := writeStartscriptFile(b, app); err != nil {
return err
}
if err := writeTestFile(b, app); err != nil {
return err
}
if err := writeHelpFile(b, app); err != nil {
return err
}
if err := copyFiles(b, app); err != nil {
return err
}
if err := writeLabels(b, app); err != nil {
return err
}
globalEnv94 += globalAppEnv(b, app)
}
return os.WriteFile(filepath.Join(b.RootfsPath, "/.singularity.d/env/94-appsbase.sh"), []byte(globalEnv94), 0o755)
}
func createAppRoot(b *types.Bundle, a *App) error {
if err := os.MkdirAll(appBase(b, a), 0o755); err != nil {
return err
}
if err := os.MkdirAll(filepath.Join(appBase(b, a), "/scif/"), 0o755); err != nil {
return err
}
if err := os.MkdirAll(filepath.Join(appBase(b, a), "/bin/"), 0o755); err != nil {
return err
}
if err := os.MkdirAll(filepath.Join(appBase(b, a), "/lib/"), 0o755); err != nil {
return err
}
if err := os.MkdirAll(filepath.Join(appBase(b, a), "/scif/env/"), 0o755); err != nil {
return err
}
if err := os.MkdirAll(filepath.Join(appData(b, a), "/input/"), 0o755); err != nil {
return err
}
return os.MkdirAll(filepath.Join(appData(b, a), "/output/"), 0o755)
}
// %appenv and 01-base.sh
func writeEnvFile(b *types.Bundle, a *App) error {
content := fmt.Sprintf(scifEnv01Base, a.Name)
if err := os.WriteFile(filepath.Join(appMeta(b, a), "/env/01-base.sh"), []byte(content), 0o755); err != nil {
return err
}
if a.Env == "" {
return nil
}
return os.WriteFile(filepath.Join(appMeta(b, a), "/env/90-environment.sh"), []byte(a.Env), 0o755)
}
func globalAppEnv(b *types.Bundle, a *App) string {
name := reg.ReplaceAllString(a.Name, "_")
content := fmt.Sprintf(globalEnv94Base, name)
if _, err := os.Stat(filepath.Join(appMeta(b, a), "/env/90-environment.sh")); err == nil {
content += fmt.Sprintf(globalEnv94AppEnv, name)
}
if _, err := os.Stat(filepath.Join(appMeta(b, a), "/labels.json")); err == nil {
content += fmt.Sprintf(globalEnv94AppLabels, name)
}
if _, err := os.Stat(filepath.Join(appMeta(b, a), "/runscript")); err == nil {
content += fmt.Sprintf(globalEnv94AppRun, name)
}
if _, err := os.Stat(filepath.Join(appMeta(b, a), "/startscript")); err == nil {
content += fmt.Sprintf(globalEnv94AppStart, name)
}
return content
}
// %apprun
func writeRunscriptFile(b *types.Bundle, a *App) error {
if a.Run == "" {
return nil
}
content := fmt.Sprintf(scifRunscriptBase, a.Run)
return os.WriteFile(filepath.Join(appMeta(b, a), "/runscript"), []byte(content), 0o755)
}
// %appstart
func writeStartscriptFile(b *types.Bundle, a *App) error {
if a.Start == "" {
return nil
}
content := fmt.Sprintf(scifStartscriptBase, a.Start)
return os.WriteFile(filepath.Join(appMeta(b, a), "/startscript"), []byte(content), 0o755)
}
// %apptest
func writeTestFile(b *types.Bundle, a *App) error {
if a.Test == "" {
return nil
}
content := fmt.Sprintf(scifTestBase, a.Test)
return os.WriteFile(filepath.Join(appMeta(b, a), "/test"), []byte(content), 0o755)
}
// %apphelp
func writeHelpFile(b *types.Bundle, a *App) error {
if a.Help == "" {
return nil
}
return os.WriteFile(filepath.Join(appMeta(b, a), "/runscript.help"), []byte(a.Help), 0o644)
}
// %appfile
func copyFiles(b *types.Bundle, a *App) error {
if a.Files == "" {
return nil
}
appBase := filepath.Join(b.RootfsPath, "/scif/apps/", a.Name)
for _, line := range strings.Split(a.Files, "\n") {
// skip empty or comment lines
if line = strings.TrimSpace(line); line == "" || strings.Index(line, "#") == 0 {
continue
}
// trim any comments and whitespace
trimLine := strings.Split(strings.TrimSpace(line), "#")[0]
splitLine := strings.SplitN(strings.TrimSpace(trimLine), " ", 2)
// copy to dst of same name in app if no dst is specified
var src, dst string
if len(splitLine) < 2 {
src = splitLine[0]
dst = splitLine[0]
} else {
src = splitLine[0]
dst = splitLine[1]
}
if err := copyWithfLr(src, filepath.Join(appBase, dst)); err != nil {
return err
}
}
return nil
}
// %applabels
func writeLabels(b *types.Bundle, a *App) error {
lines := strings.Split(strings.TrimSpace(a.Labels), "\n")
labels := make(map[string]string)
// add default label
labels["SCIF_APP_NAME"] = a.Name
for _, line := range lines {
// skip empty or comment lines
if line = strings.TrimSpace(line); line == "" || strings.Index(line, "#") == 0 {
continue
}
var key, val string
lineSubs := strings.SplitN(line, " ", 2)
if len(lineSubs) < 2 {
key = strings.TrimSpace(lineSubs[0])
val = ""
} else {
key = strings.TrimSpace(lineSubs[0])
val = strings.TrimSpace(lineSubs[1])
}
labels[key] = val
}
// make new map into json
text, err := json.MarshalIndent(labels, "", "\t")
if err != nil {
return err
}
appBase := filepath.Join(b.RootfsPath, "/scif/apps/", a.Name)
err = os.WriteFile(filepath.Join(appBase, "scif/labels.json"), text, 0o644)
return err
}
// util funcs
func appBase(b *types.Bundle, a *App) string {
return filepath.Join(b.RootfsPath, "/scif/apps/", a.Name)
}
func appMeta(b *types.Bundle, a *App) string {
return filepath.Join(appBase(b, a), "/scif/")
}
func appData(b *types.Bundle, a *App) string {
return filepath.Join(b.RootfsPath, "/scif/data/", a.Name)
}
// FIXME: Replace with Go, or existing util function?
func copyWithfLr(src, dst string) error {
cp, err := bin.FindBin("cp")
if err != nil {
return err
}
var stderr bytes.Buffer
copyCmd := exec.Command(cp, "-fLr", src, dst)
copyCmd.Stderr = &stderr
sylog.Debugf("Copying %v to %v", src, dst)
if err := copyCmd.Run(); err != nil {
return fmt.Errorf("while copying %v to %v: %v: %v", src, dst, err, stderr.String())
}
return nil
}
// HandlePost returns a script that should run after %post
func (pl *BuildApp) HandlePost(b *types.Bundle) (string, error) {
post := ""
for _, name := range b.Recipe.AppOrder {
sylog.Debugf("Fetching app[%s] post script section", name)
app, ok := pl.Apps[name]
if !ok {
return "", fmt.Errorf("No BuildApp record for app %s", name)
}
sylog.Debugf("Building app[%s] post script section", name)
post += buildPost(app)
}
return post, nil
}
func buildPost(a *App) string {
return fmt.Sprintf(scifInstallBase, filepath.Join("/scif/apps/", a.Name), a.Install)
}
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