lib/install/deps.go

   1 // Copyright (C) The Arvados Authors. All rights reserved.
   2 //
   3 // SPDX-License-Identifier: AGPL-3.0
   4
   5 package install
   6
   7 import (
   8         "bufio"
   9         "bytes"
  10         "context"
  11         _ "embed"
  12         "errors"
  13         "flag"
  14         "fmt"
  15         "io"
  16         "os"
  17         "os/exec"
  18         "os/user"
  19         "path/filepath"
  20         "runtime"
  21         "strconv"
  22         "strings"
  23         "syscall"
  24         "time"
  25
  26         "git.arvados.org/arvados.git/lib/cmd"
  27         "git.arvados.org/arvados.git/sdk/go/ctxlog"
  28         "github.com/lib/pq"
  29 )
  30
  31 var Command cmd.Handler = &installCommand{}
  32
  33 const goversion = "1.17.7"
  34
  35 const (
  36         rubyversion             = "2.7.5"
  37         bundlerversion          = "2.2.19"
  38         singularityversion      = "3.9.9"
  39         pjsversion              = "1.9.8"
  40         geckoversion            = "0.24.0"
  41         gradleversion           = "5.3.1"
  42         nodejsversion           = "v12.22.11"
  43         devtestDatabasePassword = "insecure_arvados_test"
  44         workbench2version       = "2454ac35292a79594c32a80430740317ed5005cf"
  45 )
  46
  47 //go:embed arvados.service
  48 var arvadosServiceFile []byte
  49
  50 type installCommand struct {
  51         ClusterType    string
  52         SourcePath     string
  53         PackageVersion string
  54         EatMyData      bool
  55 }
  56
  57 func (inst *installCommand) RunCommand(prog string, args []string, stdin io.Reader, stdout, stderr io.Writer) int {
  58         logger := ctxlog.New(stderr, "text", "info")
  59         ctx := ctxlog.Context(context.Background(), logger)
  60         ctx, cancel := context.WithCancel(ctx)
  61         defer cancel()
  62
  63         var err error
  64         defer func() {
  65                 if err != nil {
  66                         logger.WithError(err).Info("exiting")
  67                 }
  68         }()
  69
  70         flags := flag.NewFlagSet(prog, flag.ContinueOnError)
  71         flags.SetOutput(stderr)
  72         versionFlag := flags.Bool("version", false, "Write version information to stdout and exit 0")
  73         flags.StringVar(&inst.ClusterType, "type", "production", "cluster `type`: development, test, production, or package")
  74         flags.StringVar(&inst.SourcePath, "source", "/arvados", "source tree location (required for -type=package)")
  75         flags.StringVar(&inst.PackageVersion, "package-version", "0.0.0", "version string to embed in executable files")
  76         flags.BoolVar(&inst.EatMyData, "eatmydata", false, "use eatmydata to speed up install")
  77
  78         if ok, code := cmd.ParseFlags(flags, prog, args, "", stderr); !ok {
  79                 return code
  80         } else if *versionFlag {
  81                 return cmd.Version.RunCommand(prog, args, stdin, stdout, stderr)
  82         }
  83
  84         var dev, test, prod, pkg bool
  85         switch inst.ClusterType {
  86         case "development":
  87                 dev = true
  88         case "test":
  89                 test = true
  90         case "production":
  91                 prod = true
  92         case "package":
  93                 pkg = true
  94         default:
  95                 err = fmt.Errorf("invalid cluster type %q (must be 'development', 'test', 'production', or 'package')", inst.ClusterType)
  96                 return 2
  97         }
  98
  99         if prod {
 100                 err = errors.New("production install is not yet implemented")
 101                 return 1
 102         }
 103
 104         osv, err := identifyOS()
 105         if err != nil {
 106                 return 1
 107         }
 108
 109         listdir, err := os.Open("/var/lib/apt/lists")
 110         if err != nil {
 111                 logger.Warnf("error while checking whether to run apt-get update: %s", err)
 112         } else if names, _ := listdir.Readdirnames(1); len(names) == 0 {
 113                 // Special case for a base docker image where the
 114                 // package cache has been deleted and all "apt-get
 115                 // install" commands will fail unless we fetch repos.
 116                 cmd := exec.CommandContext(ctx, "apt-get", "update")
 117                 cmd.Stdout = stdout
 118                 cmd.Stderr = stderr
 119                 err = cmd.Run()
 120                 if err != nil {
 121                         return 1
 122                 }
 123         }
 124
 125         if inst.EatMyData {
 126                 cmd := exec.CommandContext(ctx, "apt-get", "install", "--yes", "--no-install-recommends", "eatmydata")
 127                 cmd.Env = append(os.Environ(), "DEBIAN_FRONTEND=noninteractive")
 128                 cmd.Stdout = stdout
 129                 cmd.Stderr = stderr
 130                 err = cmd.Run()
 131                 if err != nil {
 132                         return 1
 133                 }
 134         }
 135
 136         pkgs := prodpkgs(osv)
 137
 138         if pkg {
 139                 pkgs = append(pkgs,
 140                         "dpkg-dev",
 141                         "eatmydata", // install it for later steps, even if we're not using it now
 142                 )
 143         }
 144
 145         if dev || test || pkg {
 146                 pkgs = append(pkgs,
 147                         "automake",
 148                         "bison",
 149                         "bsdmainutils",
 150                         "build-essential",
 151                         "cadaver",
 152                         "curl",
 153                         "cython3",
 154                         "default-jdk-headless",
 155                         "default-jre-headless",
 156                         "gettext",
 157                         "libattr1-dev",
 158                         "libfuse-dev",
 159                         "libgbm1", // cypress / workbench2 tests
 160                         "libgnutls28-dev",
 161                         "libpam-dev",
 162                         "libpcre3-dev",
 163                         "libpq-dev",
 164                         "libreadline-dev",
 165                         "libssl-dev",
 166                         "libxml2-dev",
 167                         "libxslt1-dev",
 168                         "linkchecker",
 169                         "lsof",
 170                         "make",
 171                         "net-tools",
 172                         "pandoc",
 173                         "pkg-config",
 174                         "postgresql",
 175                         "postgresql-contrib",
 176                         "python3-dev",
 177                         "python3-venv",
 178                         "python3-virtualenv",
 179                         "r-base",
 180                         "r-cran-testthat",
 181                         "r-cran-devtools",
 182                         "r-cran-knitr",
 183                         "r-cran-markdown",
 184                         "r-cran-roxygen2",
 185                         "r-cran-xml",
 186                         "rsync",
 187                         "sudo",
 188                         "uuid-dev",
 189                         "wget",
 190                         "xvfb",
 191                         "zlib1g-dev", // services/api
 192                 )
 193                 if test {
 194                         if osv.Debian && osv.Major <= 10 {
 195                                 pkgs = append(pkgs, "iceweasel")
 196                         } else {
 197                                 pkgs = append(pkgs, "firefox")
 198                         }
 199                 }
 200                 if dev || test {
 201                         pkgs = append(pkgs, "squashfs-tools") // for singularity
 202                         pkgs = append(pkgs, "gnupg")          // for docker install recipe
 203                 }
 204                 switch {
 205                 case osv.Debian && osv.Major >= 11:
 206                         pkgs = append(pkgs, "g++", "libcurl4", "libcurl4-openssl-dev")
 207                 case osv.Debian && osv.Major >= 10:
 208                         pkgs = append(pkgs, "g++", "libcurl4", "libcurl4-openssl-dev")
 209                 case osv.Debian || osv.Ubuntu:
 210                         pkgs = append(pkgs, "g++", "libcurl3", "libcurl3-openssl-dev")
 211                 case osv.Centos:
 212                         pkgs = append(pkgs, "gcc", "gcc-c++", "libcurl-devel", "postgresql-devel")
 213                 }
 214                 cmd := exec.CommandContext(ctx, "apt-get")
 215                 if inst.EatMyData {
 216                         cmd = exec.CommandContext(ctx, "eatmydata", "apt-get")
 217                 }
 218                 cmd.Args = append(cmd.Args, "install", "--yes", "--no-install-recommends")
 219                 cmd.Args = append(cmd.Args, pkgs...)
 220                 cmd.Env = append(os.Environ(), "DEBIAN_FRONTEND=noninteractive")
 221                 cmd.Stdout = stdout
 222                 cmd.Stderr = stderr
 223                 err = cmd.Run()
 224                 if err != nil {
 225                         return 1
 226                 }
 227         }
 228
 229         if dev || test {
 230                 if havedockerversion, err := exec.Command("docker", "--version").CombinedOutput(); err == nil {
 231                         logger.Printf("%s installed, assuming that version is ok", bytes.TrimSuffix(havedockerversion, []byte("\n")))
 232                 } else if osv.Debian {
 233                         var codename string
 234                         switch osv.Major {
 235                         case 10:
 236                                 codename = "buster"
 237                         case 11:
 238                                 codename = "bullseye"
 239                         default:
 240                                 err = fmt.Errorf("don't know how to install docker-ce for debian %d", osv.Major)
 241                                 return 1
 242                         }
 243                         err = inst.runBash(`
 244 rm -f /usr/share/keyrings/docker-archive-keyring.gpg
 245 curl -fsSL https://download.docker.com/linux/debian/gpg | gpg --dearmor -o /usr/share/keyrings/docker-archive-keyring.gpg
 246 echo 'deb [arch=amd64 signed-by=/usr/share/keyrings/docker-archive-keyring.gpg] https://download.docker.com/linux/debian/ `+codename+` stable' | \
 247     tee /etc/apt/sources.list.d/docker.list
 248 apt-get update
 249 DEBIAN_FRONTEND=noninteractive apt-get --yes --no-install-recommends install docker-ce
 250 `, stdout, stderr)
 251                         if err != nil {
 252                                 return 1
 253                         }
 254                 } else {
 255                         err = fmt.Errorf("don't know how to install docker for osversion %v", osv)
 256                         return 1
 257                 }
 258         }
 259
 260         os.Mkdir("/var/lib/arvados", 0755)
 261         os.Mkdir("/var/lib/arvados/tmp", 0700)
 262         if prod || pkg {
 263                 u, er := user.Lookup("www-data")
 264                 if er != nil {
 265                         err = fmt.Errorf("user.Lookup(%q): %w", "www-data", er)
 266                         return 1
 267                 }
 268                 uid, _ := strconv.Atoi(u.Uid)
 269                 gid, _ := strconv.Atoi(u.Gid)
 270                 os.Mkdir("/var/lib/arvados/wwwtmp", 0700)
 271                 err = os.Chown("/var/lib/arvados/wwwtmp", uid, gid)
 272                 if err != nil {
 273                         return 1
 274                 }
 275         }
 276         rubymajorversion := rubyversion[:strings.LastIndex(rubyversion, ".")]
 277         if haverubyversion, err := exec.Command("/var/lib/arvados/bin/ruby", "-v").CombinedOutput(); err == nil && bytes.HasPrefix(haverubyversion, []byte("ruby "+rubyversion)) {
 278                 logger.Print("ruby " + rubyversion + " already installed")
 279         } else {
 280                 err = inst.runBash(`
 281 tmp="$(mktemp -d)"
 282 trap 'rm -r "${tmp}"' ERR EXIT
 283 wget --progress=dot:giga -O- https://cache.ruby-lang.org/pub/ruby/`+rubymajorversion+`/ruby-`+rubyversion+`.tar.gz | tar -C "${tmp}" -xzf -
 284 cd "${tmp}/ruby-`+rubyversion+`"
 285 ./configure --disable-install-static-library --enable-shared --disable-install-doc --prefix /var/lib/arvados
 286 make -j8
 287 make install
 288 /var/lib/arvados/bin/gem install bundler --no-document
 289 `, stdout, stderr)
 290                 if err != nil {
 291                         return 1
 292                 }
 293         }
 294
 295         if !prod {
 296                 if havegoversion, err := exec.Command("/usr/local/bin/go", "version").CombinedOutput(); err == nil && bytes.HasPrefix(havegoversion, []byte("go version go"+goversion+" ")) {
 297                         logger.Print("go " + goversion + " already installed")
 298                 } else {
 299                         err = inst.runBash(`
 300 cd /tmp
 301 rm -rf /var/lib/arvados/go/
 302 wget --progress=dot:giga -O- https://storage.googleapis.com/golang/go`+goversion+`.linux-amd64.tar.gz | tar -C /var/lib/arvados -xzf -
 303 ln -sfv /var/lib/arvados/go/bin/* /usr/local/bin/
 304 `, stdout, stderr)
 305                         if err != nil {
 306                                 return 1
 307                         }
 308                 }
 309         }
 310
 311         if !prod && !pkg {
 312                 if havepjsversion, err := exec.Command("/usr/local/bin/phantomjs", "--version").CombinedOutput(); err == nil && string(havepjsversion) == "1.9.8\n" {
 313                         logger.Print("phantomjs " + pjsversion + " already installed")
 314                 } else {
 315                         err = inst.runBash(`
 316 PJS=phantomjs-`+pjsversion+`-linux-x86_64
 317 wget --progress=dot:giga -O- https://cache.arvados.org/$PJS.tar.bz2 | tar -C /var/lib/arvados -xjf -
 318 ln -sfv /var/lib/arvados/$PJS/bin/phantomjs /usr/local/bin/
 319 `, stdout, stderr)
 320                         if err != nil {
 321                                 return 1
 322                         }
 323                 }
 324
 325                 if havegeckoversion, err := exec.Command("/usr/local/bin/geckodriver", "--version").CombinedOutput(); err == nil && strings.Contains(string(havegeckoversion), " "+geckoversion+" ") {
 326                         logger.Print("geckodriver " + geckoversion + " already installed")
 327                 } else {
 328                         err = inst.runBash(`
 329 GD=v`+geckoversion+`
 330 wget --progress=dot:giga -O- https://github.com/mozilla/geckodriver/releases/download/$GD/geckodriver-$GD-linux64.tar.gz | tar -C /var/lib/arvados/bin -xzf - geckodriver
 331 ln -sfv /var/lib/arvados/bin/geckodriver /usr/local/bin/
 332 `, stdout, stderr)
 333                         if err != nil {
 334                                 return 1
 335                         }
 336                 }
 337
 338                 if havegradleversion, err := exec.Command("/usr/local/bin/gradle", "--version").CombinedOutput(); err == nil && strings.Contains(string(havegradleversion), "Gradle "+gradleversion+"\n") {
 339                         logger.Print("gradle " + gradleversion + " already installed")
 340                 } else {
 341                         err = inst.runBash(`
 342 G=`+gradleversion+`
 343 zip=/var/lib/arvados/tmp/gradle-${G}-bin.zip
 344 trap "rm ${zip}" ERR
 345 wget --progress=dot:giga -O${zip} https://services.gradle.org/distributions/gradle-${G}-bin.zip
 346 unzip -o -d /var/lib/arvados ${zip}
 347 ln -sfv /var/lib/arvados/gradle-${G}/bin/gradle /usr/local/bin/
 348 rm ${zip}
 349 `, stdout, stderr)
 350                         if err != nil {
 351                                 return 1
 352                         }
 353                 }
 354
 355                 if havesingularityversion, err := exec.Command("/var/lib/arvados/bin/singularity", "--version").CombinedOutput(); err == nil && strings.Contains(string(havesingularityversion), singularityversion) {
 356                         logger.Print("singularity " + singularityversion + " already installed")
 357                 } else if dev || test {
 358                         err = inst.runBash(`
 359 S=`+singularityversion+`
 360 tmp=/var/lib/arvados/tmp/singularity
 361 trap "rm -r ${tmp}" ERR EXIT
 362 cd /var/lib/arvados/tmp
 363 git clone https://github.com/sylabs/singularity
 364 cd singularity
 365 git checkout v${S}
 366 ./mconfig --prefix=/var/lib/arvados
 367 make -C ./builddir
 368 make -C ./builddir install
 369 `, stdout, stderr)
 370                         if err != nil {
 371                                 return 1
 372                         }
 373                 }
 374
 375                 err = inst.runBash(`
 376 install /usr/bin/nsenter /var/lib/arvados/bin/nsenter
 377 setcap "cap_sys_admin+pei cap_sys_chroot+pei" /var/lib/arvados/bin/nsenter
 378 `, stdout, stderr)
 379                 if err != nil {
 380                         return 1
 381                 }
 382
 383                 // The entry in /etc/locale.gen is "en_US.UTF-8"; once
 384                 // it's installed, locale -a reports it as
 385                 // "en_US.utf8".
 386                 wantlocale := "en_US.UTF-8"
 387                 if havelocales, err := exec.Command("locale", "-a").CombinedOutput(); err == nil && bytes.Contains(havelocales, []byte(strings.Replace(wantlocale+"\n", "UTF-", "utf", 1))) {
 388                         logger.Print("locale " + wantlocale + " already installed")
 389                 } else {
 390                         err = inst.runBash(`sed -i 's/^# *\(`+wantlocale+`\)/\1/' /etc/locale.gen && locale-gen`, stdout, stderr)
 391                         if err != nil {
 392                                 return 1
 393                         }
 394                 }
 395
 396                 var pgc struct {
 397                         Version       string
 398                         Cluster       string
 399                         Port          int
 400                         Status        string
 401                         Owner         string
 402                         DataDirectory string
 403                         LogFile       string
 404                 }
 405                 if pgLsclusters, err2 := exec.Command("pg_lsclusters", "--no-header").CombinedOutput(); err2 != nil {
 406                         err = fmt.Errorf("pg_lsclusters: %s", err2)
 407                         return 1
 408                 } else if pgclusters := strings.Split(strings.TrimSpace(string(pgLsclusters)), "\n"); len(pgclusters) != 1 {
 409                         logger.Warnf("pg_lsclusters returned %d postgresql clusters -- skipping postgresql initdb/startup, hope that's ok", len(pgclusters))
 410                 } else if _, err = fmt.Sscanf(pgclusters[0], "%s %s %d %s %s %s %s", &pgc.Version, &pgc.Cluster, &pgc.Port, &pgc.Status, &pgc.Owner, &pgc.DataDirectory, &pgc.LogFile); err != nil {
 411                         err = fmt.Errorf("error parsing pg_lsclusters output: %s", err)
 412                         return 1
 413                 } else if pgc.Status == "online" {
 414                         logger.Infof("postgresql cluster %s-%s is online", pgc.Version, pgc.Cluster)
 415                 } else {
 416                         logger.Infof("postgresql cluster %s-%s is %s; trying to start", pgc.Version, pgc.Cluster, pgc.Status)
 417                         cmd := exec.Command("pg_ctlcluster", "--foreground", pgc.Version, pgc.Cluster, "start")
 418                         cmd.Stdout = stdout
 419                         cmd.Stderr = stderr
 420                         err = cmd.Start()
 421                         if err != nil {
 422                                 return 1
 423                         }
 424                         defer func() {
 425                                 cmd.Process.Signal(syscall.SIGTERM)
 426                                 logger.Info("sent SIGTERM; waiting for postgres to shut down")
 427                                 cmd.Wait()
 428                         }()
 429                         err = waitPostgreSQLReady()
 430                         if err != nil {
 431                                 return 1
 432                         }
 433                 }
 434
 435                 if os.Getpid() == 1 {
 436                         // We are the init process (presumably in a
 437                         // docker container) so although postgresql is
 438                         // installed, it's not running, and initdb
 439                         // might never have been run.
 440                 }
 441
 442                 var needcoll []string
 443                 // If the en_US.UTF-8 locale wasn't installed when
 444                 // postgresql initdb ran, it needs to be added
 445                 // explicitly before we can use it in our test suite.
 446                 for _, collname := range []string{"en_US", "en_US.UTF-8"} {
 447                         cmd := exec.Command("sudo", "-u", "postgres", "psql", "-t", "-c", "SELECT 1 FROM pg_catalog.pg_collation WHERE collname='"+collname+"' AND collcollate IN ('en_US.UTF-8', 'en_US.utf8')")
 448                         cmd.Dir = "/"
 449                         out, err2 := cmd.CombinedOutput()
 450                         if err != nil {
 451                                 err = fmt.Errorf("error while checking postgresql collations: %s", err2)
 452                                 return 1
 453                         }
 454                         if strings.Contains(string(out), "1") {
 455                                 logger.Infof("postgresql supports collation %s", collname)
 456                         } else {
 457                                 needcoll = append(needcoll, collname)
 458                         }
 459                 }
 460                 if len(needcoll) > 0 && os.Getpid() != 1 {
 461                         // In order for the CREATE COLLATION statement
 462                         // below to work, the locale must have existed
 463                         // when PostgreSQL started up. If we're
 464                         // running as init, we must have started
 465                         // PostgreSQL ourselves after installing the
 466                         // locales. Otherwise, it might need a
 467                         // restart, so we attempt to restart it with
 468                         // systemd.
 469                         if err = inst.runBash(`sudo systemctl restart postgresql`, stdout, stderr); err != nil {
 470                                 logger.Warn("`systemctl restart postgresql` failed; hoping postgresql does not need to be restarted")
 471                         } else if err = waitPostgreSQLReady(); err != nil {
 472                                 return 1
 473                         }
 474                 }
 475                 for _, collname := range needcoll {
 476                         cmd := exec.Command("sudo", "-u", "postgres", "psql", "-c", "CREATE COLLATION \""+collname+"\" (LOCALE = \"en_US.UTF-8\")")
 477                         cmd.Stdout = stdout
 478                         cmd.Stderr = stderr
 479                         cmd.Dir = "/"
 480                         err = cmd.Run()
 481                         if err != nil {
 482                                 err = fmt.Errorf("error adding postgresql collation %s: %s", collname, err)
 483                                 return 1
 484                         }
 485                 }
 486
 487                 withstuff := "WITH LOGIN SUPERUSER ENCRYPTED PASSWORD " + pq.QuoteLiteral(devtestDatabasePassword)
 488                 cmd := exec.Command("sudo", "-u", "postgres", "psql", "-c", "ALTER ROLE arvados "+withstuff)
 489                 cmd.Dir = "/"
 490                 if err := cmd.Run(); err == nil {
 491                         logger.Print("arvados role exists; superuser privileges added, password updated")
 492                 } else {
 493                         cmd := exec.Command("sudo", "-u", "postgres", "psql", "-c", "CREATE ROLE arvados "+withstuff)
 494                         cmd.Dir = "/"
 495                         cmd.Stdout = stdout
 496                         cmd.Stderr = stderr
 497                         err = cmd.Run()
 498                         if err != nil {
 499                                 return 1
 500                         }
 501                 }
 502         }
 503
 504         if !prod {
 505                 if havenodejsversion, err := exec.Command("/usr/local/bin/node", "--version").CombinedOutput(); err == nil && string(havenodejsversion) == nodejsversion+"\n" {
 506                         logger.Print("nodejs " + nodejsversion + " already installed")
 507                 } else {
 508                         err = inst.runBash(`
 509 NJS=`+nodejsversion+`
 510 wget --progress=dot:giga -O- https://nodejs.org/dist/${NJS}/node-${NJS}-linux-x64.tar.xz | sudo tar -C /var/lib/arvados -xJf -
 511 ln -sfv /var/lib/arvados/node-${NJS}-linux-x64/bin/{node,npm} /usr/local/bin/
 512 `, stdout, stderr)
 513                         if err != nil {
 514                                 return 1
 515                         }
 516                 }
 517
 518                 if haveyarnversion, err := exec.Command("/usr/local/bin/yarn", "--version").CombinedOutput(); err == nil && len(haveyarnversion) > 0 {
 519                         logger.Print("yarn " + strings.TrimSpace(string(haveyarnversion)) + " already installed")
 520                 } else {
 521                         err = inst.runBash(`
 522 npm install -g yarn
 523 ln -sfv /var/lib/arvados/node-`+nodejsversion+`-linux-x64/bin/{yarn,yarnpkg} /usr/local/bin/
 524 `, stdout, stderr)
 525                         if err != nil {
 526                                 return 1
 527                         }
 528                 }
 529
 530                 if havewb2version, err := exec.Command("git", "--git-dir=/var/lib/arvados/arvados-workbench2/.git", "log", "-n1", "--format=%H").CombinedOutput(); err == nil && string(havewb2version) == workbench2version+"\n" {
 531                         logger.Print("workbench2 repo is already at " + workbench2version)
 532                 } else {
 533                         err = inst.runBash(`
 534 V=`+workbench2version+`
 535 cd /var/lib/arvados
 536 if [[ ! -e arvados-workbench2 ]]; then
 537   git clone https://git.arvados.org/arvados-workbench2.git
 538   cd arvados-workbench2
 539   git checkout $V
 540 else
 541   cd arvados-workbench2
 542   if ! git checkout $V; then
 543     git fetch
 544     git checkout yarn.lock
 545     git checkout $V
 546   fi
 547 fi
 548 rm -rf build
 549 `, stdout, stderr)
 550                         if err != nil {
 551                                 return 1
 552                         }
 553                 }
 554
 555                 if err = inst.runBash(`
 556 cd /var/lib/arvados/arvados-workbench2
 557 yarn install
 558 `, stdout, stderr); err != nil {
 559                         return 1
 560                 }
 561         }
 562
 563         if prod || pkg {
 564                 // Install Go programs to /var/lib/arvados/bin/
 565                 for _, srcdir := range []string{
 566                         "cmd/arvados-client",
 567                         "cmd/arvados-server",
 568                 } {
 569                         fmt.Fprintf(stderr, "building %s...\n", srcdir)
 570                         cmd := exec.Command("go", "install", "-ldflags", "-X git.arvados.org/arvados.git/lib/cmd.version="+inst.PackageVersion+" -X main.version="+inst.PackageVersion+" -s -w")
 571                         cmd.Env = append(cmd.Env, os.Environ()...)
 572                         cmd.Env = append(cmd.Env, "GOBIN=/var/lib/arvados/bin")
 573                         cmd.Dir = filepath.Join(inst.SourcePath, srcdir)
 574                         cmd.Stdout = stdout
 575                         cmd.Stderr = stderr
 576                         err = cmd.Run()
 577                         if err != nil {
 578                                 return 1
 579                         }
 580                 }
 581
 582                 // Copy assets from source tree to /var/lib/arvados/share
 583                 cmd := exec.Command("install", "-v", "-t", "/var/lib/arvados/share", filepath.Join(inst.SourcePath, "sdk/python/tests/nginx.conf"))
 584                 cmd.Stdout = stdout
 585                 cmd.Stderr = stderr
 586                 err = cmd.Run()
 587                 if err != nil {
 588                         return 1
 589                 }
 590
 591                 // Install python SDK and arv-mount in
 592                 // /var/lib/arvados/lib/python.
 593                 //
 594                 // setup.py writes a file in the source directory in
 595                 // order to include the version number in the package
 596                 // itself.  We don't want to write to the source tree
 597                 // (in "arvados-package" context it's mounted
 598                 // readonly) so we run setup.py in a temporary copy of
 599                 // the source dir.
 600                 if err = inst.runBash(`
 601 v=/var/lib/arvados/lib/python
 602 tmp=/var/lib/arvados/tmp/python
 603 python3 -m venv "$v"
 604 . "$v/bin/activate"
 605 pip3 install --no-cache-dir 'setuptools>=18.5' 'pip>=7'
 606 export ARVADOS_BUILDING_VERSION="`+inst.PackageVersion+`"
 607 for src in "`+inst.SourcePath+`/sdk/python" "`+inst.SourcePath+`/services/fuse"; do
 608   rsync -a --delete-after "$src/" "$tmp/"
 609   cd "$tmp"
 610   python3 setup.py install
 611   cd ..
 612   rm -rf "$tmp"
 613 done
 614 `, stdout, stderr); err != nil {
 615                         return 1
 616                 }
 617
 618                 // Install Rails apps to /var/lib/arvados/{railsapi,workbench1}/
 619                 for dstdir, srcdir := range map[string]string{
 620                         "railsapi":   "services/api",
 621                         "workbench1": "apps/workbench",
 622                 } {
 623                         fmt.Fprintf(stderr, "building %s...\n", srcdir)
 624                         cmd := exec.Command("rsync",
 625                                 "-a", "--no-owner", "--no-group", "--delete-after", "--delete-excluded",
 626                                 "--exclude", "/coverage",
 627                                 "--exclude", "/log",
 628                                 "--exclude", "/node_modules",
 629                                 "--exclude", "/tmp",
 630                                 "--exclude", "/public/assets",
 631                                 "--exclude", "/vendor",
 632                                 "--exclude", "/config/environments",
 633                                 "./", "/var/lib/arvados/"+dstdir+"/")
 634                         cmd.Dir = filepath.Join(inst.SourcePath, srcdir)
 635                         cmd.Stdout = stdout
 636                         cmd.Stderr = stderr
 637                         err = cmd.Run()
 638                         if err != nil {
 639                                 return 1
 640                         }
 641                         for _, cmdline := range [][]string{
 642                                 {"mkdir", "-p", "log", "public/assets", "tmp", "vendor", ".bundle", "/var/www/.bundle", "/var/www/.gem", "/var/www/.npm", "/var/www/.passenger"},
 643                                 {"touch", "log/production.log"},
 644                                 {"chown", "-R", "--from=root", "www-data:www-data", "/var/www/.bundle", "/var/www/.gem", "/var/www/.npm", "/var/www/.passenger", "log", "tmp", "vendor", ".bundle", "Gemfile.lock", "config.ru", "config/environment.rb"},
 645                                 {"sudo", "-u", "www-data", "/var/lib/arvados/bin/gem", "install", "--user", "--conservative", "--no-document", "bundler:" + bundlerversion},
 646                                 {"sudo", "-u", "www-data", "/var/lib/arvados/bin/bundle", "config", "set", "--local", "deployment", "true"},
 647                                 {"sudo", "-u", "www-data", "/var/lib/arvados/bin/bundle", "config", "set", "--local", "path", "/var/www/.gem"},
 648                                 {"sudo", "-u", "www-data", "/var/lib/arvados/bin/bundle", "config", "set", "--local", "without", "development test diagnostics performance"},
 649                                 {"sudo", "-u", "www-data", "/var/lib/arvados/bin/bundle", "install", "--jobs", fmt.Sprintf("%d", runtime.NumCPU())},
 650
 651                                 {"chown", "www-data:www-data", ".", "public/assets"},
 652                                 // {"sudo", "-u", "www-data", "/var/lib/arvados/bin/bundle", "config", "set", "--local", "system", "true"},
 653                                 {"sudo", "-u", "www-data", "ARVADOS_CONFIG=none", "RAILS_GROUPS=assets", "RAILS_ENV=production", "PATH=/var/lib/arvados/bin:" + os.Getenv("PATH"), "/var/lib/arvados/bin/bundle", "exec", "rake", "npm:install"},
 654                                 {"sudo", "-u", "www-data", "ARVADOS_CONFIG=none", "RAILS_GROUPS=assets", "RAILS_ENV=production", "PATH=/var/lib/arvados/bin:" + os.Getenv("PATH"), "/var/lib/arvados/bin/bundle", "exec", "rake", "assets:precompile"},
 655                                 {"chown", "root:root", "."},
 656                                 {"chown", "-R", "root:root", "public/assets", "vendor"},
 657
 658                                 {"sudo", "-u", "www-data", "/var/lib/arvados/bin/bundle", "exec", "passenger-config", "build-native-support"},
 659                                 {"sudo", "-u", "www-data", "/var/lib/arvados/bin/bundle", "exec", "passenger-config", "install-standalone-runtime"},
 660                         } {
 661                                 if cmdline[len(cmdline)-2] == "rake" && dstdir != "workbench1" {
 662                                         continue
 663                                 }
 664                                 cmd = exec.Command(cmdline[0], cmdline[1:]...)
 665                                 cmd.Dir = "/var/lib/arvados/" + dstdir
 666                                 cmd.Stdout = stdout
 667                                 cmd.Stderr = stderr
 668                                 fmt.Fprintf(stderr, "... %s\n", cmd.Args)
 669                                 err = cmd.Run()
 670                                 if err != nil {
 671                                         return 1
 672                                 }
 673                         }
 674                         cmd = exec.Command("sudo", "-u", "www-data", "/var/lib/arvados/bin/bundle", "exec", "passenger-config", "validate-install")
 675                         cmd.Dir = "/var/lib/arvados/" + dstdir
 676                         cmd.Stdout = stdout
 677                         cmd.Stderr = stderr
 678                         err = cmd.Run()
 679                         if err != nil && !strings.Contains(err.Error(), "exit status 2") {
 680                                 // Exit code 2 indicates there were warnings (like
 681                                 // "other passenger installations have been detected",
 682                                 // which we can't expect to avoid) but no errors.
 683                                 // Other non-zero exit codes (1, 9) indicate errors.
 684                                 return 1
 685                         }
 686                 }
 687
 688                 // Install workbench2 app to /var/lib/arvados/workbench2/
 689                 if err = inst.runBash(`
 690 cd /var/lib/arvados/arvados-workbench2
 691 VERSION="`+inst.PackageVersion+`" BUILD_NUMBER=1 GIT_COMMIT="`+workbench2version[:9]+`" yarn build
 692 rsync -a --delete-after build/ /var/lib/arvados/workbench2/
 693 `, stdout, stderr); err != nil {
 694                         return 1
 695                 }
 696
 697                 // Install arvados-cli gem (binaries go in
 698                 // /var/lib/arvados/bin)
 699                 if err = inst.runBash(`
 700 /var/lib/arvados/bin/gem install --conservative --no-document arvados-cli
 701 `, stdout, stderr); err != nil {
 702                         return 1
 703                 }
 704
 705                 err = os.WriteFile("/lib/systemd/system/arvados.service", arvadosServiceFile, 0777)
 706                 if err != nil {
 707                         return 1
 708                 }
 709                 if prod {
 710                         // (fpm will do this for us in the pkg case)
 711                         // This is equivalent to "systemd enable", but
 712                         // does not depend on the systemctl program
 713                         // being available:
 714                         symlink := "/etc/systemd/system/multi-user.target.wants/arvados.service"
 715                         err = os.Remove(symlink)
 716                         if err != nil && !errors.Is(err, os.ErrNotExist) {
 717                                 return 1
 718                         }
 719                         err = os.Symlink("/lib/systemd/system/arvados.service", symlink)
 720                         if err != nil {
 721                                 return 1
 722                         }
 723                 }
 724
 725                 // Add symlinks in /usr/bin for user-facing programs
 726                 for _, srcdst := range [][]string{
 727                         // go
 728                         {"bin/arvados-client"},
 729                         {"bin/arvados-client", "arv"},
 730                         {"bin/arvados-server"},
 731                         // sdk/cli
 732                         {"bin/arv", "arv-ruby"},
 733                         {"bin/arv-tag"},
 734                         // sdk/python
 735                         {"lib/python/bin/arv-copy"},
 736                         {"lib/python/bin/arv-federation-migrate"},
 737                         {"lib/python/bin/arv-get"},
 738                         {"lib/python/bin/arv-keepdocker"},
 739                         {"lib/python/bin/arv-ls"},
 740                         {"lib/python/bin/arv-migrate-docker19"},
 741                         {"lib/python/bin/arv-normalize"},
 742                         {"lib/python/bin/arv-put"},
 743                         {"lib/python/bin/arv-ws"},
 744                         // services/fuse
 745                         {"lib/python/bin/arv-mount"},
 746                 } {
 747                         src := "/var/lib/arvados/" + srcdst[0]
 748                         if _, err = os.Stat(src); err != nil {
 749                                 return 1
 750                         }
 751                         dst := srcdst[len(srcdst)-1]
 752                         _, dst = filepath.Split(dst)
 753                         dst = "/usr/bin/" + dst
 754                         err = os.Remove(dst)
 755                         if err != nil && !errors.Is(err, os.ErrNotExist) {
 756                                 return 1
 757                         }
 758                         err = os.Symlink(src, dst)
 759                         if err != nil {
 760                                 return 1
 761                         }
 762                 }
 763         }
 764
 765         return 0
 766 }
 767
 768 type osversion struct {
 769         Debian bool
 770         Ubuntu bool
 771         Centos bool
 772         Major  int
 773 }
 774
 775 func identifyOS() (osversion, error) {
 776         var osv osversion
 777         f, err := os.Open("/etc/os-release")
 778         if err != nil {
 779                 return osv, err
 780         }
 781         defer f.Close()
 782
 783         kv := map[string]string{}
 784         scanner := bufio.NewScanner(f)
 785         for scanner.Scan() {
 786                 line := strings.TrimSpace(scanner.Text())
 787                 if strings.HasPrefix(line, "#") {
 788                         continue
 789                 }
 790                 toks := strings.SplitN(line, "=", 2)
 791                 if len(toks) != 2 {
 792                         return osv, fmt.Errorf("invalid line in /etc/os-release: %q", line)
 793                 }
 794                 k := toks[0]
 795                 v := strings.Trim(toks[1], `"`)
 796                 if v == toks[1] {
 797                         v = strings.Trim(v, `'`)
 798                 }
 799                 kv[k] = v
 800         }
 801         if err = scanner.Err(); err != nil {
 802                 return osv, err
 803         }
 804         switch kv["ID"] {
 805         case "ubuntu":
 806                 osv.Ubuntu = true
 807         case "debian":
 808                 osv.Debian = true
 809         case "centos":
 810                 osv.Centos = true
 811         default:
 812                 return osv, fmt.Errorf("unsupported ID in /etc/os-release: %q", kv["ID"])
 813         }
 814         vstr := kv["VERSION_ID"]
 815         if i := strings.Index(vstr, "."); i > 0 {
 816                 vstr = vstr[:i]
 817         }
 818         osv.Major, err = strconv.Atoi(vstr)
 819         if err != nil {
 820                 return osv, fmt.Errorf("incomprehensible VERSION_ID in /etc/os-release: %q", kv["VERSION_ID"])
 821         }
 822         return osv, nil
 823 }
 824
 825 func waitPostgreSQLReady() error {
 826         for deadline := time.Now().Add(10 * time.Second); ; {
 827                 output, err := exec.Command("pg_isready").CombinedOutput()
 828                 if err == nil {
 829                         return nil
 830                 } else if time.Now().After(deadline) {
 831                         return fmt.Errorf("timed out waiting for pg_isready (%q)", output)
 832                 } else {
 833                         time.Sleep(time.Second)
 834                 }
 835         }
 836 }
 837
 838 func (inst *installCommand) runBash(script string, stdout, stderr io.Writer) error {
 839         cmd := exec.Command("bash", "-")
 840         if inst.EatMyData {
 841                 cmd = exec.Command("eatmydata", "bash", "-")
 842         }
 843         cmd.Stdin = bytes.NewBufferString("set -ex -o pipefail\n" + script)
 844         cmd.Stdout = stdout
 845         cmd.Stderr = stderr
 846         return cmd.Run()
 847 }
 848
 849 func prodpkgs(osv osversion) []string {
 850         pkgs := []string{
 851                 "ca-certificates",
 852                 "curl",
 853                 "fuse",
 854                 "git",
 855                 "gitolite3",
 856                 "graphviz",
 857                 "haveged",
 858                 "libcurl3-gnutls",
 859                 "libxslt1.1",
 860                 "nginx",
 861                 "python3",
 862                 "sudo",
 863         }
 864         if osv.Debian || osv.Ubuntu {
 865                 if osv.Debian && osv.Major == 8 {
 866                         pkgs = append(pkgs, "libgnutls-deb0-28") // sdk/cwl
 867                 } else if osv.Debian && osv.Major >= 10 || osv.Ubuntu && osv.Major >= 16 {
 868                         pkgs = append(pkgs, "python3-distutils") // sdk/cwl
 869                 }
 870                 return append(pkgs,
 871                         "mime-support", // keep-web
 872                 )
 873         } else if osv.Centos {
 874                 return append(pkgs,
 875                         "fuse-libs", // services/fuse
 876                         "mailcap",   // keep-web
 877                 )
 878         } else {
 879                 panic("os version not supported")
 880         }
 881 }
 882
 883 func ProductionDependencies() ([]string, error) {
 884         osv, err := identifyOS()
 885         if err != nil {
 886                 return nil, err
 887         }
 888         return prodpkgs(osv), nil
 889 }