"bufio"
"bytes"
"context"
+ "errors"
"flag"
"fmt"
"io"
"os/exec"
"strconv"
"strings"
+ "syscall"
+ "time"
"git.arvados.org/arvados.git/lib/cmd"
"git.arvados.org/arvados.git/sdk/go/ctxlog"
+ "github.com/lib/pq"
)
var Command cmd.Handler = installCommand{}
+const devtestDatabasePassword = "insecure_arvados_test"
+
type installCommand struct{}
func (installCommand) RunCommand(prog string, args []string, stdin io.Reader, stdout, stderr io.Writer) int {
case "production":
prod = true
default:
- err = fmt.Errorf("cluster type must be 'development', 'test', or 'production'")
+ err = fmt.Errorf("invalid cluster type %q (must be 'development', 'test', or 'production')", *clusterType)
return 2
}
+ if prod {
+ err = errors.New("production install is not yet implemented")
+ return 1
+ }
+
osv, err := identifyOS()
if err != nil {
return 1
"bison",
"bsdmainutils",
"build-essential",
+ "ca-certificates",
"cadaver",
"curl",
- "cython",
+ "cython3",
"daemontools", // lib/boot uses setuidgid to drop privileges when running as root
+ "default-jdk-headless",
+ "default-jre-headless",
"fuse",
"gettext",
"git",
"libpam-dev",
"libpcre3-dev",
"libpq-dev",
- "libpython2.7-dev",
"libreadline-dev",
"libssl-dev",
"libwww-perl",
"pkg-config",
"postgresql",
"postgresql-contrib",
- "python",
"python3-dev",
- "python-epydoc",
"r-base",
"r-cran-testthat",
"sudo",
- "virtualenv",
+ "python3-virtualenv",
+ "python3-venv",
"wget",
"xvfb",
"zlib1g-dev",
logger.Print("ruby " + rubyversion + " already installed")
} else {
err = runBash(`
-mkdir -p /var/lib/arvados/src
-cd /var/lib/arvados/src
-wget -c https://cache.ruby-lang.org/pub/ruby/2.5/ruby-`+rubyversion+`.tar.gz
-tar xzf ruby-`+rubyversion+`.tar.gz
-cd ruby-`+rubyversion+`
+mkdir -p /var/lib/arvados/tmp
+tmp=/var/lib/arvados/tmp/ruby-`+rubyversion+`
+trap "rm -r ${tmp}" ERR
+wget --progress=dot:giga -O- https://cache.ruby-lang.org/pub/ruby/2.5/ruby-`+rubyversion+`.tar.gz | tar -C /var/lib/arvados/tmp -xzf -
+cd ${tmp}
./configure --disable-install-doc --prefix /var/lib/arvados
make -j4
make install
/var/lib/arvados/bin/gem install bundler
-cd ..
-rm -r ruby-`+rubyversion+` ruby-`+rubyversion+`.tar.gz
+rm -r ${tmp}
`, stdout, stderr)
if err != nil {
return 1
} else {
err = runBash(`
cd /tmp
-wget -O- https://storage.googleapis.com/golang/go`+goversion+`.linux-amd64.tar.gz | tar -C /var/lib/arvados -xzf -
+wget --progress=dot:giga -O- https://storage.googleapis.com/golang/go`+goversion+`.linux-amd64.tar.gz | tar -C /var/lib/arvados -xzf -
ln -sf /var/lib/arvados/go/bin/* /usr/local/bin/
`, stdout, stderr)
if err != nil {
} else {
err = runBash(`
PJS=phantomjs-`+pjsversion+`-linux-x86_64
-wget -O- https://bitbucket.org/ariya/phantomjs/downloads/$PJS.tar.bz2 | tar -C /var/lib/arvados -xjf -
+wget --progress=dot:giga -O- https://bitbucket.org/ariya/phantomjs/downloads/$PJS.tar.bz2 | tar -C /var/lib/arvados -xjf -
ln -sf /var/lib/arvados/$PJS/bin/phantomjs /usr/local/bin/
`, stdout, stderr)
if err != nil {
} else {
err = runBash(`
GD=v`+geckoversion+`
-wget -O- https://github.com/mozilla/geckodriver/releases/download/$GD/geckodriver-$GD-linux64.tar.gz | tar -C /var/lib/arvados/bin -xzf - geckodriver
+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
ln -sf /var/lib/arvados/bin/geckodriver /usr/local/bin/
`, stdout, stderr)
if err != nil {
} else {
err = runBash(`
NJS=`+nodejsversion+`
-wget -O- https://nodejs.org/dist/${NJS}/node-${NJS}-linux-x64.tar.xz | sudo tar -C /var/lib/arvados -xJf -
+wget --progress=dot:giga -O- https://nodejs.org/dist/${NJS}/node-${NJS}-linux-x64.tar.xz | sudo tar -C /var/lib/arvados -xJf -
ln -sf /var/lib/arvados/node-${NJS}-linux-x64/bin/{node,npm} /usr/local/bin/
`, stdout, stderr)
if err != nil {
return 1
}
}
+
+ gradleversion := "5.3.1"
+ if havegradleversion, err := exec.Command("/usr/local/bin/gradle", "--version").CombinedOutput(); err == nil && strings.Contains(string(havegradleversion), "Gradle "+gradleversion+"\n") {
+ logger.Print("gradle " + gradleversion + " already installed")
+ } else {
+ err = runBash(`
+G=`+gradleversion+`
+mkdir -p /var/lib/arvados/tmp
+zip=/var/lib/arvados/tmp/gradle-${G}-bin.zip
+trap "rm ${zip}" ERR
+wget --progress=dot:giga -O${zip} https://services.gradle.org/distributions/gradle-${G}-bin.zip
+unzip -o -d /var/lib/arvados ${zip}
+ln -sf /var/lib/arvados/gradle-${G}/bin/gradle /usr/local/bin/
+rm ${zip}
+`, stdout, stderr)
+ if err != nil {
+ return 1
+ }
+ }
+
+ // The entry in /etc/locale.gen is "en_US.UTF-8"; once
+ // it's installed, locale -a reports it as
+ // "en_US.utf8".
+ wantlocale := "en_US.UTF-8"
+ if havelocales, err := exec.Command("locale", "-a").CombinedOutput(); err == nil && bytes.Contains(havelocales, []byte(strings.Replace(wantlocale+"\n", "UTF-", "utf", 1))) {
+ logger.Print("locale " + wantlocale + " already installed")
+ } else {
+ err = runBash(`sed -i 's/^# *\(`+wantlocale+`\)/\1/' /etc/locale.gen && locale-gen`, stdout, stderr)
+ if err != nil {
+ return 1
+ }
+ }
+
+ var pgc struct {
+ Version string
+ Cluster string
+ Port int
+ Status string
+ Owner string
+ DataDirectory string
+ LogFile string
+ }
+ if pg_lsclusters, err2 := exec.Command("pg_lsclusters", "--no-header").CombinedOutput(); err2 != nil {
+ err = fmt.Errorf("pg_lsclusters: %s", err2)
+ return 1
+ } else if pgclusters := strings.Split(strings.TrimSpace(string(pg_lsclusters)), "\n"); len(pgclusters) != 1 {
+ logger.Warnf("pg_lsclusters returned %d postgresql clusters -- skipping postgresql initdb/startup, hope that's ok", len(pgclusters))
+ } 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 {
+ err = fmt.Errorf("error parsing pg_lsclusters output: %s", err)
+ return 1
+ } else if pgc.Status == "online" {
+ logger.Infof("postgresql cluster %s-%s is online", pgc.Version, pgc.Cluster)
+ } else {
+ logger.Infof("postgresql cluster %s-%s is %s; trying to start", pgc.Version, pgc.Cluster, pgc.Status)
+ cmd := exec.Command("pg_ctlcluster", "--foreground", pgc.Version, pgc.Cluster, "start")
+ cmd.Stdout = stdout
+ cmd.Stderr = stderr
+ err = cmd.Start()
+ if err != nil {
+ return 1
+ }
+ defer func() {
+ cmd.Process.Signal(syscall.SIGTERM)
+ logger.Info("sent SIGTERM; waiting for postgres to shut down")
+ cmd.Wait()
+ }()
+ err = waitPostgreSQLReady()
+ if err != nil {
+ return 1
+ }
+ }
+
+ if os.Getpid() == 1 {
+ // We are the init process (presumably in a
+ // docker container) so although postgresql is
+ // installed, it's not running, and initdb
+ // might never have been run.
+ }
+
+ var needcoll []string
+ // If the en_US.UTF-8 locale wasn't installed when
+ // postgresql initdb ran, it needs to be added
+ // explicitly before we can use it in our test suite.
+ for _, collname := range []string{"en_US", "en_US.UTF-8"} {
+ 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')")
+ cmd.Dir = "/"
+ out, err2 := cmd.CombinedOutput()
+ if err != nil {
+ err = fmt.Errorf("error while checking postgresql collations: %s", err2)
+ return 1
+ }
+ if strings.Contains(string(out), "1") {
+ logger.Infof("postgresql supports collation %s", collname)
+ } else {
+ needcoll = append(needcoll, collname)
+ }
+ }
+ if len(needcoll) > 0 && os.Getpid() != 1 {
+ // In order for the CREATE COLLATION statement
+ // below to work, the locale must have existed
+ // when PostgreSQL started up. If we're
+ // running as init, we must have started
+ // PostgreSQL ourselves after installing the
+ // locales. Otherwise, it might need a
+ // restart, so we attempt to restart it with
+ // systemd.
+ if err = runBash(`sudo systemctl restart postgresql`, stdout, stderr); err != nil {
+ logger.Warn("`systemctl restart postgresql` failed; hoping postgresql does not need to be restarted")
+ } else if err = waitPostgreSQLReady(); err != nil {
+ return 1
+ }
+ }
+ for _, collname := range needcoll {
+ cmd := exec.Command("sudo", "-u", "postgres", "psql", "-c", "CREATE COLLATION \""+collname+"\" (LOCALE = \"en_US.UTF-8\")")
+ cmd.Stdout = stdout
+ cmd.Stderr = stderr
+ cmd.Dir = "/"
+ err = cmd.Run()
+ if err != nil {
+ err = fmt.Errorf("error adding postgresql collation %s: %s", collname, err)
+ return 1
+ }
+ }
+
+ withstuff := "WITH LOGIN SUPERUSER ENCRYPTED PASSWORD " + pq.QuoteLiteral(devtestDatabasePassword)
+ cmd := exec.Command("sudo", "-u", "postgres", "psql", "-c", "ALTER ROLE arvados "+withstuff)
+ cmd.Dir = "/"
+ if err := cmd.Run(); err == nil {
+ logger.Print("arvados role exists; superuser privileges added, password updated")
+ } else {
+ cmd := exec.Command("sudo", "-u", "postgres", "psql", "-c", "CREATE ROLE arvados "+withstuff)
+ cmd.Dir = "/"
+ cmd.Stdout = stdout
+ cmd.Stderr = stderr
+ err = cmd.Run()
+ if err != nil {
+ return 1
+ }
+ }
}
return 0
}
osv.Major, err = strconv.Atoi(vstr)
if err != nil {
- return osv, fmt.Errorf("incomprehensible VERSION_ID in /etc/os/release: %q", kv["VERSION_ID"])
+ return osv, fmt.Errorf("incomprehensible VERSION_ID in /etc/os-release: %q", kv["VERSION_ID"])
}
return osv, nil
}
+func waitPostgreSQLReady() error {
+ for deadline := time.Now().Add(10 * time.Second); ; {
+ output, err := exec.Command("pg_isready").CombinedOutput()
+ if err == nil {
+ return nil
+ } else if time.Now().After(deadline) {
+ return fmt.Errorf("timed out waiting for pg_isready (%q)", output)
+ } else {
+ time.Sleep(time.Second)
+ }
+ }
+}
+
func runBash(script string, stdout, stderr io.Writer) error {
cmd := exec.Command("bash", "-")
cmd.Stdin = bytes.NewBufferString("set -ex -o pipefail\n" + script)
projects / arvados.git / blobdiff