Dear All,
We set up scrun (slurm 23.11.5) integrated with rootless podman, referring to
the official documentation.
https://slurm.schedmd.com/containers.html#podman-scrun
https://slurm.schedmd.com/scrun.html#SECTION_Example-%3CB%3Escrun.lua%3C/B%3E-scripts
However, runc/crun prints the error message and fails to run the container.
Looking at the error message from runc, it seems that there is a problem with
the GID mapping configuration.
- runc
[hoge@slm-master hoge]$ podman run centos echo "Hello World"
time="2024-04-03T02:39:36Z" level=error msg="runc run failed: cannot specify
gid=5 mount option for rootless container: User namespaces enabled, but no
group mapping found."
srun: error: slm-worker: task 0: Exited with exit code 1
- crun
[hoge@slm-master hoge]$ podman run centos echo "Hello World"
srun: error: slm-worker: task 0: Exited with exit code 1
mount `devpts` to `dev/pts`: Invalid argument
When we removed the process of linux.gidMappings configuration from scrun.lua,
runc failed to run the container due to the different error, but crun succeeded.
- scrun.lua (The process of linux.gidMappings configuration)
... snip ...
-- Provide default group map as root if one not provided
-- mappings fail with build???
if (true or config["linux"]["gidMappings"] == nil)
then
config["linux"]["gidMappings"] =
{{containerID=process_group_id, hostID=math.floor(group_id),
size=1}}
end
... snip ...
- runc
[hoge@slm-master hoge]$ podman run centos echo "Hello World"
time="2024-04-03T02:37:18Z" level=error msg="runc run failed: User namespaces
enabled, but no gid mappings found."
srun: error: slm-worker: task 0: Exited with exit code 1
- crun
[hoge@slm-master hoge]$ podman run centos echo "Hello World"
Hello World
Therefore, we would like to know the following two questions.
- The reason for the failure to run the container
- Required or recommended configuration to run the container
Best Regards,
Toshiki Sonoda
- oci.conf(crun)
EnvExclude="^(SLURM_CONF|SLURM_CONF_SERVER)="
RunTimeEnvExclude="^(SLURM_CONF|SLURM_CONF_SERVER)="
RunTimeQuery="crun --rootless=true --root=/run/user/%U/ state %n.%u.%j.%s.%t"
RunTimeKill="crun --rootless=true --root=/run/user/%U/ kill -a %n.%u.%j.%s.%t"
RunTimeDelete="crun --rootless=true --root=/run/user/%U/ delete --force
%n.%u.%j.%s.%t"
RunTimeRun="crun --rootless=true --root=/run/user/%U/ run --bundle %b
%n.%u.%j.%s.%t"
- oci.conf(runc)
EnvExclude="^(SLURM_CONF|SLURM_CONF_SERVER)="
RunTimeEnvExclude="^(SLURM_CONF|SLURM_CONF_SERVER)="
RunTimeQuery="runc --rootless=true --root=/run/user/%U/ state %n.%u.%j.%s.%t"
RunTimeKill="runc --rootless=true --root=/run/user/%U/ kill -a %n.%u.%j.%s.%t"
RunTimeDelete="runc --rootless=true --root=/run/user/%U/ delete --force
%n.%u.%j.%s.%t"
RunTimeRun="runc --rootless=true --root=/run/user/%U/ run %n.%u.%j.%s.%t -b %b"
- scrun.lua
local json = require 'json'
local open = io.open
local scratch_path = "/export/nfs/"
local function read_file(path)
local file = open(path, "rb")
if not file then return nil end
local content = file:read "*all"
file:close()
return content
end
local function write_file(path, contents)
local file = open(path, "wb")
if not file then return nil end
file:write(contents)
file:close()
return
end
function slurm_scrun_stage_in(id, bundle, spool_dir, config_file, job_id,
user_id, group_id, job_env)
slurm.log_debug(string.format("stage_in(%s, %s, %s, %s, %d, %d, %d)",
id, bundle, spool_dir, config_file, job_id, user_id,
group_id))
local config = json.decode(read_file(config_file))
local rootfs = config["root"]["path"]
rc, user = slurm.allocator_command(string.format("id -un %d", user_id))
user = string.gsub(user, "%s+", "")
local root = scratch_path..user.."/scrun"
local dstfs = root.."/containers/"..id.."/rootfs/"
local dstconf = root.."/containers/"..id.."/config.json"
local p = root.."/containers/"..id.."/"
os.execute(string.format("/usr/bin/env mkdir -p %s", dstfs))
os.execute(string.format("/usr/bin/env rsync --numeric-ids --delete-after
--ignore-errors -a -- %s/ %s/", rootfs, dstfs))
slurm.set_bundle_path(p)
slurm.set_root_path(p.."rootfs")
-- Always force user namespace support in container or runc will reject
local process_user_id = 0
local process_group_id = 0
if ((config["process"] ~= nil) and (config["process"]["user"] ~= nil))
then
-- resolve out user in the container
if (config["process"]["user"]["uid"] ~= nil)
then
process_user_id=config["process"]["user"]["uid"]
else
process_user_id=0
end
-- resolve out group in the container
if (config["process"]["user"]["gid"] ~= nil)
then
process_group_id=config["process"]["user"]["gid"]
else
process_group_id=0
end
-- purge additionalGids as they are not supported in rootless
if (config["process"]["user"]["additionalGids"] ~= nil)
then
config["process"]["user"]["additionalGids"] = nil
end
end
if (config["linux"] ~= nil)
then
-- force user namespace to always be defined for rootless mode
local found = false
if (config["linux"]["namespaces"] == nil)
then
config["linux"]["namespaces"] = {}
else
for _, namespace in ipairs(config["linux"]["namespaces"]) do
if (namespace["type"] == "user")
then
found=true
break
end
end
end
if (found == false)
then
table.insert(config["linux"]["namespaces"], {type= "user"})
end
-- Provide default user map as root if one not provided
if (true or config["linux"]["uidMappings"] == nil)
then
config["linux"]["uidMappings"] =
{{containerID=process_user_id, hostID=math.floor(user_id),
size=1}}
end
-- Provide default group map as root if one not provided
-- mappings fail with build???
if (true or config["linux"]["gidMappings"] == nil)
then
config["linux"]["gidMappings"] =
{{containerID=process_group_id,
hostID=math.floor(group_id), size=1}}
end
-- disable trying to use a specific cgroup
config["linux"]["cgroupsPath"] = nil
end
-- Merge in Job environment into container -- this is optional!
if (config["process"]["env"] == nil)
then
config["process"]["env"] = {}
end
for _, env in ipairs(job_env) do
table.insert(config["process"]["env"], env)
end
-- Remove all prestart hooks to squash any networking attempts
if ((config["hooks"] ~= nil) and (config["hooks"]["prestart"] ~= nil))
then
config["hooks"]["prestart"] = nil
end
-- Remove all rlimits
if ((config["process"] ~= nil) and (config["process"]["rlimits"] ~= nil))
then
config["process"]["rlimits"] = nil
end
write_file(dstconf, json.encode(config))
return slurm.SUCCESS
end
function slurm_scrun_stage_out(id, bundle, orig_bundle, root_path,
orig_root_path, spool_dir, config_file, jobid, user_id, group_id)
os.execute("rm --one-file-system --preserve-root=all -rf "..bundle)
return slurm.SUCCESS
end
slurm.log_info("initialized scrun.lua")
return slurm.SUCCESS
- podman info
host:
arch: amd64
buildahVersion: 1.31.3
cgroupControllers:
- memory
- pids
cgroupManager: systemd
cgroupVersion: v2
conmon:
package: conmon-2.1.8-1.el9.x86_64
path: /usr/bin/conmon
version: 'conmon version 2.1.8, commit:
cebaba63f66de0e92cdc7e2a59f39c9208281158'
cpuUtilization:
idlePercent: 99.92
systemPercent: 0.05
userPercent: 0.03
cpus: 2
databaseBackend: boltdb
distribution:
distribution: '"rocky"'
version: "9.3"
eventLogger: journald
freeLocks: 2010
hostname: slm-master.novalocal
idMappings:
gidmap:
- container_id: 0
host_id: 3002
size: 1
- container_id: 1
host_id: 231072
size: 65536
uidmap:
- container_id: 0
host_id: 3002
size: 1
- container_id: 1
host_id: 231072
size: 65536
kernel: 5.14.0-362.24.1.el9_3.x86_64
linkmode: dynamic
logDriver: journald
memFree: 375476224
memTotal: 3835568128
networkBackend: netavark
networkBackendInfo:
backend: netavark
dns:
package: aardvark-dns-1.7.0-1.el9.x86_64
path: /usr/libexec/podman/aardvark-dns
version: aardvark-dns 1.7.0
package: netavark-1.7.0-2.el9_3.x86_64
path: /usr/libexec/podman/netavark
version: netavark 1.7.0
ociRuntime:
name: slurm
package: slurm-23.11.5-1.el9.x86_64
path: /usr/bin/scrun
version: |-
scrun version 23.11.5
spec: 1.0.0
os: linux
pasta:
executable: ""
package: ""
version: ""
remoteSocket:
path: /run/user/3002/podman/podman.sock
security:
apparmorEnabled: false
capabilities:
CAP_CHOWN,CAP_DAC_OVERRIDE,CAP_FOWNER,CAP_FSETID,CAP_KILL,CAP_NET_BIND_SERVICE,CAP_SETFCAP,CAP_SETGID,CAP_SETPCAP,CAP_SETUID,CAP_SYS_CHROOT
rootless: true
seccompEnabled: true
seccompProfilePath: /usr/share/containers/seccomp.json
selinuxEnabled: false
serviceIsRemote: false
slirp4netns:
executable: /usr/bin/slirp4netns
package: slirp4netns-1.2.1-1.el9.x86_64
version: |-
slirp4netns version 1.2.1
commit: 09e31e92fa3d2a1d3ca261adaeb012c8d75a8194
libslirp: 4.4.0
SLIRP_CONFIG_VERSION_MAX: 3
libseccomp: 2.5.2
swapFree: 0
swapTotal: 0
uptime: 116h 30m 51.00s (Approximately 4.83 days)
plugins:
authorization: null
log:
- k8s-file
- none
- passthrough
- journald
network:
- bridge
- macvlan
- ipvlan
volume:
- local
registries:
search:
- registry.access.redhat.com
- registry.redhat.io
- docker.io
store:
configFile: /export/nfs/hoge/.config/containers/storage.conf
containerStore:
number: 32
paused: 0
running: 0
stopped: 32
graphDriverName: vfs
graphOptions:
vfs.ignore_chown_errors: "true"
graphRoot: /export/nfs/hoge/containers
graphRootAllocated: 31042023424
graphRootUsed: 6336229376
graphStatus: {}
imageCopyTmpDir: /var/tmp
imageStore:
number: 3
runRoot: /export/nfs/hoge/containers
transientStore: false
volumePath: /export/nfs/hoge/containers/volumes
version:
APIVersion: 4.6.1
Built: 1709719721
BuiltTime: Wed Mar 6 10:08:41 2024
GitCommit: ""
GoVersion: go1.20.12
Os: linux
OsArch: linux/amd64
Version: 4.6.1
- storage.conf
[storage]
driver = "vfs"
runroot = "$HOME/containers"
graphroot = "$HOME/containers"
[storage.options]
pull_options = {use_hard_links = "true", enable_partial_images = "true"}
[storage.options.vfs]
ignore_chown_errors = "true"
- containers.conf
[containers]
apparmor_profile = "unconfined"
cgroupns = "host"
cgroups = "enabled"
default_sysctls = []
label = false
netns = "host"
no_hosts = true
pidns = "host"
utsns = "host"
userns = "host"
[engine]
cgroup_manager = "systemd"
runtime = "slurm"
runtime_supports_nocgroups = [ "slurm" ]
runtime_supports_json = [ "slurm" ]
remote = false
[engine.runtimes]
slurm = [ "/usr/bin/scrun" ]
- /etc/os-release
NAME="Rocky Linux"
VERSION="9.3 (Blue Onyx)"
ID="rocky"
ID_LIKE="rhel centos fedora"
VERSION_ID="9.3"
PLATFORM_ID="platform:el9"
PRETTY_NAME="Rocky Linux 9.3 (Blue Onyx)"
ANSI_COLOR="0;32"
LOGO="fedora-logo-icon"
CPE_NAME="cpe:/o:rocky:rocky:9::baseos"
HOME_URL="https://rockylinux.org/";
BUG_REPORT_URL="https://bugs.rockylinux.org/";
SUPPORT_END="2032-05-31"
ROCKY_SUPPORT_PRODUCT="Rocky-Linux-9"
ROCKY_SUPPORT_PRODUCT_VERSION="9.3"
REDHAT_SUPPORT_PRODUCT="Rocky Linux"
REDHAT_SUPPORT_PRODUCT_VERSION="9.3"
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