SingularityCWLDockerTranslator

The Singularity CWLDockerTranslator instantiates a SingularityConnector instance with the given configuration for every CWL DockerRequirement specification in the selected subworkflow.

properties
addHost	Add a custom host-to-IP mapping (host:ip)
	type	string[]
blkioWeight	Block IO (relative weight), between 10 and 1000, or 0 to disable
	type	integer
	default	0
blkioWeightDevice	Block IO weight (relative device weight)
	type	integer[]
capAdd	Add Linux capabilities
	type	string[]
capDrop	Drop Linux capabilities
	type	string[]
cgroupParent	Optional parent cgroup for the container
	type	string
cgroupns	Cgroup namespace to use. host runs the container in the Docker host’s cgroup namespace, private runs the container in its own private cgroup namespace. By default, DOcker uses the cgroup namespace as configured by the default-cgroupns-mode option on the daemon
	type	string
	enum	host, private
cidfile	Write the container ID to the file
	type	string
command	Command to run when deploying the container
	type	string[]
cpuPeriod	Limit CPU CFS (Completely Fair Scheduler) period
	type	integer
cpuQuota	Limit CPU CFS (Completely Fair Scheduler) quota
	type	integer
cpuRTPeriod	Limit CPU real-time period in microseconds
	type	integer
cpuRTRuntime	Limit CPU real-time runtime in microseconds
	type	integer
cpuShares	CPU shares (relative weight)
	type	integer
cpus	Number of CPUs
	type	number
cpusetCpus	CPUs in which to allow execution (0-3, 0,1)
	type	string
cpusetMems	MEMs in which to allow execution (0-3, 0,1)
	type	string
detachKeys	Overrude the key sequence for detaching a container
	type	string
device	Add a host device to the container
	type	string[]
deviceCgroupRule	Add a rule to the cgroup allowed devices list
	type	string[]
deviceReadBps	Limit read rate (bytes per second) from a device
	type	string[]
deviceReadIops	Limit read rate (IO per second) from a device
	type	string[]
deviceWriteBps	Limit write rate (bytes per second) from a device
	type	string[]
deviceWriteIops	Limit write rate (IO per second) from a device
	type	string[]
disableContentTrust	Skip image verification
	type	boolean
	default	True
dns	Set custom DNS servers
	type	string[]
dnsOption	Set DNS options
	type	string[]
dnsSearch	Set custom DNS search domains
	type	string[]
domainname	Container NIS domain name
	type	string
entrypoint	Overwrite the default ENTRYPOINT of the image
	type	string
env	Set environment variables
	type	string[]
envFile	Read in a file of environment variables
	type	string[]
expose	Expose a port or a range of ports
	type	integer[]
gpus	GPU devices to add to the container (‘all’ to pass all GPUs)
	type	string
groupAdd	Add additional groups to join
	type	string[]
healthCmd	Command to run to check health
	type	string
healthInterval	Time between running the check (ms|s|m|h)
	type	string
	default	0s
healthRetries	Consecutive failures needed to report unhealthy
	type	integer
healthStartPeriod	Start period for the container to initialize before starting health-retries countdown (ms|s|m|h)
	type	string
	default	0s
healthTimeout	Maximum time to allow one check to run (ms|s|m|h)
	type	string
	default	0s
hostname	Container host name
	type	string
init	Run an init inside the container that forwards signals and reaps processes
	type	boolean
	default	True
ip	IPv4 address
	type	string
ip6	IPv6 address
	type	string
ipc	IPC mode to use
	type	string
isolation	Container isolation technology
	type	string
kernelMemory	Kernel memory limit (bytes)
	type	integer
label	Set metadata on a container
	type	string[]
labelFile	Read in a line delimited file of labels
	type	string[]
link	Add link to another container
	type	string[]
linkLocalIP	Contaiener IPv4/IPv6 link-local addresses
	type	string[]
logDriver	Logging driver for the container
	type	string
	default	none
logOpt	Log driver options
	type	string[]
macAddress	Container MAC address
	type	string
memory	Memory limit (bytes)
	type	integer
memoryReservation	Memory soft limit
	type	integer
memorySwap	Swap limit equal to memory plus swap (-1 to enable unlimited swap)
	type	integer
memorySwappiness	Tune container memory swappiness (0 to 100)
	type	integer
	default	-1
mount	Attach a filesystem mount to the container
	type	string[]
network	Connect a container to a network
	type	string[]
networkAlias	Attach a network-scoped alias for the container
	type	string[]
noHealthcheck	Disable any container-specified HEALTHCHECK
	type	boolean
oomKillDisable	Disable OOM Killer
	type	boolean
oomScoreAdj	Tune host’s OOM preferences (-1000 to 1000)
	type	integer
pid	PID namespace to use
	type	string
pidsLimit	Tune container pids limit (-1 for unlimited
	type	integer
privileged	Give extended privileges to this container
	type	boolean
publish	Publish container ports to the host
	type	string[]
publishAll	Publish all exposed ports to random ports
	type	boolean
readOnly	Mount the container’s root filesystem as read only
	type	boolean
locationsCacheTTL	Available locations cache TTL (in seconds). When such cache expires, the connector performs a new request to check locations availability
	type	integer
	default	10
restart	Restart policy to apply when a container exists
	type	string
	default	no
rm	Automatically remove the container when it exits
	type	boolean
	default	True
runtime	Runtime to use for this container
	type	string
securityOpt	Security options
	type	string[]
shmSize	Size of /dev/shm
	type	integer
sigProxy	Proxy received signals to the process
	type	boolean
	default	True
stopSignal	Signal to stop a container
	type	string
	default	SIGTERM
stopTimeout	Timeout (in seconds) to stop a container
	type	integer
storageOpt	Storage driver options for the container
	type	string[]
sysctl	Sysctl options
	type	string[]
tmpfs	Mount a tmpfs directory
	type	string[]
transferBufferSize	Buffer size allocated for local and remote data transfers
	type	integer
	default	64kiB
ulimit	Ulimit options
	type	string[]
user	Username or UID (format: <name|uid>[:<group|gid>])
	type	string
userns	User namespace to use
	type	string
uts	UTS namespace to use
	type	string
volume	Bind mount a volume
	type	string[]
volumeDriver	Optional volume driver for the container
	type	string
volumesFrom	Mount volumes from the specified containers
	type	string[]
workdir	Working directory inside the container
	type	string