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R2915/singularity-pipeline-runner/cowsay.yaml
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cowsay.yaml
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## Those will be used in default image name
name: CowSay
version: 1
## Those are purely informative at the moment
author: Alexander Kashev
author_org: UniBe
source:
## Extra substitutions for commands
## {image} is always available; in some contexts,
## To use literal {foo} in commands, double the braces: {{foo}}
substitutions:
text: "Moo"
## Build instructions
build:
## Currently supported: bootstrap (will run sudo), pull, custom
type: pull
## Size in MB; optional for pull
size: 512
## Extra options to pass to corresponding singularity build command; string
# options: "--some-option"
## For bootstrap, should be a local Singularity file
## For pull, shub / docker URL
source: docker://chuanwen/cowsay
## Only for build type "custom".
## Additional substitutions: {source}, {size} (as "--size XXX") and {options}
# commands:
# - "singularity ..."
## Credentials for docker regsiteries
## Passed to singularity as environment variables
# credentials:
# username: foo
# password: bar
## Run instructions
run:
## An array of scripts to be executed in shell
## {image} will be substituted; for literal {} (e.g. shell) use {{}}
commands:
- "singularity run {image} cowsay {text} > cowsay.txt 2> /dev/null"
## Test instructions
test:
## Files required for testing; will run prepare_commands if any doesn't exist or --force specified
test_files:
- cowsay.md5
## An array of scripts to be executed in shell to prepare test_files
prepare_commands:
- "echo 'cf90f7b076caca67605e7945b354cdf2 cowsay.txt' > cowsay.md5"
## An array of scripts to be executed in shell after running
validate_commands:
- "md5sum -c cowsay.md5"
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