groovy.lang.MissingMethodException: No signature of method: Script_148f9beb.includeConfig()

[barryguglielmo]

includeConfig Not Found

Hi There,

I am developing using DSL2 and ran into an issue where my script is not recognizing includeConfig method. I tried doing it with DSL1 as well and still hit the same issue. I have deleted and re-installed Nextflow, but still have had no luck.

the head of my main.nf is:

#!/usr/bin/env nextflow

nextflow.enable.dsl=2

includeConfig "config/toy_example.config"

Program output

command line states:

Unknown method invocation `includeConfig`

.nextflow.log states:

groovy.lang.MissingMethodException: No signature of method: Script_148f9beb.includeConfig() is applicable for argument types: (Script_148f9beb$_runScript_closure1) values: [Script_148f9beb$_runScript_closure1@325bb9a6]
        at org.codehaus.groovy.runtime.ScriptBytecodeAdapter.unwrap(ScriptBytecodeAdapter.java:70)
        at org.codehaus.groovy.runtime.callsite.PogoMetaClassSite.callCurrent(PogoMetaClassSite.java:80)
        at org.codehaus.groovy.runtime.callsite.CallSiteArray.defaultCallCurrent(CallSiteArray.java:51)
        at org.codehaus.groovy.runtime.callsite.AbstractCallSite.callCurrent(AbstractCallSite.java:171)
        at org.codehaus.groovy.runtime.callsite.AbstractCallSite.callCurrent(AbstractCallSite.java:185)
        at Script_148f9beb.runScript(Script_148f9beb:5)
        at nextflow.script.BaseScript.runDsl2(BaseScript.groovy:169)
        at nextflow.script.BaseScript.run(BaseScript.groovy:200)
        at nextflow.script.ScriptParser.runScript(ScriptParser.groovy:221)

Environment

• Nextflow version: 21.10.5 build 5658
• Java version: 1.8.0_222
• Operating system: Linux
• Bash version: 4.2.46(2)

Additional context

Could this issue be caused by java and groovy and not nextflow?

[pditommaso]

includeConfig is meant to be used in the nextflow config file, not in the pipeline script.

[barryguglielmo]

Thanks for that prompt response! Wow that was a simple enough fix.

[thedam]

and is there a way to hardcode and use config file from the pipeline script?

[pditommaso]

Nope