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Change params.hostnames from map to string
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2 changed files with 3 additions and 24 deletions
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@ -66,12 +66,6 @@ See [`nf-core/configs`](https://github.com/nf-core/configs/tree/master/conf) for
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Please also make sure to add an extra `params` section with `params.config_profile_description`, `params.config_profile_contact` and `params.config_profile_url` set to reasonable values.
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Users will get information on who wrote the configuration profile then when executing a nf-core pipeline and can report back if there are things missing for example.
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### Checking user hostnames
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If your cluster has a set of consistent hostnames, nf-core pipelines can check that users are using your profile.
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Add one or more hostname substrings to `params.hostnames` under a key that matches the profile name.
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If the user's hostname contains this string at the start of a run or when a run fails and their profile does not contain the profile name, a warning message will be printed.
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### Testing
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If you want to add a new custom config file to `nf-core/configs` please test that your pipeline of choice runs as expected by using the [`-c`](https://www.nextflow.io/docs/latest/config.html) parameter.
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@ -61,23 +61,8 @@ profiles {
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uzh { includeConfig "${params.custom_config_base}/conf/uzh.config" }
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}
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// If user hostnames contain one of these substring and they are
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// not running the associated profile, it will trigger a warning message
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// Should be defined here for all profiles (not within profile config)
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params {
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// This is a groovy map, not a nextflow parameter set
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hostnames = [
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binac: ['.binac.uni-tuebingen.de'],
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cbe: ['.cbe.vbc.ac.at'],
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cfc: ['.hpc.uni-tuebingen.de'],
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crick: ['.thecrick.org'],
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genotoul: ['.genologin1.toulouse.inra.fr', '.genologin2.toulouse.inra.fr'],
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genouest: ['.genouest.org'],
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icr_davros: ['.davros.compute.estate'],
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imperial: ['.hpc.ic.ac.uk'],
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imperial_mb: ['.hpc.ic.ac.uk'],
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uppmax: ['.uppmax.uu.se'],
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utd_ganymede: ['ganymede.utdallas.edu'],
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utd_sysbio: ['sysbio.utdallas.edu']
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]
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// Changed from a Groovy Map to a string for backwards compatibility
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// See https://github.com/nf-core/tools/issues/1304
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hostnames = ''
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}
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