Commit 8a694289 authored by akaljuvee's avatar akaljuvee
Browse files

run code formatter on this

parent c7a5efd2
......@@ -282,7 +282,8 @@ class Tophat(val parent: Configurable)
.exists(_.endsWith(".bt2")))
throw new IllegalArgumentException("No bowtie2 index found for tophat")
if (R2.nonEmpty && mateInnerDist.isEmpty) {
logger.warn("The parameter 'mate_inner_dist' is not set in the configuration, TopHat will use it's default value - 50bp, please check if this value for inner mate distance is correct for the current data.")
logger.warn(
"The parameter 'mate_inner_dist' is not set in the configuration, TopHat will use it's default value - 50bp, please check if this value for inner mate distance is correct for the current data.")
}
}
......
......@@ -75,7 +75,8 @@ class Bowtie(val parent: Configurable)
}
}
if (R2.nonEmpty && maxins.isEmpty) {
Logging.addError("The parameter 'maxins' that specifies the maximum allowed insert size, is missing in the configuration. Please note that Bowtie won't align reads coming from inserts longer than this value.")
Logging.addError(
"The parameter 'maxins' that specifies the maximum allowed insert size, is missing in the configuration. Please note that Bowtie won't align reads coming from inserts longer than this value.")
}
}
......
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