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YeoLab / gscripts

General Use Scripts and Helper functions
MIT License
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Errors in running analyze_miRli.scala #86

Closed broughtonjp closed 8 years ago

broughtonjp commented 8 years ago

I'm getting the following error when running analyze_miRli.scala

INFO  14:40:33,693 QScriptManager - Compiling 1 QScript 
ERROR 14:40:36,303 QScriptManager - analyze_miRli.scala:377: too many arguments for constructor FastQC: ()org.broadinstitute.sting.queue.extensions.yeo.FastQC 
ERROR 14:40:36,309 QScriptManager -             add(new FastQC(inFastq = groomedFastq)) 
ERROR 14:40:36,310 QScriptManager -                 ^ 
ERROR 14:40:36,316 QScriptManager - analyze_miRli.scala:387: too many arguments for constructor FastQC: ()org.broadinstitute.sting.queue.extensions.yeo.FastQC 
ERROR 14:40:36,320 QScriptManager -                 add(new FastQC(miRFastq)) 
ERROR 14:40:36,320 QScriptManager -                     ^ 
ERROR 14:40:36,443 QScriptManager - two errors found 
INFO  14:40:36,566 QCommandLine - Shutting down jobs. Please wait...
gpratt commented 8 years ago

for now just comment out the fastqc call. You probably don't look at it anyway.

Gabriel Pratt Bioinformatics Graduate Student, Yeo Lab University of California San Diego

On Mon, Feb 1, 2016 at 3:26 PM, James Broughton notifications@github.com wrote:

I'm getting the following error when running analyze_miRli.scala

INFO 14:40:33,693 QScriptManager - Compiling 1 QScript ERROR 14:40:36,303 QScriptManager - analyze_miRli.scala:377: too many arguments for constructor FastQC: ()org.broadinstitute.sting.queue.extensions.yeo.FastQC ERROR 14:40:36,309 QScriptManager - add(new FastQC(inFastq = groomedFastq)) ERROR 14:40:36,310 QScriptManager - ^ ERROR 14:40:36,316 QScriptManager - analyze_miRli.scala:387: too many arguments for constructor FastQC: ()org.broadinstitute.sting.queue.extensions.yeo.FastQC ERROR 14:40:36,320 QScriptManager - add(new FastQC(miRFastq)) ERROR 14:40:36,320 QScriptManager - ^ ERROR 14:40:36,443 QScriptManager - two errors found INFO 14:40:36,566 QCommandLine - Shutting down jobs. Please wait...

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