Hello,
I’m running the following command from picard-tools-1.125 (jre1.7.0):
java -Xmx2g -jar picard.jar CollectHiSeqXPfFailMetrics
BASECALLS_DIR=Data/Intensities/BaseCalls LANE=1 OUTPUT=out.txt
VALIDATION_STRINGENCY=LENIENT
and get:
Exception in thread "main" picard.PicardException: Could not find a format with
available files for the following data types: Position
at
picard.illumina.parser.IlluminaDataProviderFactory.<init>(IlluminaDataProviderFactory.java:172)
at
picard.illumina.parser.IlluminaDataProviderFactory.<init>(IlluminaDataProviderFactory.java:127)
at
picard.illumina.quality.CollectHiSeqXPfFailMetrics.doWork(CollectHiSeqXPfFailMetrics.java:127)
at
picard.cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:187)
at
picard.cmdline.PicardCommandLine.instanceMain(PicardCommandLine.java:89)
at picard.cmdline.PicardCommandLine.main(PicardCommandLine.java:99)
I’ve tried it on a number of HiSeqX runs (2x36, 2x151, 2x151 indexed) and they
all failed.
Any ideas?
Thank you,
Stathis
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