In your run directory, you should have these files:
./Data/Intensities/BaseCalls/config.xml
./Data/Intensities/config.xml
I think they are missing in your case.
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Error in bcl to fastq
Thanks seb567, no I don't have a sample-sheet. I just want to convert bcl to fastq.Leave a comment:
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I think it may be trying to use a XML file as the sample sheet for demultiplexing your data.
Did you provide --sample-sheet ?
See https://github.com/sebhtml/FastDemul...with-CASAVA.sh
for an example.
Sébastien Boisvert
Originally posted by tahamasoodi View PostLeave a comment:
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BCL to FASTQ conversion error
I am using CASAVA 1.8.2 on a separate machine and trying to convert bcl files generated by Hiseq 2000 to fastq but I am getting an error message that config.xml file does not exist at /usr/local/lib/CASAVA-1.8.2/perl/Casava/Demultiplex.pm line 111.
Can anyone please help me out from this issue.
Thanks
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