Rami Kheireddine
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Recent activity by Rami Kheireddine Sort by recent activity-
Do you know what the format of the file should be?
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Hello Skywarrior! Just wanted to let you know the run is finally over (took 28hrs). Thank you so much for your response, I really appreciate it.
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The current locus is 3 in 238 minutes. I assume there are 26 thousand loci in Zebra Fish. So, I guess I have a long wait! :(
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Is there a way to tell how long it will take to be done, or when it is close to the end?
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Yes this is a virtual machine. I managed to increase the number of threads on it. And it is currently moving 3 times faster. Will this run take a long time to finish?
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gatk-4.4.0.0/gatk HaplotypeCaller -R /home/databench/GRCz11_RefData/GRCz11.fa -I Routput_sorted_dedup_bqsr_reads.bam -O Routput_raw_variants.vcf Using GATK jar /home/databench/gatk-4.4.0.0/gatk-pa...
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The log is very long (went on for 6 days). I stopped it at the end. Yes my system support AVX. Can you help me split the intervals into separate instances?
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The code ran for 7 days and it did not finish. Any suggestions on how to make it go faster ?