index older than input file
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Entering edit mode
3.4 years ago
Learner ▴ 250

I am combining several samples that are different from each other. I can combine them but I get warning which makes me worries. I had a missing index in the header which I add it. however, after merging, I get the following warning and I am wondering if I can ignore it

Done
WARN  11:16:25,133 RMDTrackBuilder - Index file /Users/analyzed/sam1.vcf.idx is out of date (index older than input file), deleting and updating the index file
WARN  11:16:38,802 RMDTrackBuilder - Index file /Users/analyzed/sam2.vcf.idx is out of date (index older than input file), deleting and updating the index file
WARN  11:16:52,653 RMDTrackBuilder - Index file /Users/analyzed/sam3.vcf.idx is out of date (index older than input file), deleting and updating the index file


should I ignore these warnings?

genome • 5.1k views
3
Entering edit mode
3.4 years ago

that shouldn't be a problem, you'll get some fresh index.

May be the difference of date of modification of sam1.vcf and sam1.vcf.idx is just too short or negative.

after generating the sam1.vcf.idx you could run

touch -c sam1.vcf.idx