thanks for this excellent tool. I noticed that when the index file is older than the annotation file, the annotated vcf file has header information, but the variant line has no expected annotations.
##INFO=<ID=ClinPred_Score,Number=1,Type=Float,Description="calculated by max of overlapping values in column 6 from /home/pmi/share/genomes/Hsapiens/GRCh37/variation/clinpred.bed.gz">
vcfanno is silent in this situation.
vcfanno version 0.3.1 [built with go1.11]
If you have encountered an error, please include:
[ ] minimal conf and lua files that you are using.
I have pushed a fix for this--it now outputs a warning if the index has been modified more recently than the data file--to an upstream dependency. thanks for reporting.
Hi,
thanks for this excellent tool. I noticed that when the index file is older than the annotation file, the annotated vcf file has header information, but the variant line has no expected annotations.
vcfanno is silent in this situation.
vcfanno version 0.3.1 [built with go1.11]
If you have encountered an error, please include:
[[annotation]] file="/home/pmi/share/genomes/Hsapiens/GRCh37/variation/clinpred.bed.gz" names = ["ClinPred_Score"] columns = [6] ops = ["max"]
[ ] urls or actual files for annotations in conf file. https://sites.google.com/site/clinpred/products-services
[ ] minimal query file.
[ ] the command you used to invoke vcfanno /home/pmi/share/anaconda/bin/vcfanno -p 4 test.conf test.vcf.gz |bgzip -c >test.anno.vcf.gz
[ ] the full error message
vcfanno produces no error message