Hello,
cudaSV needs bgziptabix to be happy, which is how I became aware fo all
the scripts in
Med/libvcflib$ ls scripts/
bed2region plotXPEHH.R vcfindelproximity
vcfnulldotslashdot vcfregionreduce_and_cut
bgziptabix vcf2bed.py vcfindels
vcfplotaltdiscrepancy.r vcfregionreduce_pipe
plotBfst.R vcf2sqlite.py vcfjoincalls
vcfplotaltdiscrepancy.sh vcfregionreduce_uncompressed
plotHaplotypes.R vcfbiallelic vcfmultiallelic
vcfplotsitediscrepancy.r vcfremovenonATGC
plotHapLrt.R vcfclearid vcfmultiway
vcfplottstv.sh vcfsnps
plotPfst.R vcfclearinfo vcfmultiwayscripts
vcfprintaltdiscrepancy.r vcfsort
plot_roc.r vcfcomplex vcfnobiallelicsnps
vcfprintaltdiscrepancy.sh vcf_strip_extra_headers
plotSmoothed.R vcffirstheader vcfnoindels
vcfqualfilter vcfvarstats
plotWCfst.R vcfgtcompare.sh vcfnosnps vcfregionreduce
Med/libvcflib$ du -sh scripts/
399K scripts/
being plain missing in libvcflib1 . Should there be a libvcflib-bin
package? These scripts are expected to install together with vcflib, so
maybe having them recommended is a good idea? The vcftools package is
something independent.
debian/rules removes *.R files, so someone on this list knows more about
it all than me, please give some directions.
Best,
Steffen