jkbonfield
commented
9 months ago "Protocol not supported" ususally means htslib was built without libcurl. While this is possible to do, it generally causes more confusion downstream such as this, so it's best to get it building complete.
If you built it yourself, install (or get installed) the necessary dependencies before running ./configure. See the INSTALL notes for details. If you're using a prebuilt binary from someone else, try another source of prebuilt binaries (eg conda) or build from source instead.
Also, as you said you have samtools as well as htslib built, you can do samtools --version which should report how the package was built.
Environment: windows 11 wsl2 + ubuntu 22.04 samtools, htslib 1.18
Running tabix -fh ftp://ngs.sanger.ac.uk/production/ag1000g/phase1/preview/ag1000g.AC.phase1.AR1.vcf.gz 3L:1-200000 |bgzip -c > centro.vcf.gz
get a error: [E::hts_open_format] Failed to open file "ftp://ngs.sanger.ac.uk/production/ag1000g/phase1/preview/ag1000g.AC.phase1.AR1.vcf.gz" : Protocol not supported Could not open "ftp://ngs.sanger.ac.uk/production/ag1000g/phase1/preview/ag1000g.AC.phase1.AR1.vcf.gz": Protocol not supported
But, wget the file and tbi file wget ftp://ngs.sanger.ac.uk/production/ag1000g/phase1/preview/ag1000g.AC.phase1.AR1.vcf.gz wget ftp://ngs.sanger.ac.uk/production/ag1000g/phase1/preview/ag1000g.AC.phase1.AR1.vcf.gz.tbi
and then tabix -fh ag1000g.AC.phase1.AR1.vcf.gz 2:39967768-39967768
it works normal.
What's wrong i have made to tabix with the remote file?