Entering edit mode
11 months ago
Andrea
▴
10
Hi,
I'm trying to install VEP on Mac. I've tried on the Anaconda Navigator, but I couldn't install. I also tried through the terminal, but also in this way I can't install. The last error that I've got is:
User
cram/cram_io.c:61:10: fatal error: 'lzma.h' file not found
#include <lzma.h>
1 error generated.
make: *** [cram/cram_io.o] Error 1
Compile didn't complete. No libhts.a library file found at INSTALL.pl line 881.
Can someone help me?
Thanks!
Probably try installing with samtools and htslib added.
I've already installed both samtools and htslib
you are installing it from within a Makefile? Are you sure that you have the
ONESHELL
feature active so that your env is propagated between each subsequent Makefile command?Ensembl provides a Docker image to run VEP: http://www.ensembl.org/info/docs/tools/vep/script/vep_download.html I would go for that. VEP is so lagacy-burden and dependency-heavy that installation from scratch might be a nightmare.