I’ve installed hail (with no admin rights) onto a shared drive accessible to an HPC (LSF) cluster. On the head node the install & basic testing in the install went fine, but every time I try to access a local vcf I get this error for an unsatisfied link:
import hail as hl
mt = hl.import_vcf(’/lustre/scratch116/casm/team113/vvi/scratch/temp_joint_call_holder/chr22.22.vcf.gz’, force_bgz=True)
ERROR: dlopen("/tmp/libhail7612158981357949992.so"): /usr/lib/x86_64-linux-gnu/libstdc++.so.6: version
GLIBCXX_3.4.18' not found (required by /tmp/libhail7612158981357949992.so) FATAL: caught exception java.lang.UnsatisfiedLinkError: /tmp/libhail7612158981357949992.so: /usr/lib/x86_64-linux-gnu/libstdc++.so.6: versionGLIBCXX_3.4.18’ not found (required by /tmp/libhail7612158981357949992.so)
Hail version: 0.2.9-8588a25687af
Error summary: SparkException: Job 1 cancelled because SparkContext was shut down
Can someone recommend a way of fixing this that doesn’t need admin rights?