cnv_facets: error "samtools: error while loading shared libraries: libcrypto.so.1.0.0: cannot open shared object file: No such file or directory"

Question

[kkatoibaraki]

I tried to investigate copy number variation of tumor-normal pair using cnv_facets version 0.5.14. The command

cnv_facets.R -t tumour.bam -n normal.bam -vcf common_all.vcf.gz -o output

printed the error message

samtools: error while loading shared libraries: libcrypto.so.1.0.0: cannot open shared object file: No such file or directory

appeared on the console. I would like to know to how to execute cnv_facets command.

[Pierre Lindenbaum]

it's a problem with the way samtools was copied or installed on your server: it cannot find the dynamic library libcrypto. The LD_LIBRARY_PATH is wrong/incomplete or libcrypto is missing on your server. https://unix.stackexchange.com/questions/168340

[kkatoibaraki]

Thank you very much for your prompt reply. Similar questions and replies seem to appear in several web pages. I think shared library path is the most plausible reason. I will try to resolve the problem as you stated.

[kkatoibaraki]

Thank you very much for your prompt reply.

I tried to check shared library for executing samtools via command ldd. I have found libcrypto.so.1.0.0 is not present but libcrypto.so.1.1 is present in miniconda library where $PATH and LD_LIBRARY_PATH were settled. Next, I tried to let libcrypto.so.1.1 be recognized via symbolic link. However, this trial failed to execute cnv_facets.

Finally we uninstalled miniconda 3. Next, I installed cnv_facets on a base environment of miniconda 2, instead of installing on a dedicated environment. This worked well.

Thank you very much again.