Compiling NCBI SRA Toolkit

UPDATE As of 2020-05-20, SRA Toolkit has completely changed: what used to be Perl scripts have now been converted to be binary executables.

Obsolete

Not really difficult. Compiles fine with gcc/4.8.1.

Options:

• Java bindings for SDK: works fine with system default Java 1.8.0
• C++ bindings for SDK: works fine with g++ provided by gcc/4.8.1
• Python 3 bindings for SDK: unknown status; installed packages uses python/3.7.4
• HDF5 file access feature: Not needed -- this is a NCBI-only feature.[1]

There are probably other issues.

Most provided tests were successful.

See Also

• NCBI SRA Toolkit

References

[1] GitHub ncbi/ncbi-vdb issue #19 - response from developer