install error of CASAVA on Ubuntu 12.04LTS

Question

I am trying to install CASAVA Bcl2Fastq 1.8.3 (developed for CentOS) on Ubuntu 12.04 LTS. However, I got an error message "No support for gzip compression" and the install failed. Luckily, I found a solution for this problem:

  sudo ln -s /usr/lib/x86_64-linux-gnu/libpthread* /usr/lib
  sudo ln -s /usr/lib/x86_64-linux-gnu/libz.so /usr/lib

But now I got another similar error "No support for bzip2 compression". I am wondering if I can do something similar to solve this error?

Answer 1

I finally solved this by linking the bzip2 library file in /usr/lib/x86_64-linux-gnu/ to /usr/lib:

  sudo ln -s /usr/lib/x86_64-linux-gnu/libbz2* /usr/lib

But I am wondering why gcc cannot find the library files automatically, is it a problem of my Unbuntu installation or some incompatibility of the CASAVA Bcl2Fastq 1.8.3 software (because it was developed and tested on CentOS)?

Answer 2

For those returning to this issue - if you can't find any of the appropriate libbz2* files under /usr/lib/x86_64-linux-gnu/, try:

sudo apt-get install libbz2-dev libbz2