[maasha]

We can remove N from sequences:

transliterate_seq -d nN | analyze_gc

[maasha]

I have written an installer to make the Biopieces more accessible. It is located here.

[yaten2020]

biopieces installation error _ruby not getting recognized !!

Hi
While installing with installer.sh, I got following error

yk@yk-ubuntu:~/Desktop$ ./biopieces_installer-0.43.sh 

Welcome to the Biopieces installer.

   This installer is experimental, and is being evaluated to replace
   the previous, tedious way:

      http://code.google.com/p/biopieces/wiki/Installation

   The installer will now do the following:

   *  Check for existing Biopieces installation.
   *  Check prerequisites:
      -  Subversion client
      -  Perl
      -  Perl modules
      -  Ruby
      -  Ruby gems
      -  Auxillary programs

   *  Create installation directories.
   *  Download code from repository.
   *  Set environment in .bashrc.
   *  Run tests

   Problems? Check out the FAQ:

      http://code.google.com/p/biopieces/wiki/FAQ

   Help is available at the Biopieces Google Group:

      http://groups.google.com/group/biopieces

   Bugs & issues:

      http://code.google.com/p/biopieces/issues/list

Continue (yes/no)? y
Checking for existing Biopieces installation:

   No installation of Biopeices found.
Continue (yes/no)? y
Testing prerequisites:
   Testing if the running shell is bash: OK
   Testing subversion client - "svn": OK
   Testing Perl version: OK
   Testing required Perl module - "Inline": OK
   Testing required Perl module - "JSON::XS": OK
   Testing required Perl module - "SVG": OK
   Testing required Perl module - "Bit::Vector": OK
   Testing required Perl module - "Time::HiRes": OK
   Testing Ruby version: FAIL
abort
yk@yk-ubuntu:~/Desktop$ ruby --version
ruby 1.8.7 (2010-08-16 patchlevel 302) [x86_64-linux]
yk@yk-ubuntu:~/Desktop$

I guess its not recognizing the ruby installation.....
Any suggestions ??

[yaten2020]

I tried with Ruby-1.9 also. same error again.

[maasha]

The problem is your Ruby version. It is often a problem that ruby version 1.8 and 1.9 are mixed up depending on how they were installed.

ruby --version

Should tell you that you are running at least version 1.9. You may have a ruby1.9 binary, and in that case you should create a symlink.


Martin