[MacPorts] #45163: Prokka fails to build (some macports were used for the dependencies)

MacPorts noreply at macports.org
Fri Sep 26 02:26:43 PDT 2014


#45163: Prokka fails to build (some macports were used for the dependencies)
-------------------------+--------------------------------
 Reporter:  hobbsilla@…  |      Owner:  macports-tickets@…
     Type:  defect       |     Status:  new
 Priority:  Normal       |  Milestone:
Component:  ports        |    Version:  2.3.1
 Keywords:               |       Port:
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 I attempted to build my prokka database and get this abort message. Could
 someone help me figure out based on the provide output from my terminal
 where I could find a more detailed log that I could attach to this ticket?
 I used CPAN to install Bioperl. I believe cpanminus is in the macports but
 I'm not sure if I managed to install CPAN from elsewhere. I have
 ncbi_tools macports installed plus the blast+ through the source code just
 to cover my bases. I install GNU Parallel through the Macports. All of the
 other dependencies I installed from source code (HMMER, Aragorn, Prodigal
 and Infernal). Any help would be greatly appreciated.

 {{{
 $ prokka --setupdb
 Can't locate XML/Simple.pm in @INC (@INC contains:
 /opt/local/lib/perl5/site_perl/5.12.5/darwin-thread-multi-2level
 /opt/local/lib/perl5/site_perl/5.12.5
 /opt/local/lib/perl5/vendor_perl/5.12.5/darwin-thread-multi-2level
 /opt/local/lib/perl5/vendor_perl/5.12.5 /opt/local/lib/perl5/5.12.5
 /darwin-thread-multi-2level /opt/local/lib/perl5/5.12.5
 /opt/local/lib/perl5/site_perl /opt/local/lib/perl5/vendor_perl/5.12.4
 /darwin-thread-multi-2level /opt/local/lib/perl5/vendor_perl/5.12.4
 /opt/local/lib/perl5/vendor_perl .) at
 /Users/elixir/Documents/Programming_Folder/bioinfo/prokka-1.10/bin/prokka
 line 25.
 }}}

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Ticket URL: <https://trac.macports.org/ticket/45163>
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