Biotech > FAQ > EMBOSS FAQ (Frequently Asked Questions)

Installing associated software PHYLIP

To see other biotech frequently asked questions, please visit http://biotech.fyicenter.com/faq/

(Continued from previous question...)

Installing associated software PHYLIP

A) a) from the anonymous cvs code.

1) Go to the phylip directory 

       cd embassy/phylip

2) make the configuration file 

       aclocal
       autoconf
       automake

3) configure and compile 

       ./configure (use same options as you used to compile emboss)
       make
       make install

b) from PHYLIP-3.6b.tar.gz

available from our FTP server ftp://emboss.open-bio.org/pub/EMBOSS/ in file PHYLIP-3.6b.tar.gz

If you have done a full installation of EMBOSS using a 'prefix' e.g. you configured with ./configure --prefix=/usr/local/emboss and followed this with a 'make install' (highly recommended) then:

1) gunzip and untar the file anywhere 

       gunzip PHYLIP-3.6b.tar.gz
       tar xf PHYLIP-3.6b.tar

2) go into the phylip directory 

       cd PHYLIP-3.6b

3) configure and compile 

       ./configure (use same options as you used to compile emboss)
       make
       make install

       N.B. If you configured without using a prefix but did do
            a 'make install' (or specified a prefix of /usr/local,
            which amounts to the same thing) then you must configure
            using:
            ./configure --prefix=/usr/local --enable-localforce

If, on the other hand, you did not do a 'make install' of EMBOSS then:

1) Go to the emboss directory 

       cd EMBOSS-3.0.0

2) make new directory embassy if it does not exist already. 

       mkdir embassy

3) Go into that directory 

       cd embassy

4) gunzip and untar the file 

       gunzip PHYLIP-3.6b.tar.gz
       tar xvf PHYLIP-3.6b.tar

5) go into the phylip directory 

       cd PHYLIP-3.6b

6) configure and compile 

       ./configure (use same options as you used to compile emboss)
       make
7) Set your PATH to include the full path of the 'src' directory

(Continued on next question...)

Other Frequently Asked Questions