[EMBOSS] Problem installing Phylip

[ajb at ebi.ac.uk]

Hello Sebastian,

The appended is from the FAQ file, see section 'b)'.

> make[1]: *** No rule to make target `../../../nucleus/libnucleus.la',
> needed by `fclique'.  Stop.
> make[1]: Leaving directory `/home/dnalinux/bioinfo/PHYLIPNEW-3.6b/src'

It looks like you did not configure using the same --prefix command
you used for configuring the main package.

HTH

Alan


Q) 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



> I downloaded phylipnew3.6 from emboss website, configure OK, but make
> gave me this error:
>
> (...)
>         then mv -f ".deps/phylip.Tpo" ".deps/phylip.Po"; else rm -f
> ".deps/phylip.Tpo"; exit 1; fi
> make[1]: *** No rule to make target `../../../nucleus/libnucleus.la',
> needed by `fclique'.  Stop.
> make[1]: Leaving directory `/home/dnalinux/bioinfo/PHYLIPNEW-3.6b/src'
> make: *** [all-recursive] Error 1
>
> Best,
> SB.
>
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