[Bioperl-l] Re: Inline::C and io_lib

[Lincoln Stein]

Looks good!

Lincoln

On Tuesday 09 July 2002 03:40 pm, Aaron J Mackey wrote:
> On Tue, 9 Jul 2002, Lincoln Stein wrote:
> > I think that bioperl-ext is the place where other modules that have
> > C-compiler requirements go.
>
> OK, seems reasonable.  What I'll do is put Bio/SeqIO/staden/read.pm there
> (with it's appropriate Makefile.PL), and put all the SeqIO/abi.pm, etc. in
> bioperl-live; they'll each try to load staden::read, and if they can't,
> they'll fail gracefully (i.e. throw an exception that instructs the user
> to get io_lib and the bioperl-ext package).
>
> > I suggest that Makefile.PL be set up to take command-line arguments so
> > that the locations of the INC and LIB directories can be set from
> > within a script.
>
> Sure; I've also seen environment variables used this way (csh example):
>
> % setenv IOLIB_INC /opt/include/io_lib
> % setenv IOLIB_LIB /opt/lib/
> % perl Makefile.PL
>
> Also allowable:
>
> % perl Makefile.PL IOLIB_LIB=/opt/lib IOLIB_INC=/opt/include/io_lib
>
> Does this all sound good?
>
> -Aaron
>
> P.S. I'm using the staden convert_trace utility to generate trace files in
> these various formats from Chad's "version3.scf" file in t/data/ - but it
> seems to choke for 'abi' and 'alf' formats ... anyone have a file or two
> of these formats for me to test with?

-- 
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Lincoln D. Stein                           Cold Spring Harbor Laboratory
lstein@cshl.org			                  Cold Spring Harbor, NY
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