I am relatively inexperienced but would dearly like
to port a program to OSX that is currently distributed as
source, solaris and linux versions.
ARB is a widely used bioinformatics
package (over 700 files). I am learning unix commands
rapidly but don't have enough experience to do all
the extra bits needed to get it going. For example, they
ask you to edit the config file before use.
I give some of the file info below, and would ask if
anyone can give me some tips on what settings I need
to get it compiled and configured correctly. I assume
for the config.makefile file (copied below) that I need
some kind of descriptor for Mac OSX. Any ideas?
I have also given the first parts of the 'readme' and
Makefile, which seem to indicate the changes that
can be made. Any help would be greatly appreciated. If
there are any bioinformatics people there, this program
is very useful for designing 16S rRNA probes. The
download web site is at:
http://www.arb-home.de/
Regards, Mike Dyall-Smith
#
--------------------------------------------------------------------------------
# If this file is named config.makefile.template then rename it to
config.makefile
#
--------------------------------------------------------------------------------
#
# Uncomment one section, depending on your machine type and compiler options
#DEBUG = 1# don't set to 0 (comment out instead!)
# SEER = 1
#********* LINUX / gcc g++ / static ********
MACH = LINUX# Linus g++ and gcc
LINUX = 1
ECGS = 1# for newer Linux-versions
#********* SUN4 / acc CC / dynamic ********
# MACH = SUN4#
# SUN4 = 1# # Exportable Version
# MACH = SUN5#
# SUN5 = 1
# SUN_WS_50 = 1 # compile with Workshop 5.0
#********* HP ****************
# HPCC = 1
# HPGCC = 1
# MACH = HP#
#******* SGI ***********
# SGI = 1
# MACH = SGI#
#******* DIGITAL OSF ***********
# DIGITAL = 1
# MACH = DIGITAL#
__________________________________________________
The readme starts off:
How to compile ARB
edit config.makefile
optionally edit Makefile
cd DEPOT2 and make all DEPOT prgs /* read the READMES */
cd ..
make all
_________________________________________________
The Makefile starts off:
#********************* Start of user defined Section
# To setup your computer, change file config.makefile first
# set ARBHOME to this directory
ARBHOME = `pwd`
# disable all lib dirs
LD_LIBRARY_PATH = ${SYSTEM_LD_LIBRARY_PATH}:$(ARBHOME)/LIBLINK:$(ARBHOME)/lib
# get the machine type
include config.makefile
[snip rest]
__________________________________________________
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