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jstjohn / KentLib

Subset of the kent source libraries (perhaps out of date) that are easily built and installed on OSX and Linux. These libraries provide usefull utilities for bioinformatics programming in C. This may contain some of my own libraries for bioinformatics utilities as well as long as they install easily on both my mac and linux box.
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readme

Works by compiling object files for the library, and then archiving them into jkweb.a. You can then use these libs in your other programs by linking to libkent.a and including the headers in the 'inc' folder.

I am currently working on adding support for building shared libraries.

==Install Instructions==

0.0. If you have a ppc or alpha processor, then you may need to change the line in the Makefile that says MACHTYPE=x86_64. As of now 'ppc' and 'alpha' are the only two processor types that are defined with any special meaning in this subset. To quickly check whether or not this is still true just run: grep -R -i "MACHTYPE" * and ignore the result from the Makefile itself. If your processor is listed in one of the lines, you should probably change the MACHTYPE= line to reflect your processor type.

0.1. If you want to use a different compiler than gcc you will need to change the CC=gcc line in the Makefile. You may also need to change the compiler flags.

  1. run make

  2. done

TEXT FROM ORIGINAL KENT SOURCE LIB README This directory contains general purpose, web oriented, and computational biology oriented modules, as well as some less general stuff associated with the Intronerator web site. Initially this library was created by Jim Kent from 1999 to 2001. Since then other programmers have also added to it. Jim continues to make substantial contributions.

With the exception of the gifcomp.c module, all modules here are free for all use - public, private, or commercial. The gifcomp.c module contains code originally distributed by CompuServe under a similar "free for all" license. However this uses the LZW patented by UniSys, which UniSys started enforcing several years after CompuServe released this module. The last I heard UniSys did not require a license for non-commercial purposes, but did require a license for commercial purposes. This may change in the future, though the patent is nearing it's expiration date in any case. Commercial users are advised to either get a license for LZW, or to switch from GIF to PNG.