Links on this wiki concerning the (ab)use of GNU make in the service of automated bioinformatics analysis workflows:

• distmake and qmake: SGE-enabled make
• Makefile Manifesto: a rant against make's limitations
• omake: a re-make of make that seems to fix some of the problems listed in the Makefile Manifesto
• BioMake: desiderata for a bio pipeline-oriented make
• Bioinformatics workflows: a higher-level overview
• Apache Ant, Grid Ant, CoG Kit: the Java & Python alternatives to make
• Erlang language: a pure-declarative alternative to make?

Other, related links:

• "A Pipeline is a Makefile" -- article @nodalpoint.org
• Parker DS, Gorlick MM, Lee CJ.  Evolving from bioinformatics in-the-small to bioinformatics in-the-large.  OMICS. 2003 Spring;7(1):37-48.
• makepp, a.k.a. make++
• Article about alternatives to make at freshmeat.net

-- IanHolmes - 06 Mar 2007