additional build tweaks

.gitmodules

@@ -3,4 +3,4 @@
 	url = git://github.com/mlin/twt.git
 [submodule "CDE"]
 	path = CDE
-	url = git://github.com/pgbovine/CDE.git
+	url = git://github.com/mlin/CDE.git

Makefile

@@ -14,7 +14,7 @@ CamlPaml: twt
 	cd lib/CamlPaml; PATH=$(PATH):$(CURDIR)/twt $(MAKE) $(MFLAGS) reinstall
 
 twt:
-	git submodule update --init
+	git submodule update --init twt
 	cd twt && $(MAKE)
 
 cde-package: PhyloCSF CDE
@@ -23,10 +23,10 @@ cde-package: PhyloCSF CDE
 	CDE/cde ./PhyloCSF.$(ARCH) 29mammals PhyloCSF_Examples/ALDH2.exon5.fa --frames=3 --allScores
 	CDE/cde ./PhyloCSF.$(ARCH) 29mammals PhyloCSF_Examples/Aldh2.mRNA.fa --strategy=fixed --frames=3 --orf=ATGStop --minCodons=400 --allScores --removeRefGaps --aa
 	mv cde-package cde-package.$(ARCH)
-	tar -cf cde-package.$(ARCH).tar cde-package.$(ARCH)
+	tar -cf cde-package.$(ARCH).tar cde-package.$(ARCH)	
 
 CDE:
-	git submodule update --init
+	git submodule update --init CDE
 	cd CDE && $(MAKE)
 
 clean:

README

@@ -33,11 +33,11 @@ ocaml-findlib libocamlgsl-ocaml-dev libbatteries-ocaml-dev make
 
 [1B] Install various dependencies (other Linux, Mac OS X)
 
-- GNU Scientific Library 
 * Objective Caml 3.11+, with native code compiler
 * OCaml findlib
 * OCaml Batteries Included 1.20+
-* ocamlgsl 0.60
+- GNU Scientific Library 
+- ocamlgsl 0.60 http://oandrieu.nerim.net/ocaml/gsl/ocamlgsl-0.6.0.tar.gz
 
 * These can be set up using GODI: http://godi.camlcity.org/