- adoption of optionsNG

- trim historical header
- fix mixture of DOCS/EXAMPLES -> EXAMPLES
- add shared description for GLUT to bodm

Approved by:	portmgr (miwi)

2 files changed, 129 insertions, 130 deletions

diff --git a/biology/protomol/Makefile b/biology/protomol/Makefile
index 588ce97129d2..3fe7f97fff3d 100644
--- a/biology/protomol/Makefile
+++ b/biology/protomol/Makefile
@@ -1,7 +1,4 @@
-# New ports collection makefile for:   protomol
-# Date created:         5 May 2006
-# Whom:                 Sangwoo Shim <sangwoos@gmail.com>
-#
+# Created by: Sangwoo Shim <sangwoos@gmail.com>
 # $FreeBSD$
 
 PORTNAME=	protomol
@@ -10,7 +7,7 @@ PORTREVISION=	8
 CATEGORIES=	biology
 MASTER_SITES=	SF/${PORTNAME}/ProtoMol/${PORTVERSION}
 DISTNAME=	${PORTNAME}-${PORTVERSION}-tar.gz
-EXTRACT_SUFX=	# nada
+EXTRACT_SUFX=	# empty
 
 MAINTAINER=	sangwoos@gmail.com
 COMMENT=	OO, component based, framework for molecular dynamics (MD) simulations
@@ -30,18 +27,20 @@ CXXFLAGS+=	-L${LOCALBASE}/lib
 
 WRKSRC=		${WRKDIR}/${PORTNAME}
 
-OPTIONS=	GLUT "Use glut" on
+OPTIONS_DEFINE=	GLUT
+OPTIONS_DEFAULT=	GLUT
 
 .include <bsd.port.pre.mk>
+.include <bsd.port.options.mk>
 
-.if defined(WITH_GLUT)
+.if ${PORT_OPTIONS:MGLUT}
 CONFIGURE_ARGS+=	--with-glut=yes
 USE_GL=	glut
 .else
 CONFIGURE_ARGS+=	--with-glut=no
 .endif
 
-.if !defined(NOPORTDOCS)
+.if ${PORT_OPTIONS:MEXAMPLES}
 post-install:
 	@${MKDIR} ${EXAMPLESDIR}
 	cd ${WRKSRC}/examples && ${FIND} . | ${EGREP} -v '\.cvsignore' | \
diff --git a/biology/protomol/pkg-plist b/biology/protomol/pkg-plist
index 1823d8daeb80..fffcf8e5e98e 100644
--- a/biology/protomol/pkg-plist
+++ b/biology/protomol/pkg-plist
@@ -4,125 +4,125 @@ bin/dcd2dcd
 bin/iSGProtomol
 bin/protomol
 bin/xyzviz
-%%PORTDOCS%%%%EXAMPLESDIR%%/coulomb_309/309ca.config
-%%PORTDOCS%%%%EXAMPLESDIR%%/coulomb_309/309ca.par
-%%PORTDOCS%%%%EXAMPLESDIR%%/coulomb_309/309ca.pos.xyz
-%%PORTDOCS%%%%EXAMPLESDIR%%/coulomb_309/309ca.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/alanine.equil.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/alanine.7ns.namd
-%%PORTDOCS%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/alanine.equil.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/ala607.pgn
-%%PORTDOCS%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/alanine.namd
-%%PORTDOCS%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/alanine.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/alanine.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/argon_400/argon.par
-%%PORTDOCS%%%%EXAMPLESDIR%%/argon_400/argon.lf.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/argon_400/argon.npt.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/argon_400/argon.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/argon_400/argon.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/argon_400/argon.vel.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_1101/bpti.par
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_1101/bpti.hmc.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_1101/bpti.lf.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_1101/bpti.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_1101/bpti.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_1101/bpti.shmc.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.shake.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.ewald.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.mg.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.namd
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.par
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.pbc.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/runButaneTests.sh
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/README
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/UA_butane.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/UA_butane.dhmc.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/UA_butane.hmc.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/UA_butane.lf.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/UA_butane.par
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/UA_butane.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/UA_butane.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/angleSetDHMC
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/cleanOutput.bash
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/dihedralSetDHMC
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/procDihedralFile.awk
-%%PORTDOCS%%%%EXAMPLESDIR%%/butane_4/runButaneResults.sh
-%%PORTDOCS%%%%EXAMPLESDIR%%/alanine_dipeptide_23/ala_equil.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/alanine_dipeptide_23/ala_equil.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/alanine_dipeptide_23/ala_equilibrated.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/alanine_dipeptide_23/ala_equilibrated.pgn
-%%PORTDOCS%%%%EXAMPLESDIR%%/decalanine_66/dihedralIndexSet
-%%PORTDOCS%%%%EXAMPLESDIR%%/decalanine_66/alanine.BSplineMOLLY.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/decalanine_66/alanine.Equilibrium.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/decalanine_66/alanine.LF.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/decalanine_66/alanine.LFwDihedralOut.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/decalanine_66/alanine.PLF.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/decalanine_66/alanine.Shake.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/decalanine_66/alanine.par
-%%PORTDOCS%%%%EXAMPLESDIR%%/decalanine_66/alanine.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/decalanine_66/alanine.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/decalanine_66/alanine.testSet
-%%PORTDOCS%%%%EXAMPLESDIR%%/decalanine_66/alanine.water.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/decalanine_66/alanine.water.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/electrons_22/22el.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/electrons_22/22el.pos.xyz
-%%PORTDOCS%%%%EXAMPLESDIR%%/electrons_22/22el.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/electrons_22/22el.vel.xyz
-%%PORTDOCS%%%%EXAMPLESDIR%%/electrons_22/el.par
-%%PORTDOCS%%%%EXAMPLESDIR%%/methane_ethane_xxx/iSGMD_README
-%%PORTDOCS%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane.par
-%%PORTDOCS%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane.trans
-%%PORTDOCS%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_100.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_100_Pure_Trappe.coor.xyz
-%%PORTDOCS%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_100_Pure_Trappe.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_100_Pure_Trappe.vel.xyz
-%%PORTDOCS%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_100_Pure_Trappe.xsc
-%%PORTDOCS%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_300.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_300_Pure_Trappe.coor.xyz
-%%PORTDOCS%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_300_Pure_Trappe.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_300_Pure_Trappe.vel.xyz
-%%PORTDOCS%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_300_Pure_Trappe.xsc
-%%PORTDOCS%%%%EXAMPLESDIR%%/testset/test.tcsh
-%%PORTDOCS%%%%EXAMPLESDIR%%/testset/README
-%%PORTDOCS%%%%EXAMPLESDIR%%/testset/hmc.Bsp_PME.pb.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/testset/hmc.std.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/testset/lf.Ewald.pb.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/testset/lf.MG.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/testset/lf.PME.pb.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/testset/lf.std.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/testset/lf.std.pb.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/testset/shmc.Bsp_PME.pb.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/testset/shmc.std.pb.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/testset/slf.std.pb.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_216/water216.vel.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_216/water216.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_216/water216.coor.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_216/water216.new.pos.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_216/water216.new.vel.pdb
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_216/water216.par
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_216/water216.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_648/water648.tip3.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_648/water648.fluid.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_648/water648.fluid.pos.xyz
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_648/water648.ice.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_648/water648.ice.nvt.conf
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_648/water648.ice.pos.xyz
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_648/water648.spce.par
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_648/water648.spce.psf
-%%PORTDOCS%%%%EXAMPLESDIR%%/water_648/water648.tip3.par
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/coulomb_309
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/alanine_dipeptide_water_184x
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/argon_400
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/bpti_water_1101
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/bpti_water_14281
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/butane_4
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/alanine_dipeptide_23
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/decalanine_66
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/electrons_22
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/methane_ethane_xxx
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/testset
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/water_216
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/water_648
-%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/coulomb_309/309ca.config
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/coulomb_309/309ca.par
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/coulomb_309/309ca.pos.xyz
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/coulomb_309/309ca.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/alanine.equil.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/alanine.7ns.namd
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/alanine.equil.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/ala607.pgn
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/alanine.namd
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/alanine.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/alanine_dipeptide_water_184x/alanine.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/argon_400/argon.par
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/argon_400/argon.lf.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/argon_400/argon.npt.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/argon_400/argon.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/argon_400/argon.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/argon_400/argon.vel.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_1101/bpti.par
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_1101/bpti.hmc.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_1101/bpti.lf.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_1101/bpti.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_1101/bpti.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_1101/bpti.shmc.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.shake.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.ewald.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.mg.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.namd
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.par
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.pbc.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/bpti_water_14281/bpti.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/runButaneTests.sh
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/README
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/UA_butane.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/UA_butane.dhmc.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/UA_butane.hmc.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/UA_butane.lf.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/UA_butane.par
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/UA_butane.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/UA_butane.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/angleSetDHMC
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/cleanOutput.bash
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/dihedralSetDHMC
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/procDihedralFile.awk
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/butane_4/runButaneResults.sh
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/alanine_dipeptide_23/ala_equil.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/alanine_dipeptide_23/ala_equil.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/alanine_dipeptide_23/ala_equilibrated.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/alanine_dipeptide_23/ala_equilibrated.pgn
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/decalanine_66/dihedralIndexSet
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/decalanine_66/alanine.BSplineMOLLY.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/decalanine_66/alanine.Equilibrium.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/decalanine_66/alanine.LF.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/decalanine_66/alanine.LFwDihedralOut.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/decalanine_66/alanine.PLF.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/decalanine_66/alanine.Shake.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/decalanine_66/alanine.par
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/decalanine_66/alanine.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/decalanine_66/alanine.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/decalanine_66/alanine.testSet
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/decalanine_66/alanine.water.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/decalanine_66/alanine.water.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/electrons_22/22el.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/electrons_22/22el.pos.xyz
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/electrons_22/22el.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/electrons_22/22el.vel.xyz
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/electrons_22/el.par
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/methane_ethane_xxx/iSGMD_README
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane.par
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane.trans
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_100.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_100_Pure_Trappe.coor.xyz
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_100_Pure_Trappe.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_100_Pure_Trappe.vel.xyz
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_100_Pure_Trappe.xsc
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_300.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_300_Pure_Trappe.coor.xyz
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_300_Pure_Trappe.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_300_Pure_Trappe.vel.xyz
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/methane_ethane_xxx/ethane_methane_300_Pure_Trappe.xsc
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/testset/test.tcsh
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/testset/README
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/testset/hmc.Bsp_PME.pb.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/testset/hmc.std.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/testset/lf.Ewald.pb.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/testset/lf.MG.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/testset/lf.PME.pb.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/testset/lf.std.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/testset/lf.std.pb.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/testset/shmc.Bsp_PME.pb.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/testset/shmc.std.pb.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/testset/slf.std.pb.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_216/water216.vel.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_216/water216.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_216/water216.coor.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_216/water216.new.pos.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_216/water216.new.vel.pdb
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_216/water216.par
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_216/water216.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_648/water648.tip3.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_648/water648.fluid.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_648/water648.fluid.pos.xyz
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_648/water648.ice.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_648/water648.ice.nvt.conf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_648/water648.ice.pos.xyz
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_648/water648.spce.par
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_648/water648.spce.psf
+%%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_648/water648.tip3.par
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/coulomb_309
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/alanine_dipeptide_water_184x
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/argon_400
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/bpti_water_1101
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/bpti_water_14281
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/butane_4
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/alanine_dipeptide_23
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/decalanine_66
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/electrons_22
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/methane_ethane_xxx
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/testset
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/water_216
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/water_648
+%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%