MINC (Medical Imaging NetCDF) is a medical imaging data format and an

associated set of tools and libraries. MINC was created in 1993 by Peter
Neelin at the McConnell Brain Imaging Centre of the Montreal Neurological
Institute. Many others have contributed to the design and implementation
MINC over the years.

PR:		ports/91918
Submitted by:	Jason W. Bacon <bacon (at) smithers.neuro.mcw.edu>

11 files changed, 335 insertions, 0 deletions

diff --git a/science/Makefile b/science/Makefile
index d89d0d6e915..711ce3a61ba 100644
--- a/science/Makefile
+++ b/science/Makefile
@@ -43,6 +43,7 @@
     SUBDIR += mayavi
     SUBDIR += mbdyn
     SUBDIR += mcstas
+    SUBDIR += minc
     SUBDIR += mmtk
     SUBDIR += mpb
     SUBDIR += mpqc
diff --git a/science/minc/Makefile b/science/minc/Makefile
new file mode 100644
index 00000000000..a9bc2faa591
--- /dev/null
+++ b/science/minc/Makefile
@@ -0,0 +1,80 @@
+############################################################################
+# New ports collection Makefile for:   minc 1.x (Medical Imaging NetCDF)
+# Date created:        21 Dec 2005
+# Whom:                jbacon
+#
+# $FreeBSD$
+#
+
+############################################################################
+# http://www.bic.mni.mcgill.ca/software/minc/
+# is the ultimate source for MINC, and will always contain the latest
+# source release.  If this port is not up to date enough for you,
+# you can download the latest sources and build manually.  On FreeBSD,
+# you must configure with the environment variable LDFLAGS set to
+# ${LOCALBASE}/lib so that the configure script will find libnetcdf.
+# Of course, the netcdf port must be installed first.
+
+PORTNAME=	minc
+PORTVERSION=	1.4
+CATEGORIES=	science biology
+MASTER_SITES=	http://www.bic.mni.mcgill.ca/software/distribution/packages/ \
+		http://www.neuro.mcw.edu/~bacon/Ports/distfiles/
+
+MAINTAINER=	bacon@smithers.neuro.mcw.edu
+COMMENT=	Medical Imaging NetCDF
+
+LIB_DEPENDS=	netcdf.1:${PORTSDIR}/science/netcdf
+
+INSTALLS_SHLIB=	yes
+
+USE_AUTOTOOLS=	libtool:15
+
+# Build parameters
+#WRKSRC=		${WRKDIR}/minc-${PORTVERSION}
+
+MAN1=	dcm2mnc.1 \
+	ecattominc.1 \
+	invert_raw_image.1 \
+	minc_modify_header.1 \
+	mincaverage.1 \
+	minccalc.1 \
+	mincconcat.1 \
+	minccopy.1 \
+	mincdiff.1 \
+	mincedit.1 \
+	mincexpand.1 \
+	mincextract.1 \
+	mincheader.1 \
+	mincinfo.1 \
+	minclookup.1 \
+	mincmakescalar.1 \
+	mincmakevector.1 \
+	mincmath.1 \
+	mincpik.1 \
+	mincresample.1 \
+	mincreshape.1 \
+	mincstats.1 \
+	minctoecat.1 \
+	minctoraw.1 \
+	mincview.1 \
+	mincwindow.1 \
+	mnc2nii.1 \
+	nii2mnc.1 \
+	rawtominc.1 \
+	transformtags.1 \
+	upet2mnc.1 \
+	voxeltoworld.1 \
+	xfmconcat.1 \
+	xfminvert.1
+MAN3=	ParseArgv.3
+
+CONFIGURE_ENV=	CPPFLAGS="-I${LOCALBASE}/include"	\
+		LDFLAGS="${LDFLAGS} -L${LOCALBASE}/lib"
+CONFIGURE_ARGS=	--enable-shared=yes --enable-static=yes
+CONFIGURE_TARGET=--build=${MACHINE_ARCH}-portbld-freebsd${OSREL}
+
+post-install:
+	${CAT} ${PKGMESSAGE}
+
+.include <bsd.port.mk>
diff --git a/science/minc/distinfo b/science/minc/distinfo
new file mode 100644
index 00000000000..c73ee7c2269
--- /dev/null
+++ b/science/minc/distinfo
@@ -0,0 +1,3 @@
+MD5 (minc-1.4.tar.gz) = 873a6deed8109f95d29a197bad9f6070
+SHA256 (minc-1.4.tar.gz) = a07c9523f232c823f38275bc8bb23011e70a29a0a45071dad0dec81317a75c4f
+SIZE (minc-1.4.tar.gz) = 1213768
diff --git a/science/minc/pkg-descr b/science/minc/pkg-descr
new file mode 100644
index 00000000000..9e5380b9987
--- /dev/null
+++ b/science/minc/pkg-descr
@@ -0,0 +1,10 @@
+MINC (Medical Imaging NetCDF) is a medical imaging data format and an 
+associated set of tools and libraries. MINC was created in 1993 by Peter 
+Neelin at the McConnell Brain Imaging Centre of the Montreal Neurological 
+Institute. Many others have contributed to the design and implementation 
+MINC over the years.
+
+WWW: http://www.bic.mni.mcgill.ca/software/minc/
+
+Port maintainer: Jason W. Bacon
+		 bacon@smithers.neuro.mcw.edu
diff --git a/science/minc/pkg-message b/science/minc/pkg-message
new file mode 100644
index 00000000000..645690e9454
--- /dev/null
+++ b/science/minc/pkg-message
@@ -0,0 +1,8 @@
+=============================================================================
+For questions or comments regarding this port, please contact the
+port maintainer: bacon@smithers.neuro.mcw.edu
+
+For MINC usage, please visit the MINC WEB site at
+
+http://www.bic.mni.mcgill.ca/software/minc/
+=============================================================================
diff --git a/science/minc/pkg-plist b/science/minc/pkg-plist
new file mode 100644
index 00000000000..95cdcace1c1
--- /dev/null
+++ b/science/minc/pkg-plist
@@ -0,0 +1,66 @@
+bin/dcm2mnc
+bin/ecattominc
+bin/invert_raw_image
+bin/minc_modify_header
+bin/mincaverage
+bin/minccalc
+bin/mincconcat
+bin/minccopy
+bin/mincdiff
+bin/mincedit
+bin/mincexpand
+bin/mincextract
+bin/mincheader
+bin/minchistory
+bin/mincinfo
+bin/minclookup
+bin/mincmakescalar
+bin/mincmakevector
+bin/mincmath
+bin/mincpik
+bin/mincresample
+bin/mincreshape
+bin/mincstats
+bin/minctoecat
+bin/minctoraw
+bin/mincview
+bin/mincwindow
+bin/mnc2nii
+bin/nii2mnc
+bin/rawtominc
+bin/transformtags
+bin/upet2mnc
+bin/voxeltoworld
+bin/worldtovoxel
+bin/xfmconcat
+bin/xfminvert
+include/ParseArgv.h
+include/minc.h
+include/minc_simple.h
+include/nd_loop.h
+include/time_stamp.h
+include/volume_io.h
+include/volume_io/alloc.h
+include/volume_io/arrays.h
+include/volume_io/basic.h
+include/volume_io/def_math.h
+include/volume_io/files.h
+include/volume_io/geom_structs.h
+include/volume_io/geometry.h
+include/volume_io/internal_volume_io.h
+include/volume_io/multidim.h
+include/volume_io/progress.h
+include/volume_io/string_funcs.h
+include/volume_io/system_dependent.h
+include/volume_io/transforms.h
+include/volume_io/vol_io_prototypes.h
+include/volume_io/volume.h
+include/volume_io/volume_cache.h
+include/voxel_loop.h
+lib/libminc.a
+lib/libminc.so
+lib/libminc.so.1
+lib/libvolume_io.a
+lib/libvolume_io.so
+lib/libvolume_io.so.0
+@dirrm include/volume_io
diff --git a/science/minc2/Makefile b/science/minc2/Makefile
new file mode 100644
index 00000000000..a9bc2faa591
--- /dev/null
+++ b/science/minc2/Makefile
@@ -0,0 +1,80 @@
+############################################################################
+# New ports collection Makefile for:   minc 1.x (Medical Imaging NetCDF)
+# Date created:        21 Dec 2005
+# Whom:                jbacon
+#
+# $FreeBSD$
+#
+
+############################################################################
+# http://www.bic.mni.mcgill.ca/software/minc/
+# is the ultimate source for MINC, and will always contain the latest
+# source release.  If this port is not up to date enough for you,
+# you can download the latest sources and build manually.  On FreeBSD,
+# you must configure with the environment variable LDFLAGS set to
+# ${LOCALBASE}/lib so that the configure script will find libnetcdf.
+# Of course, the netcdf port must be installed first.
+
+PORTNAME=	minc
+PORTVERSION=	1.4
+CATEGORIES=	science biology
+MASTER_SITES=	http://www.bic.mni.mcgill.ca/software/distribution/packages/ \
+		http://www.neuro.mcw.edu/~bacon/Ports/distfiles/
+
+MAINTAINER=	bacon@smithers.neuro.mcw.edu
+COMMENT=	Medical Imaging NetCDF
+
+LIB_DEPENDS=	netcdf.1:${PORTSDIR}/science/netcdf
+
+INSTALLS_SHLIB=	yes
+
+USE_AUTOTOOLS=	libtool:15
+
+# Build parameters
+#WRKSRC=		${WRKDIR}/minc-${PORTVERSION}
+
+MAN1=	dcm2mnc.1 \
+	ecattominc.1 \
+	invert_raw_image.1 \
+	minc_modify_header.1 \
+	mincaverage.1 \
+	minccalc.1 \
+	mincconcat.1 \
+	minccopy.1 \
+	mincdiff.1 \
+	mincedit.1 \
+	mincexpand.1 \
+	mincextract.1 \
+	mincheader.1 \
+	mincinfo.1 \
+	minclookup.1 \
+	mincmakescalar.1 \
+	mincmakevector.1 \
+	mincmath.1 \
+	mincpik.1 \
+	mincresample.1 \
+	mincreshape.1 \
+	mincstats.1 \
+	minctoecat.1 \
+	minctoraw.1 \
+	mincview.1 \
+	mincwindow.1 \
+	mnc2nii.1 \
+	nii2mnc.1 \
+	rawtominc.1 \
+	transformtags.1 \
+	upet2mnc.1 \
+	voxeltoworld.1 \
+	xfmconcat.1 \
+	xfminvert.1
+MAN3=	ParseArgv.3
+
+CONFIGURE_ENV=	CPPFLAGS="-I${LOCALBASE}/include"	\
+		LDFLAGS="${LDFLAGS} -L${LOCALBASE}/lib"
+CONFIGURE_ARGS=	--enable-shared=yes --enable-static=yes
+CONFIGURE_TARGET=--build=${MACHINE_ARCH}-portbld-freebsd${OSREL}
+
+post-install:
+	${CAT} ${PKGMESSAGE}
+
+.include <bsd.port.mk>
diff --git a/science/minc2/distinfo b/science/minc2/distinfo
new file mode 100644
index 00000000000..c73ee7c2269
--- /dev/null
+++ b/science/minc2/distinfo
@@ -0,0 +1,3 @@
+MD5 (minc-1.4.tar.gz) = 873a6deed8109f95d29a197bad9f6070
+SHA256 (minc-1.4.tar.gz) = a07c9523f232c823f38275bc8bb23011e70a29a0a45071dad0dec81317a75c4f
+SIZE (minc-1.4.tar.gz) = 1213768
diff --git a/science/minc2/pkg-descr b/science/minc2/pkg-descr
new file mode 100644
index 00000000000..9e5380b9987
--- /dev/null
+++ b/science/minc2/pkg-descr
@@ -0,0 +1,10 @@
+MINC (Medical Imaging NetCDF) is a medical imaging data format and an 
+associated set of tools and libraries. MINC was created in 1993 by Peter 
+Neelin at the McConnell Brain Imaging Centre of the Montreal Neurological 
+Institute. Many others have contributed to the design and implementation 
+MINC over the years.
+
+WWW: http://www.bic.mni.mcgill.ca/software/minc/
+
+Port maintainer: Jason W. Bacon
+		 bacon@smithers.neuro.mcw.edu
diff --git a/science/minc2/pkg-message b/science/minc2/pkg-message
new file mode 100644
index 00000000000..645690e9454
--- /dev/null
+++ b/science/minc2/pkg-message
@@ -0,0 +1,8 @@
+=============================================================================
+For questions or comments regarding this port, please contact the
+port maintainer: bacon@smithers.neuro.mcw.edu
+
+For MINC usage, please visit the MINC WEB site at
+
+http://www.bic.mni.mcgill.ca/software/minc/
+=============================================================================
diff --git a/science/minc2/pkg-plist b/science/minc2/pkg-plist
new file mode 100644
index 00000000000..95cdcace1c1
--- /dev/null
+++ b/science/minc2/pkg-plist
@@ -0,0 +1,66 @@
+bin/dcm2mnc
+bin/ecattominc
+bin/invert_raw_image
+bin/minc_modify_header
+bin/mincaverage
+bin/minccalc
+bin/mincconcat
+bin/minccopy
+bin/mincdiff
+bin/mincedit
+bin/mincexpand
+bin/mincextract
+bin/mincheader
+bin/minchistory
+bin/mincinfo
+bin/minclookup
+bin/mincmakescalar
+bin/mincmakevector
+bin/mincmath
+bin/mincpik
+bin/mincresample
+bin/mincreshape
+bin/mincstats
+bin/minctoecat
+bin/minctoraw
+bin/mincview
+bin/mincwindow
+bin/mnc2nii
+bin/nii2mnc
+bin/rawtominc
+bin/transformtags
+bin/upet2mnc
+bin/voxeltoworld
+bin/worldtovoxel
+bin/xfmconcat
+bin/xfminvert
+include/ParseArgv.h
+include/minc.h
+include/minc_simple.h
+include/nd_loop.h
+include/time_stamp.h
+include/volume_io.h
+include/volume_io/alloc.h
+include/volume_io/arrays.h
+include/volume_io/basic.h
+include/volume_io/def_math.h
+include/volume_io/files.h
+include/volume_io/geom_structs.h
+include/volume_io/geometry.h
+include/volume_io/internal_volume_io.h
+include/volume_io/multidim.h
+include/volume_io/progress.h
+include/volume_io/string_funcs.h
+include/volume_io/system_dependent.h
+include/volume_io/transforms.h
+include/volume_io/vol_io_prototypes.h
+include/volume_io/volume.h
+include/volume_io/volume_cache.h
+include/voxel_loop.h
+lib/libminc.a
+lib/libminc.so
+lib/libminc.so.1
+lib/libvolume_io.a
+lib/libvolume_io.so
+lib/libvolume_io.so.0
+@dirrm include/volume_io