summaryrefslogtreecommitdiff
diff options
context:
space:
mode:
Diffstat (limited to 'sci-chemistry/ccp4')
-rw-r--r--sci-chemistry/ccp4/ccp4-6.1.3-r1.ebuild38
-rw-r--r--sci-chemistry/ccp4/files/6.0.1-dont-make-dirs-in-configure.patch87
-rw-r--r--sci-chemistry/ccp4/files/6.0.1-ppc-double-define-gerror.patch11
-rw-r--r--sci-chemistry/ccp4/files/6.0.2-dont-make-dirs-in-configure.patch87
-rw-r--r--sci-chemistry/ccp4/files/6.0.2-gcc-4.1.2-idate-fix.patch14
-rw-r--r--sci-chemistry/ccp4/files/6.0.2-ppc-double-define-gerror.patch11
-rw-r--r--sci-chemistry/ccp4/files/ccp4i-default-to-firefox.patch13
-rw-r--r--sci-chemistry/ccp4/files/check-blas-lapack-pthread.patch103
-rw-r--r--sci-chemistry/ccp4/files/clipper-find-mccp4-includes.patch11
-rw-r--r--sci-chemistry/ccp4/files/create-mosflm-bindir.patch10
-rw-r--r--sci-chemistry/ccp4/files/dont-build-rasmol.patch19
-rw-r--r--sci-chemistry/ccp4/files/make-ipmosflm-dir.patch10
-rw-r--r--sci-chemistry/ccp4/files/make-mosflm-cbf-libdir.patch11
-rw-r--r--sci-chemistry/ccp4/files/make-mosflm-index-libdir.patch10
-rw-r--r--sci-chemistry/ccp4/files/make-mosflm-libdir.patch10
-rw-r--r--sci-chemistry/ccp4/files/pass-clipper-enablevals.patch11
-rw-r--r--sci-chemistry/ccp4/metadata.xml9
17 files changed, 0 insertions, 465 deletions
diff --git a/sci-chemistry/ccp4/ccp4-6.1.3-r1.ebuild b/sci-chemistry/ccp4/ccp4-6.1.3-r1.ebuild
deleted file mode 100644
index eea4a408b472..000000000000
--- a/sci-chemistry/ccp4/ccp4-6.1.3-r1.ebuild
+++ /dev/null
@@ -1,38 +0,0 @@
-# Copyright 1999-2012 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=4
-
-inherit fortran-2
-
-DESCRIPTION="Protein X-ray crystallography toolkit -- meta package"
-HOMEPAGE="http://www.ccp4.ac.uk/"
-SRC_URI=""
-
-LICENSE="ccp4"
-SLOT="0"
-KEYWORDS="amd64 ~ppc x86 ~amd64-linux ~x86-linux"
-IUSE="X arpwarp +balbes"
-
-RDEPEND="
- ~sci-chemistry/ccp4-apps-${PV}[X?]
- !<=sci-chemistry/ccp4-apps-${PV}-r2
- >=sci-chemistry/molrep-11.0.00-r1
- >=sci-chemistry/mosflm-7.0.6-r2
- sci-chemistry/mrbump[X?]
- >=sci-chemistry/oasis-4.0-r1
- >=sci-chemistry/pdb-extract-3.004-r2
- >=sci-chemistry/refmac-5.5.0110-r1
- >=sci-chemistry/scala-3.3.18-r1
- >=sci-chemistry/sfcheck-7.03.18-r1
- sci-chemistry/xia2
- arpwarp? ( sci-chemistry/arp-warp-bin )
- balbes? ( sci-chemistry/balbes )
- X? (
- ~sci-chemistry/ccp4i-${PV}
- sci-chemistry/imosflm
- sci-chemistry/pymol
- sci-chemistry/rasmol
- )"
-DEPEND=""
diff --git a/sci-chemistry/ccp4/files/6.0.1-dont-make-dirs-in-configure.patch b/sci-chemistry/ccp4/files/6.0.1-dont-make-dirs-in-configure.patch
deleted file mode 100644
index 1420419ffab0..000000000000
--- a/sci-chemistry/ccp4/files/6.0.1-dont-make-dirs-in-configure.patch
+++ /dev/null
@@ -1,87 +0,0 @@
---- ccp4-6.0.1.orig/configure 2006-06-10 17:30:02.000000000 -0700
-+++ ccp4-6.0.1/configure 2006-06-10 17:45:43.000000000 -0700
-@@ -623,45 +623,45 @@
- # echo "! Beware -- the $system installation isn't properly tested." ; }
- syswarn='echo; echo "! Beware -- the $system installation is not properly tested."'
-
--if test -z "$onlylibs" ; then
-- for i in CCP4_SCR BINSORT_SCR; do
-- if ( eval test -d \$$i || eval mkdir -p \$$i ) ; then :
-- else
-- eval echo "! No directory \$$i and can\'t create it."
-- echo " Check the value of $i."
-- badvar=1
-- fi
-- done
--
-- for i in libdir bindir; do
-- if ( eval test -d \$$i || eval mkdir -p \$$i ) ; then :
-- else
-- eval echo "! No directory \$$i and can\'t create it."
-- echo " Check the argument of --$i."
-- badvar=1
-- fi
-- done
--
-- for i in $dotsrc $dotunsupp $dotunsuppsrc ./lib ./lib/src ./lib/data ./ccp4i/etc/unix $mosflmdir/lib $mosflmdir/bin $mosflmdir/cbf/lib ; do
-- if test -d $i || mkdir $i; then :
-- else
-- eval echo "! No directory $i and can\'t create it."
-- badvar=1
-- fi
-- done
--else
-- # Kludge to fool the "Makefile" target in the top-level CCP4
-- # Makefile into not trying to remake src/Makefile.in
-- for i in $srcdir/src $srcdir/lib/src ; do
-- if test -d $i || mkdir $i; then
-- if ! test -f $i/Makefile.in ; then
-- echo
-- echo "onlylibs: making dummy file $i/Makefile.in"
-- touch $i/Makefile.in
-- fi
-- fi
-- done
--fi
-+#if test -z "$onlylibs" ; then
-+# for i in CCP4_SCR BINSORT_SCR; do
-+# if ( eval test -d \$$i || eval mkdir -p \$$i ) ; then :
-+# else
-+# eval echo "! No directory \$$i and can\'t create it."
-+# echo " Check the value of $i."
-+# badvar=1
-+# fi
-+# done
-+#
-+# for i in libdir bindir; do
-+# if ( eval test -d \$$i || eval mkdir -p \$$i ) ; then :
-+# else
-+# eval echo "! No directory \$$i and can\'t create it."
-+# echo " Check the argument of --$i."
-+# badvar=1
-+# fi
-+# done
-+#
-+# for i in $dotsrc $dotunsupp $dotunsuppsrc ./lib ./lib/src ./lib/data ./ccp4i/etc/unix $mosflmdir/lib $mosflmdir/bin $mosflmdir/cbf/lib ; do
-+# if test -d $i || mkdir $i; then :
-+# else
-+# eval echo "! No directory $i and can\'t create it."
-+# badvar=1
-+# fi
-+# done
-+#else
-+# # Kludge to fool the "Makefile" target in the top-level CCP4
-+# # Makefile into not trying to remake src/Makefile.in
-+# for i in $srcdir/src $srcdir/lib/src ; do
-+# if test -d $i || mkdir $i; then
-+# if ! test -f $i/Makefile.in ; then
-+# echo
-+# echo "onlylibs: making dummy file $i/Makefile.in"
-+# touch $i/Makefile.in
-+# fi
-+# fi
-+# done
-+#fi
-
- ### sanity checks
-
diff --git a/sci-chemistry/ccp4/files/6.0.1-ppc-double-define-gerror.patch b/sci-chemistry/ccp4/files/6.0.1-ppc-double-define-gerror.patch
deleted file mode 100644
index a77d9494a05c..000000000000
--- a/sci-chemistry/ccp4/files/6.0.1-ppc-double-define-gerror.patch
+++ /dev/null
@@ -1,11 +0,0 @@
---- ccp4-6.0.1.orig/lib/src/library_f.c 2006-06-12 07:06:22.000000000 -0700
-+++ ccp4-6.0.1/lib/src/library_f.c 2006-06-12 07:21:56.000000000 -0700
-@@ -716,7 +716,7 @@
-
- #endif /* end of apple xlf support */
-
--#if ( defined (__linux__) && defined (_CALL_SYSV) )
-+#if ( defined (__linux__) && defined (_CALL_SYSV) && ! defined(G95) && ! defined (GFORTRAN) )
- /* linuxppc xlf support */
- void gerror_ (str, Lstr)
- char *str;
diff --git a/sci-chemistry/ccp4/files/6.0.2-dont-make-dirs-in-configure.patch b/sci-chemistry/ccp4/files/6.0.2-dont-make-dirs-in-configure.patch
deleted file mode 100644
index 1420419ffab0..000000000000
--- a/sci-chemistry/ccp4/files/6.0.2-dont-make-dirs-in-configure.patch
+++ /dev/null
@@ -1,87 +0,0 @@
---- ccp4-6.0.1.orig/configure 2006-06-10 17:30:02.000000000 -0700
-+++ ccp4-6.0.1/configure 2006-06-10 17:45:43.000000000 -0700
-@@ -623,45 +623,45 @@
- # echo "! Beware -- the $system installation isn't properly tested." ; }
- syswarn='echo; echo "! Beware -- the $system installation is not properly tested."'
-
--if test -z "$onlylibs" ; then
-- for i in CCP4_SCR BINSORT_SCR; do
-- if ( eval test -d \$$i || eval mkdir -p \$$i ) ; then :
-- else
-- eval echo "! No directory \$$i and can\'t create it."
-- echo " Check the value of $i."
-- badvar=1
-- fi
-- done
--
-- for i in libdir bindir; do
-- if ( eval test -d \$$i || eval mkdir -p \$$i ) ; then :
-- else
-- eval echo "! No directory \$$i and can\'t create it."
-- echo " Check the argument of --$i."
-- badvar=1
-- fi
-- done
--
-- for i in $dotsrc $dotunsupp $dotunsuppsrc ./lib ./lib/src ./lib/data ./ccp4i/etc/unix $mosflmdir/lib $mosflmdir/bin $mosflmdir/cbf/lib ; do
-- if test -d $i || mkdir $i; then :
-- else
-- eval echo "! No directory $i and can\'t create it."
-- badvar=1
-- fi
-- done
--else
-- # Kludge to fool the "Makefile" target in the top-level CCP4
-- # Makefile into not trying to remake src/Makefile.in
-- for i in $srcdir/src $srcdir/lib/src ; do
-- if test -d $i || mkdir $i; then
-- if ! test -f $i/Makefile.in ; then
-- echo
-- echo "onlylibs: making dummy file $i/Makefile.in"
-- touch $i/Makefile.in
-- fi
-- fi
-- done
--fi
-+#if test -z "$onlylibs" ; then
-+# for i in CCP4_SCR BINSORT_SCR; do
-+# if ( eval test -d \$$i || eval mkdir -p \$$i ) ; then :
-+# else
-+# eval echo "! No directory \$$i and can\'t create it."
-+# echo " Check the value of $i."
-+# badvar=1
-+# fi
-+# done
-+#
-+# for i in libdir bindir; do
-+# if ( eval test -d \$$i || eval mkdir -p \$$i ) ; then :
-+# else
-+# eval echo "! No directory \$$i and can\'t create it."
-+# echo " Check the argument of --$i."
-+# badvar=1
-+# fi
-+# done
-+#
-+# for i in $dotsrc $dotunsupp $dotunsuppsrc ./lib ./lib/src ./lib/data ./ccp4i/etc/unix $mosflmdir/lib $mosflmdir/bin $mosflmdir/cbf/lib ; do
-+# if test -d $i || mkdir $i; then :
-+# else
-+# eval echo "! No directory $i and can\'t create it."
-+# badvar=1
-+# fi
-+# done
-+#else
-+# # Kludge to fool the "Makefile" target in the top-level CCP4
-+# # Makefile into not trying to remake src/Makefile.in
-+# for i in $srcdir/src $srcdir/lib/src ; do
-+# if test -d $i || mkdir $i; then
-+# if ! test -f $i/Makefile.in ; then
-+# echo
-+# echo "onlylibs: making dummy file $i/Makefile.in"
-+# touch $i/Makefile.in
-+# fi
-+# fi
-+# done
-+#fi
-
- ### sanity checks
-
diff --git a/sci-chemistry/ccp4/files/6.0.2-gcc-4.1.2-idate-fix.patch b/sci-chemistry/ccp4/files/6.0.2-gcc-4.1.2-idate-fix.patch
deleted file mode 100644
index c118cc53baff..000000000000
--- a/sci-chemistry/ccp4/files/6.0.2-gcc-4.1.2-idate-fix.patch
+++ /dev/null
@@ -1,14 +0,0 @@
-https://bugs.gentoo.org/show_bug.cgi?id=175630
-JTRiley
-
---- ccp4-6.0.2.orig/src/refmac5_/make_unix_ccp4.f 2005-09-06 07:29:56.000000000 -0400
-+++ ccp4-6.0.2.new/src/refmac5_/make_unix_ccp4.f 2007-05-02 20:03:46.000000000 -0400
-@@ -97,7 +97,7 @@
-
- READ(CID,'(I2,1X,I2,1X,I2,2X)') IH(4),IH(3),IH(2)
-
-- CALL IDATE(IMON,IDAY,IYR)
-+ CALL UIDATE(IMON,IDAY,IYR)
- IF(IYR.GE.99) THEN
- IYR=IYR+1900
- ELSE
diff --git a/sci-chemistry/ccp4/files/6.0.2-ppc-double-define-gerror.patch b/sci-chemistry/ccp4/files/6.0.2-ppc-double-define-gerror.patch
deleted file mode 100644
index a77d9494a05c..000000000000
--- a/sci-chemistry/ccp4/files/6.0.2-ppc-double-define-gerror.patch
+++ /dev/null
@@ -1,11 +0,0 @@
---- ccp4-6.0.1.orig/lib/src/library_f.c 2006-06-12 07:06:22.000000000 -0700
-+++ ccp4-6.0.1/lib/src/library_f.c 2006-06-12 07:21:56.000000000 -0700
-@@ -716,7 +716,7 @@
-
- #endif /* end of apple xlf support */
-
--#if ( defined (__linux__) && defined (_CALL_SYSV) )
-+#if ( defined (__linux__) && defined (_CALL_SYSV) && ! defined(G95) && ! defined (GFORTRAN) )
- /* linuxppc xlf support */
- void gerror_ (str, Lstr)
- char *str;
diff --git a/sci-chemistry/ccp4/files/ccp4i-default-to-firefox.patch b/sci-chemistry/ccp4/files/ccp4i-default-to-firefox.patch
deleted file mode 100644
index 106db895b775..000000000000
--- a/sci-chemistry/ccp4/files/ccp4i-default-to-firefox.patch
+++ /dev/null
@@ -1,13 +0,0 @@
---- ccp4-5.99.5.orig/ccp4i/etc/configure.def.dist 2006-01-06 17:54:17.000000000 -0800
-+++ ccp4-5.99.5/ccp4i/etc/configure.def.dist 2006-01-06 17:54:47.000000000 -0800
-@@ -54,8 +54,8 @@
- MESSAGE _text ""
- BLT_LIBRARY _text ""
- MENU_LENGTH _positiveint 25
--HYPERTEXT_VIEWER _text netscape
--START_NETSCAPE _text netscape
-+HYPERTEXT_VIEWER _text firefox
-+START_NETSCAPE _text firefox
- O_MAPMAN _text mapman
- MAPMAN_MAXSIZE _positiveint 4194304
- QUANTA_MBKALL _text mbkall
diff --git a/sci-chemistry/ccp4/files/check-blas-lapack-pthread.patch b/sci-chemistry/ccp4/files/check-blas-lapack-pthread.patch
deleted file mode 100644
index 02a2aa6d8877..000000000000
--- a/sci-chemistry/ccp4/files/check-blas-lapack-pthread.patch
+++ /dev/null
@@ -1,103 +0,0 @@
---- ccp4-5.99.5.orig/configure 2006-01-17 00:35:36.000000000 -0800
-+++ ccp4-5.99.5/configure 2006-01-17 10:44:39.000000000 -0800
-@@ -2410,12 +2410,12 @@
- end
- EOF
- #firslty test without -lblas
-- test_compile="$FC $FOPTIM $XFFLAGS -o testlink testlink.f -llapack"
-+ test_compile="$FC $FOPTIM $XFFLAGS -o testlink testlink.f -llapack -lpthread"
- echo $test_compile
- if { (eval $test_compile >& /dev/null ) 2>&1; } && test -s testlink ; then
- # Compilation was okay
-- echo "... only -llapack needed"
-- XLAPACK_LIB="-llapack"
-+ echo "... only -llapack -lpthread needed"
-+ XLAPACK_LIB="-llapack -lpthread"
- # Set the next two variables so that configure
- # doesn't try to build netlib libraries
- LAPACKLIB="lapack"
-@@ -2424,12 +2424,12 @@
- tryblas=
- else
- echo "more than just -llapack needed...."
-- test_compile="$FC $FOPTIM $XFFLAGS -o testlink testlink.f -llapack -lblas"
-+ test_compile="$FC $FOPTIM $XFFLAGS -o testlink testlink.f -llapack -lblas -lpthread"
- echo $test_compile
- if { (eval $test_compile ) 2>&1; } && test -s testlink ; then
- # Compilation was okay
-- echo "...-llapack and -lblas were needed"
-- XLAPACK_LIB="-llapack -lblas"
-+ echo "...-llapack, -lpthread and -lblas were needed"
-+ XLAPACK_LIB="-llapack -lpthread -lblas"
- # Set the next two variables so that configure
- # doesn't try to build netlib libraries
- LAPACKLIB="lapack blas"
-@@ -2720,8 +2720,8 @@
- STOP
- END
- EOF
-- test_compile="$FC $FOPTIM $XFFLAGS -o testlink testlink.f -L$testdir -l$testlib"
-- test_ccompile="$FC $FOPTIM $XFFLAGS -o testlink testlink.f -L$testdir -l$testlib $XLDFLAGS"
-+ test_compile="$FC $FOPTIM $XFFLAGS -o testlink testlink.f -L$testdir -l$testlib -lpthread"
-+ test_ccompile="$FC $FOPTIM $XFFLAGS -o testlink testlink.f -L$testdir -l$testlib $XLDFLAGS -lpthread"
- echo $test_compile
- if { (eval $test_compile ) 2>&1; } && test -s testlink ; then
- have_lapack=yes
-@@ -2738,7 +2738,7 @@
- LAPACKDIR="$testdir"
- echo "Link ok - using lib$LAPACKLIB from $LAPACKDIR"
- #
-- XLAPACK_LIB="-L$LAPACKDIR -l$LAPACKLIB"
-+ XLAPACK_LIB="-L$LAPACKDIR -l$LAPACKLIB -lpthread"
- #
- # Test to see if we need BLAS too
- # Do this by trying to compile a test program
-@@ -2750,8 +2750,8 @@
- if test -f testlsame ; then
- rm -f testsame testlsame.o
- fi
-- test_compile="$FC $FOPTIM $XFFLAGS -o testlsame lsametst.f -L$LAPACKDIR -l$LAPACKLIB"
-- test_ccompile="$FC $FOPTIM $XFFLAGS -o testlsame lsametst.f -L$LAPACKDIR -l$LAPACKLIB $XLDFLAGS"
-+ test_compile="$FC $FOPTIM $XFFLAGS -o testlsame lsametst.f -L$LAPACKDIR -l$LAPACKLIB -lpthread"
-+ test_ccompile="$FC $FOPTIM $XFFLAGS -o testlsame lsametst.f -L$LAPACKDIR -l$LAPACKLIB $XLDFLAGS -lpthread"
- echo $test_compile
- if { ( eval $test_compile) 2>&1;} && test -s testlsame ; then
- have_blas=yes
-@@ -2830,8 +2830,8 @@
- STOP
- END
- EOF
-- test_compile="$FC $FOPTIM $XFFLAGS -o testlink testlink.f -L$testdir -l$testlib"
-- test_ccompile="$FC $FOPTIM $XFFLAGS -o testlink testlink.f -L$testdir -l$testlib $XLDFLAGS"
-+ test_compile="$FC $FOPTIM $XFFLAGS -o testlink testlink.f -L$testdir -l$testlib -lpthread"
-+ test_ccompile="$FC $FOPTIM $XFFLAGS -o testlink testlink.f -L$testdir -l$testlib $XLDFLAGS -lpthread"
- echo $test_compile
- if { ( eval $test_compile) 2>&1;} && test -s testlink ; then
- have_blas=yes
-@@ -3033,7 +3033,7 @@
- if test -f testlsame ; then
- rm -f testsame testlsame.o
- fi
-- test_compile="$FC $FOPTIM $XFFLAGS -o testlsame lsametst.f -L$BLASDIR -l$BLASLIB"
-+ test_compile="$FC $FOPTIM $XFFLAGS -o testlsame lsametst.f -L$BLASDIR -l$BLASLIB -lpthread"
- echo $test_compile
- if { ( eval $test_compile) 2>&1;} && test -s testlsame ; then
- echo "Found LSAME in lib$BLASLIB"
-@@ -3046,7 +3046,7 @@
- if test -f testxerbla ; then
- rm -f testxerbla testxerbla.o
- fi
-- test_compile="$FC $FOPTIM $XFFLAGS -o testxerbla xerblatst.f -L$BLASDIR -l$BLASLIB"
-+ test_compile="$FC $FOPTIM $XFFLAGS -o testxerbla xerblatst.f -L$BLASDIR -l$BLASLIB -lpthread"
- echo $test_compile
- if { ( eval $test_compile) 2>&1;} && test -s testxerbla ; then
- # Found lsame
-@@ -3080,7 +3080,7 @@
- cd ../..
- #
- lapackdir=lib/lapack
-- XLAPACK_LIB="-L$srcdir/lib/lapack -llapack -L$BLASDIR -l$BLASLIB"
-+ XLAPACK_LIB="-L$srcdir/lib/lapack -llapack -L$BLASDIR -l$BLASLIB -lpthread"
- # netlib lapack is in fortran, so we may need the fortran libraries when
- # we are linking using the C or C++ compilers
- case $system in
diff --git a/sci-chemistry/ccp4/files/clipper-find-mccp4-includes.patch b/sci-chemistry/ccp4/files/clipper-find-mccp4-includes.patch
deleted file mode 100644
index 3bf5a0652247..000000000000
--- a/sci-chemistry/ccp4/files/clipper-find-mccp4-includes.patch
+++ /dev/null
@@ -1,11 +0,0 @@
---- ccp4-5.99.5/lib/clipper/configure.orig 2006-01-07 16:54:13.000000000 -0800
-+++ ccp4-5.99.5/lib/clipper/configure 2006-01-07 16:54:31.000000000 -0800
-@@ -21751,7 +21751,7 @@
-
- if test "x$mccp4_prefix" != x; then
- # ie. mccp4=thing was given (thing is what we're checking for)
-- ac_MCCP4_CXXFLAGS="-I$mccp4_prefix/include"
-+ ac_MCCP4_CXXFLAGS="-I$mccp4_prefix/include -I$mccp4_prefix/include/mccp4"
- ac_MCCP4_LDOPTS="-L$mccp4_prefix/lib -lmccp4"
- else
- # treat as standard lib/include
diff --git a/sci-chemistry/ccp4/files/create-mosflm-bindir.patch b/sci-chemistry/ccp4/files/create-mosflm-bindir.patch
deleted file mode 100644
index 34d6197572fc..000000000000
--- a/sci-chemistry/ccp4/files/create-mosflm-bindir.patch
+++ /dev/null
@@ -1,10 +0,0 @@
---- ccp4-5.99.5.orig/x-windows/Makefile.in 2006-01-06 12:31:02.000000000 -0800
-+++ ccp4-5.99.5/x-windows/Makefile.in 2006-01-06 12:31:30.000000000 -0800
-@@ -158,6 +158,7 @@
- install_obj = ipdisp.exe hklview xdldataman xdlmapman \
- rotgen ipmosflm
- install: all
-+ mkdir -p $(bindir)
- $(INSTALL_PROGRAM) $(srcdir)/ipdisp.exe $(bindir)
- $(INSTALL_PROGRAM) $(srcdir)/ipdisp/ipdisp $(bindir)
- $(INSTALL_PROGRAM) $(srcdir)/hklview $(bindir)
diff --git a/sci-chemistry/ccp4/files/dont-build-rasmol.patch b/sci-chemistry/ccp4/files/dont-build-rasmol.patch
deleted file mode 100644
index 8da54fd26de8..000000000000
--- a/sci-chemistry/ccp4/files/dont-build-rasmol.patch
+++ /dev/null
@@ -1,19 +0,0 @@
---- ccp4-5.99.5.orig/x-windows/Makefile.in 2005-12-05 03:06:57.000000000 -0800
-+++ ccp4-5.99.5/x-windows/Makefile.in 2005-12-05 03:07:23.000000000 -0800
-@@ -35,7 +35,7 @@
- #
- # all
- #
--all : xdlview libjwc_c libjwc_f rotgen_ hklview ipdisp.exe xdlgjk xjiffy rasmol2 ipmosflm
-+all : xdlview libjwc_c libjwc_f rotgen_ hklview ipdisp.exe xdlgjk xjiffy ipmosflm
- #
- # xdl_view
- #
-@@ -161,7 +161,6 @@
- $(INSTALL_PROGRAM) $(srcdir)/xdldataman $(bindir)
- $(INSTALL_PROGRAM) $(srcdir)/xdlmapman $(bindir)
- cd $(srcdir)/XCCPJIFFY ; $(MAKE) install
-- $(INSTALL_PROGRAM) $(rasmol_dir)/rasmol $(bindir)
- cd $(rotgen_dir); $(MAKE) install
- $(INSTALL_PROGRAM) $(mosflm_dir)/bin/ipmosflm $(bindir)
- cd $(xdlview_dir); $(MAKE) install
diff --git a/sci-chemistry/ccp4/files/make-ipmosflm-dir.patch b/sci-chemistry/ccp4/files/make-ipmosflm-dir.patch
deleted file mode 100644
index 7813141b2ec2..000000000000
--- a/sci-chemistry/ccp4/files/make-ipmosflm-dir.patch
+++ /dev/null
@@ -1,10 +0,0 @@
---- ccp4-5.99.5.orig/x-windows/Mosflm/mosflm/Makefile.in 2006-01-06 00:04:12.000000000 -0800
-+++ ccp4-5.99.5/x-windows/Mosflm/mosflm/Makefile.in 2006-01-06 00:04:41.000000000 -0800
-@@ -37,6 +37,7 @@
- ${F77} ${FFLAGS} -o $@ $<
-
- ipmosflm: ${OBJS}
-+ mkdir -p ${DPSBIN}
- ${FLINK} ${FFLAGS} ${OBJS} ${LOCALLIBS} ${LIBS} \
- -o ${DPSBIN}/ipmosflm ${LDFLAGS}
-
diff --git a/sci-chemistry/ccp4/files/make-mosflm-cbf-libdir.patch b/sci-chemistry/ccp4/files/make-mosflm-cbf-libdir.patch
deleted file mode 100644
index ae4b7633b105..000000000000
--- a/sci-chemistry/ccp4/files/make-mosflm-cbf-libdir.patch
+++ /dev/null
@@ -1,11 +0,0 @@
---- ccp4-5.99.5.orig/x-windows/Mosflm/cbf/Makefile.in 2006-01-05 23:42:19.000000000 -0800
-+++ ccp4-5.99.5/x-windows/Mosflm/cbf/Makefile.in 2006-01-05 23:43:35.000000000 -0800
-@@ -132,7 +132,7 @@
- #
- # CBF library
- #
--$(LIB)/libcbf.a: $(SOURCE) $(HEADERS) $(COMMONDEP)
-+$(LIB)/libcbf.a: $(SOURCE) $(HEADERS) $(COMMONDEP) $(LIB)
- $(CC) $(CFLAGS) $(INCLUDES) $(WARNINGS) -c $(SOURCE)
- $(AR) cr $@ *.o
- $(RANLIB) $@
diff --git a/sci-chemistry/ccp4/files/make-mosflm-index-libdir.patch b/sci-chemistry/ccp4/files/make-mosflm-index-libdir.patch
deleted file mode 100644
index 97607b689672..000000000000
--- a/sci-chemistry/ccp4/files/make-mosflm-index-libdir.patch
+++ /dev/null
@@ -1,10 +0,0 @@
---- ccp4-5.99.5.orig/x-windows/Mosflm/index/Makefile.in 2006-01-05 23:15:09.000000000 -0800
-+++ ccp4-5.99.5/x-windows/Mosflm/index/Makefile.in 2006-01-05 23:15:30.000000000 -0800
-@@ -76,6 +76,7 @@
-
- # local version of libdps_index.a
- ${LIB}/dps_index.a: ${IOBJS} ${HOBJS}
-+ mkdir -p ${LIB}
- ar ru ${LIB}/dps_index.a ${IOBJS} ${HOBJS}
-
- ${LIB}/libpeak.a:
diff --git a/sci-chemistry/ccp4/files/make-mosflm-libdir.patch b/sci-chemistry/ccp4/files/make-mosflm-libdir.patch
deleted file mode 100644
index eac1b9f1721e..000000000000
--- a/sci-chemistry/ccp4/files/make-mosflm-libdir.patch
+++ /dev/null
@@ -1,10 +0,0 @@
---- ccp4-5.99.5.orig/x-windows/Mosflm/src/dps/index/Makefile.in 2006-01-05 22:48:47.000000000 -0800
-+++ ccp4-5.99.5/x-windows/Mosflm/src/dps/index/Makefile.in 2006-01-05 22:49:02.000000000 -0800
-@@ -42,6 +42,7 @@
- $(LOCALLIBS) $(LIBS)
-
- index: $(IOBJS)
-+ mkdir -p $(LIBDIR)
- ${AR} $(AR_FLAGS) $(LIBDIR)/libdps_index.a $(IOBJS)
- chmod 644 $(LIBDIR)/libdps_index.a
-
diff --git a/sci-chemistry/ccp4/files/pass-clipper-enablevals.patch b/sci-chemistry/ccp4/files/pass-clipper-enablevals.patch
deleted file mode 100644
index 3e1a8b0e6be8..000000000000
--- a/sci-chemistry/ccp4/files/pass-clipper-enablevals.patch
+++ /dev/null
@@ -1,11 +0,0 @@
---- ccp4-5.99.5.orig/configure 2006-01-06 11:45:43.000000000 -0800
-+++ ccp4-5.99.5/configure 2006-01-06 11:46:53.000000000 -0800
-@@ -3210,7 +3210,7 @@
- #ccp4 setup
- xopts="${xopts} --with-ccp4=${srcdir}"
- #interface setup
-- xopts="${xopts} --enable-mmdb --enable-cif --enable-ccp4 --enable-minimol"
-+ xopts="${xopts} --enable-mmdb --enable-cif --enable-ccp4 --enable-minimol --enable-mmdbold --enable-mtz --with-mccp4=/usr"
- echo
- echo "********* CLIPPER CONFIGURATION ***********"
- echo
diff --git a/sci-chemistry/ccp4/metadata.xml b/sci-chemistry/ccp4/metadata.xml
deleted file mode 100644
index d37774eb9ada..000000000000
--- a/sci-chemistry/ccp4/metadata.xml
+++ /dev/null
@@ -1,9 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
- <herd>sci-chemistry</herd>
- <use>
- <flag name="balbes">Install sci-chemistry/balbes</flag>
- <flag name="arpwarp">Add binary arp-warp for molecular replacement</flag>
- </use>
-</pkgmetadata>