proj/gentoo: Initial commit

This commit represents a new era for Gentoo:
Storing the gentoo-x86 tree in Git, as converted from CVS.

This commit is the start of the NEW history.
Any historical data is intended to be grafted onto this point.

Creation process:
1. Take final CVS checkout snapshot
2. Remove ALL ChangeLog* files
3. Transform all Manifests to thin
4. Remove empty Manifests
5. Convert all stale $Header$/$Id$ CVS keywords to non-expanded Git $Id$
5.1. Do not touch files with -kb/-ko keyword flags.

Signed-off-by: Robin H. Johnson <robbat2@gentoo.org>
X-Thanks: Alec Warner <antarus@gentoo.org> - did the GSoC 2006 migration tests
X-Thanks: Robin H. Johnson <robbat2@gentoo.org> - infra guy, herding this project
X-Thanks: Nguyen Thai Ngoc Duy <pclouds@gentoo.org> - Former Gentoo developer, wrote Git features for the migration
X-Thanks: Brian Harring <ferringb@gentoo.org> - wrote much python to improve cvs2svn
X-Thanks: Rich Freeman <rich0@gentoo.org> - validation scripts
X-Thanks: Patrick Lauer <patrick@gentoo.org> - Gentoo dev, running new 2014 work in migration
X-Thanks: Michał Górny <mgorny@gentoo.org> - scripts, QA, nagging
X-Thanks: All of other Gentoo developers - many ideas and lots of paint on the bikeshed

7 files changed, 202 insertions, 0 deletions

diff --git a/sci-chemistry/cyana/Manifest b/sci-chemistry/cyana/Manifest
new file mode 100644
index 000000000000..de99a95f8e55
--- /dev/null
+++ b/sci-chemistry/cyana/Manifest
@@ -0,0 +1 @@
+DIST cyana-2.1.tar.gz 2203650 SHA256 4b49d23eda3a327074fa337c7ee13262e93fb2b92cc6feb9139dfb7695bdeded SHA512 20f5369e47198000927ee9a60beda34d265fddcd6be59f0d5d81ac23691b7e870ca674bdd7215a13bc849586411a007ebb1ff46072b55f255a6d796359067be8 WHIRLPOOL dfc60a456c166d98bbdb60227a2dae63d12ea9fb7375dede3d372a6dbf0785bfd0c8b1069d985a6ee775ab136405b553ff9336a2603d139d81d853f0681f5167
diff --git a/sci-chemistry/cyana/cyana-2.1.ebuild b/sci-chemistry/cyana/cyana-2.1.ebuild
new file mode 100644
index 000000000000..6d042584dbc1
--- /dev/null
+++ b/sci-chemistry/cyana/cyana-2.1.ebuild
@@ -0,0 +1,72 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+inherit eutils fortran-2 toolchain-funcs
+
+DESCRIPTION="Combined assignment and dynamics algorithm for NMR applications"
+HOMEPAGE="http://www.las.jp/english/products/cyana.html"
+SRC_URI="${P}.tar.gz"
+
+LICENSE="CYANA"
+SLOT="0"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="examples"
+
+RESTRICT="fetch"
+
+# we need libg2c for gfortran # 136988
+DEPEND="dev-lang/ifc"
+RDEPEND="${DEPEND}"
+
+pkg_nofetch() {
+	elog "Please visit"
+	elog "http://www.las.jp/english/products/cyana.html"
+	elog "and get a copy of ${A}."
+	elog "Place it in ${DISTDIR}."
+}
+
+src_prepare() {
+	epatch \
+		"${FILESDIR}"/${PV}-typo.patch \
+		"${FILESDIR}"/${PV}-exec.patch \
+		"${FILESDIR}"/${PV}-expire.patch \
+		"${FILESDIR}"/${PV}-xiar.patch
+
+	cat >> etc/config <<- EOF
+	VERSION=${PV}
+	SHELL=${EPREFIX}/bin/sh
+	FC=ifort
+	FFLAGS=${FFLAGS} -openmp -threads
+	FFLAGS2=${FFLAGS} -openmp -threads
+	CC=$(tc-getCC)
+	AR=xiar
+	RANLIB=ranlib
+	FORK=g77fork.o
+	LDFLAGS=${LDFLAGS} -reentrancy threaded -openmp
+	LIBS=
+	DEFS=-Dintel
+	SYSTEM=intel
+	EOF
+}
+
+src_compile() {
+	cd src || die
+	emake
+}
+
+src_install() {
+	dobin cyana{job,table,filter,clean}
+	newbin src/${PN}/${PN}exe.* ${PN}
+	insinto /usr/share/${PN}
+	doins -r lib macro help
+	use examples && doins -r demo
+
+	cat >> "${T}"/20cyana <<- EOF
+	CYANALIB="${EPREFIX}/usr/share/${PN}"
+	EOF
+
+	doenvd "${T}"/20cyana
+}
diff --git a/sci-chemistry/cyana/files/2.1-exec.patch b/sci-chemistry/cyana/files/2.1-exec.patch
new file mode 100644
index 000000000000..28cd88d3eee6
--- /dev/null
+++ b/sci-chemistry/cyana/files/2.1-exec.patch
@@ -0,0 +1,77 @@
+diff --git a/cyana b/cyana
+index 4f746cf..a7ff060 100755
+--- a/cyana
++++ b/cyana
+@@ -45,16 +45,13 @@ shift `expr $optind - 1`
+ 
+ if [ "$h" ]; then usage=1; fi
+ if [ "$usage" ]; then
+-  echo "Usage: $prog -hctx parameters ..."					         
++  echo "Usage: $prog -hS parameters ..."					         
+   echo  									         
+   echo "       -h	     help"						         
+   echo "       -c command    command to start program (must contain \$exefile)"          
+   echo "       -S            run in safe mode, i.e. within one directory"				         
+-  echo "       -t system     explicit system type"				         
+-  echo "       -x	     display name of executable without executing it"	         
+   exit 2
+ fi
+-if [ "$c" ]; then cmd="$c"; fi
+ sys=$t
+ mode=$x
+ safe=$S
+@@ -65,23 +62,6 @@ safe=$S
+ eval ${PROG}ARG='$*'
+ export ${PROG}ARG
+ 
+-
+-# ------ Set library name ------ 
+-
+-f=$0
+-if [ `echo $f | sed 's,^/.*,+,'` != "+" ]; then f=`which $0`; fi
+-odir=`pwd`
+-while [ "`ls -l $f | awk '{ print substr($1,1,1) }'`" = "l" ]; do
+-  l=`ls -l $f | awk '{ i = NF; print $i }'`
+-  cd `dirname $f`; cd `dirname $l`; l=`pwd`/`basename $l`
+-  f=$l
+-done
+-cd `dirname $f`
+-libdir=`pwd | sed 's,/src/'${prog}'$,,'`
+-cd $odir
+-eval ${PROG}LIB=$libdir
+-export ${PROG}LIB
+-
+ if [ "$safe" ]; then 
+   CYANAINIT=initsafe; export CYANAINIT
+ fi
+@@ -89,29 +69,4 @@ fi
+ 
+ # ------ Start the program ------
+ 
+-if [ -d $libdir/src/$prog ]; then
+-  exe=$libdir/src/$prog/$exe
+-else
+-  exe=$libdir/$exe
+-fi
+-if [ "$sys" = "" ]; then
+-  sys=`$libdir/etc/identify`
+-  files="$exe.$sys* $exe.gnu $exe.*"
+-else
+-  files=$exe.$sys
+-fi
+-for exefile in $files; do
+-  if [ -x $exefile ]; then
+-    if [ "$mode" ]; then
+-      echo $exefile; exit 0
+-    else
+-      if [ "`echo $cmd | grep -c '\$exefile'`" -gt 0 ]; then
+-        eval exec $cmd
+-      else
+-        eval exec $cmd $exefile
+-      fi
+-    fi
+-  fi
+-done
+-echo "No executable found in \"`dirname $exe`\"."
+-exit 1
++exec cyana
diff --git a/sci-chemistry/cyana/files/2.1-expire.patch b/sci-chemistry/cyana/files/2.1-expire.patch
new file mode 100644
index 000000000000..e18008286f68
--- /dev/null
+++ b/sci-chemistry/cyana/files/2.1-expire.patch
@@ -0,0 +1,15 @@
+--- src/inclan/unix.for.orig	2011-01-05 14:56:46.572193759 +0100
++++ src/inclan/unix.for	2011-01-05 14:57:27.833627375 +0100
+@@ -206,11 +206,8 @@
+       end if
+       if (iwbeg.lt.0) then
+         iwbeg=igttim
+-        iexpir=(julday(12,31,2010)-julday(1,1,1970))*24*3600
+-        if (iwbeg.gt.iexpir) call fatmsg ('License expired.')
++        iexpir=iwbeg+100
+         j=(iexpir-iwbeg)/(24*3600)
+-        if (j.lt.1000)
+-     *    call wrnmsg ('License expires in '//plural(j,'day')//'.')
+       end if
+       iwall=igttim-iwbeg
+ c      print *,'iwall = ',iwall,iwbeg,idat,itim
\ No newline at end of file
diff --git a/sci-chemistry/cyana/files/2.1-typo.patch b/sci-chemistry/cyana/files/2.1-typo.patch
new file mode 100644
index 000000000000..3f011a9b2c28
--- /dev/null
+++ b/sci-chemistry/cyana/files/2.1-typo.patch
@@ -0,0 +1,13 @@
+diff --git a/src/cyana/putpro.f b/src/cyana/putpro.f
+index d4080f9..4490225 100644
+--- a/src/cyana/putpro.f
++++ b/src/cyana/putpro.f
+@@ -66,7 +66,7 @@ c     ------------------------------------------------------ BMRB header
+      *    '   _Mol_residue_sequence',
+      *    ';'
+         do i=1,nr,20
+-          write (iunit,'(20A1))') (rcode(rnam(j)),j=i,min(nr,i+19))
++          write (iunit,'(20A1)') (rcode(rnam(j)),j=i,min(nr,i+19))
+         end do
+ 
+         write (iunit,'(A)')
diff --git a/sci-chemistry/cyana/files/2.1-xiar.patch b/sci-chemistry/cyana/files/2.1-xiar.patch
new file mode 100644
index 000000000000..e8393253d7f6
--- /dev/null
+++ b/sci-chemistry/cyana/files/2.1-xiar.patch
@@ -0,0 +1,16 @@
+ src/inclan/Makefile |    2 +-
+ 1 files changed, 1 insertions(+), 1 deletions(-)
+
+diff --git a/src/inclan/Makefile b/src/inclan/Makefile
+index fc5a8bf..482d48f 100644
+--- a/src/inclan/Makefile
++++ b/src/inclan/Makefile
+@@ -35,7 +35,7 @@ clean:
+ 
+ inclan.a: $(OBJS)
+ 	rm -f $@
+-	ar rc $@ $(OBJS)
++	$(AR) rc $@ $(OBJS)
+ 	if [ "$(RANLIB)" ]; then $(RANLIB) $@; fi
+ 
+ inclan.o: inclan.for
diff --git a/sci-chemistry/cyana/metadata.xml b/sci-chemistry/cyana/metadata.xml
new file mode 100644
index 000000000000..ae9ec7c5f6a4
--- /dev/null
+++ b/sci-chemistry/cyana/metadata.xml
@@ -0,0 +1,8 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+  <herd>sci-chemistry</herd>
+  <maintainer>
+    <email>jlec@gentoo.org</email>
+  </maintainer>
+</pkgmetadata>