Removed PDEPEND on aria

Package-Manager: portage-2.2.0_alpha4/cvs/Linux x86_64

7 files changed, 18 insertions, 223 deletions

diff --git a/sci-chemistry/cns/ChangeLog b/sci-chemistry/cns/ChangeLog
index f95e00723f9b..683ffcb43d09 100644
--- a/sci-chemistry/cns/ChangeLog
+++ b/sci-chemistry/cns/ChangeLog
@@ -1,6 +1,11 @@
 # ChangeLog for sci-chemistry/cns
 # Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/cns/ChangeLog,v 1.27 2010/11/17 13:14:53 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/cns/ChangeLog,v 1.28 2010/11/18 17:05:04 jlec Exp $
+
+  18 Nov 2010; Justin Lecher <jlec@gentoo.org> -cns-1.2.1-r2.ebuild,
+  cns-1.2.1-r3.ebuild, cns-1.2.1-r4.ebuild, cns-1.2.1-r5.ebuild,
+  cns-1.3.ebuild:
+  Removed PDEPEND on aria
 
   17 Nov 2010; Justin Lecher <jlec@gentoo.org> cns-1.2.1.ebuild,
   cns-1.2.1-r1.ebuild, cns-1.2.1-r2.ebuild, cns-1.2.1-r3.ebuild,
diff --git a/sci-chemistry/cns/Manifest b/sci-chemistry/cns/Manifest
index c733e6e9db7e..8fa4ff569d3e 100644
--- a/sci-chemistry/cns/Manifest
+++ b/sci-chemistry/cns/Manifest
@@ -13,7 +13,6 @@ AUX 1.3-delete.patch 448 RMD160 17b6ac426c11ae1832e7edf71a954e02434a5a46 SHA1 cd
 AUX 1.3-gentoo.patch 2536 RMD160 335c1e6374f3ad9b4340de223ce5e481e96ac875 SHA1 99072abd426614979eb7659a4fb2187bb5ffb3d2 SHA256 0cf8135a5680ebd3df0474d3b04e66c08e8b31547afeed91ceb3108dce8d8864
 AUX cns_solve_env_sh 7070 RMD160 4104b22476a61a80c7adae8a363da1dd4ab4f136 SHA1 30ba978f4862fd94d9fa939cbb7c3eb55ece46cd SHA256 da571cba2a2244e571870b1783fd6cdce1b595e14234cfb43011e9e9eb50151c
 AUX cns_solve_env_sh-1.3 7332 RMD160 eee19d64dc863e434159994282a78d8d576adf62 SHA1 050de938d0c0b4d1e497b03ff196416e416a0da7 SHA256 88127d99380544e502dfe3b3a7788102a7f6b30e7245b26e5e204b8b611bbc1d
-DIST aria2.2.tar.gz 1710084 RMD160 b96a900befd5521649ccce84d4d5b93d30709799 SHA1 faa5ff9e7682026afc334f1c8b3b10259a5e69f9 SHA256 a1695ee11b06a045c4b4bb9f0113d1e48c86e12d4149c0dcb505ca894069d054
 DIST aria2.3.1.tar.gz 1833973 RMD160 f2ee0bfc7e3164b5c34c81abb74256c5d76f53d7 SHA1 b257094bdaf6ba5b64645b8251d9243654e6d0fc SHA256 cc45ed2d66182cf0ee197a7cf3bc7edd8d5043d95cdcd19e1cec9aeb82c2fdbc
 DIST cns_solve_1.1_basic_inputs.tar.gz 5049767 RMD160 eb5686a006d53cf269456eaecd7507842c8a10eb SHA1 255e7c5170168f9e032ef9e84a870eddf176f4ce SHA256 916d86d96159bd945a3b05e26c71af0cc6097234776385630f618fa2641cf3eb
 DIST cns_solve_1.1_data.tar.gz 18770504 RMD160 a18470f31fa6213e817dadf3c3c56231ebce9e63 SHA1 3eaae5ecd1df14412083af8a31a6e3f7b14c4753 SHA256 da59213013b845ca357decfc11337c7dfdb3134bd012c710291c66e8febdbb37
@@ -25,19 +24,18 @@ DIST cns_solve_1.3_all.tar.gz 61208156 RMD160 430e733e05166330b93977e48b72546c4d
 EBUILD cns-1.1.ebuild 3598 RMD160 c659528cda734552ca1faa9bc85c371b92d90d46 SHA1 e891a1be5f873e869bce5a6b617bbfd54a7aa71d SHA256 2be38322ddc333590c4d891f675921cabb0e18ef795042c1c4a849beb0793f6b
 EBUILD cns-1.2-r1.ebuild 4467 RMD160 cc3f1a26a8c28c111f25b74572dc4af3bb1d56c9 SHA1 f4da145be4190c1837e3262291f75c9eeaa3ef2d SHA256 ac40399a59987612e7602811cb79fdb4ae0295d23222afb6947ad1b79f5a8238
 EBUILD cns-1.2.1-r1.ebuild 5327 RMD160 fa2e0f1bc2fdfa4e02d604e2817883807f6b5ea9 SHA1 7f6b1399adc7061ec909ea66dde2dff06cdcb251 SHA256 0af2ce051ee96ac718cdc59f27e5967670dd9cbc8ab5007ce11506ac9e42db36
-EBUILD cns-1.2.1-r2.ebuild 5874 RMD160 bc3683b1198b9d4a5a8cb39cb5ad6ad84723bc5c SHA1 339b1b30453f92226c6dd4572033560924638442 SHA256 e2ba53524d0ba3f88dd53771bbc215b61515a4656709e9e132da324409bcbf70
-EBUILD cns-1.2.1-r3.ebuild 6001 RMD160 3baf38d3eb5d6e10495021c4d16a9ce7a68c6a40 SHA1 f53ff1d9e29ea995333ea020c67c67f860e92543 SHA256 9a1073f0854240fdb1071f6781e9143f8a49bde3e75ed9e5366974d5601927b1
-EBUILD cns-1.2.1-r4.ebuild 6325 RMD160 b5c2274d2444936f7ad9f07c709b49405e130084 SHA1 5e91b608bce9752bb5db19586e3e154b408defc8 SHA256 44846d453de6db002d7bb958300aec2d61cf667d713ac80398493b3ed847f15a
-EBUILD cns-1.2.1-r5.ebuild 6326 RMD160 44c265d926f700ef98d1a64d1745b245c27b1697 SHA1 98d96eb619145f9187f14009a8545ec465eab999 SHA256 4e37f415646bccd74fc135e95cec817d4200db019bad6ca4117ea5bee7b40954
+EBUILD cns-1.2.1-r3.ebuild 5955 RMD160 22f0323cd184ede137ba77cc44a054d05aa41e00 SHA1 91c481b7201d97fc3f0ad5916d284f85e68013b3 SHA256 006f0a425754ccf7a7b00b06035f40a1ea8add9e51cb6d100b4d5c047a83ec94
+EBUILD cns-1.2.1-r4.ebuild 6279 RMD160 ab8e0755fd9f3126a2f8b4464d9e908d99bf632f SHA1 46a13ec734d90ef5775267f387c9e3b87a6fd07a SHA256 d90590d9836522f72ee6bebd8dfa07fd65883f34be90b745810e8aefe2adfd5e
+EBUILD cns-1.2.1-r5.ebuild 6280 RMD160 47608f4f9fba02ef5aa7fbc258d9c063ed5ae7a4 SHA1 c1b6a3d6106e246e15d8e2f7abb7372b0ec83d72 SHA256 53613522b4be5fdec1d440684754fbee6940d9e32246047063747e4f2b2bed60
 EBUILD cns-1.2.1.ebuild 5400 RMD160 797c8483bda9853ca2f5311cc2ad4c8ad3b3a08d SHA1 7cc8f6366b6eb6759744a95ad56f4d65b32add02 SHA256 70b971e0f65d2cec08bb10e8f5d81a9c13b727c876b6b8fab0572239b8295078
 EBUILD cns-1.2.ebuild 3497 RMD160 9e097171ebd44f1a7e5dd317beeb6b65aefac2f6 SHA1 3afc4b415d2ef559b717843a05bc6afb8ee651a2 SHA256 1a6094c8bca3797e62c375a2370cc7425e9c1dd1106d20f202681bc5a87da1fc
-EBUILD cns-1.3.ebuild 5506 RMD160 717a6f38c0b12533e1e2e8a12b8dea550aa49faa SHA1 2685b0803f85eb7416a5519d70d2805f9bd4b683 SHA256 f7f2737d5ab41cd5eb03cc071b1515dab7b0b54386fda5a85545ffceb8988b69
-MISC ChangeLog 4904 RMD160 9b1d0ac9947c0132dab51195a2c72f2f67e4dd10 SHA1 01a7b26e75d276c3efb0f1a6574847ae38a861f8 SHA256 e563d0b02d7e410558f07ad5a80428fd7d251bb0a209a004dbb0c96c4d78fab5
+EBUILD cns-1.3.ebuild 5460 RMD160 1c5b2c82e2ff272a6c204c339ad8080bedf0134c SHA1 7e8c5b1007e2938c6275c1a713ff24a27b15aa4f SHA256 11df60057b73ed153d088729d4e9329767d6d4334568b16e62f5c9889c2ed630
+MISC ChangeLog 5083 RMD160 e73cb0e12a5b2c957d72de2bfeecafec6b1d7de5 SHA1 437a6fe4c75a67013bd9ba19d20713684c9d6bc1 SHA256 2d9f98ffd4e5b572dddc9d38127689215000f737971d6544f52ccd9a0c7d9d63
 MISC metadata.xml 302 RMD160 d60d9cd875115eaba68ad4b504bff76b39a136b0 SHA1 ecdd8feeea2de489927403f1941acfc582c17222 SHA256 a374144760a8ac1f72b1c625c41f98cee3f74511c964133bda119da580664c50
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 Version: GnuPG v2.0.16 (GNU/Linux)
 
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-EMMAoM0e5a7dHpWBdJlNlvKzlKB8l1b2
-=5/A7
+iEYEARECAAYFAkzlXMcACgkQgAnW8HDreRbVzQCdE80dU2qw9d+YujD7/1E8UuM+
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diff --git a/sci-chemistry/cns/cns-1.2.1-r2.ebuild b/sci-chemistry/cns/cns-1.2.1-r2.ebuild
deleted file mode 100644
index 6a3dd0f4bdc4..000000000000
--- a/sci-chemistry/cns/cns-1.2.1-r2.ebuild
+++ /dev/null
@@ -1,204 +0,0 @@
-# Copyright 1999-2010 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/cns/cns-1.2.1-r2.ebuild,v 1.4 2010/11/17 13:14:53 jlec Exp $
-
-EAPI="3"
-
-inherit eutils fortran toolchain-funcs versionator flag-o-matic
-
-MY_PN="${PN}_solve"
-MY_PV="$(delete_version_separator 2)"
-MY_P="${MY_PN}_${MY_PV}"
-
-DESCRIPTION="Crystallography and NMR System"
-HOMEPAGE="http://cns.csb.yale.edu/"
-SRC_URI="${MY_P}_all-mp.tar.gz
-	aria? ( aria2.2.tar.gz )"
-
-SLOT="0"
-LICENSE="cns"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
-IUSE="aria openmp"
-
-RDEPEND="app-shells/tcsh"
-DEPEND="${RDEPEND}"
-PDEPEND="aria? ( sci-chemistry/aria )"
-
-RESTRICT="fetch"
-S="${WORKDIR}/${MY_P}"
-
-FORTRAN="g77 gfortran"
-
-pkg_nofetch() {
-	elog "Fill out the form at http://cns.csb.yale.edu/cns_request/"
-	use aria && elog "and http://aria.pasteur.fr/"
-	elog "and place these files:"
-	elog ${A}
-	elog "in ${DISTDIR}."
-}
-
-pkg_setup() {
-	fortran_pkg_setup
-	tc-has-openmp
-}
-
-src_prepare() {
-	epatch "${FILESDIR}"/${PV}-gentoo.patch
-
-	cd "${WORKDIR}"
-	if use aria; then
-		# Update the cns sources in aria for version 1.2.1
-		epatch "${FILESDIR}"/1.2.1-aria.patch
-
-		# Update the code with aria specific things
-		cp -rf aria2.2/cns/src/* "${S}"/source/
-	fi
-	cd "${S}"
-
-	use openmp && append-fflags -fopenmp
-
-	# the code uses Intel-compiler-specific directives
-	epatch "${FILESDIR}"/${PV}-allow-gcc-openmp.patch
-
-	use openmp && OMPLIB="-lgomp"
-
-	use amd64 && \
-		append-cflags "-DINTEGER='long long int'" && \
-		append-fflags -fdefault-integer-8
-
-	# Set up location for the build directory
-	# Uses obsolete `sort` syntax, so we set _POSIX2_VERSION
-	cp "${FILESDIR}"/cns_solve_env_sh "${T}"/
-	sed -i \
-		-e "s:_CNSsolve_location_:${S}:g" \
-		-e "17 s:\(.*\):\1\nsetenv _POSIX2_VERSION 199209:g" \
-		"${S}"/cns_solve_env
-	sed -i \
-		-e "s:_CNSsolve_location_:${S}:g" \
-		-e "17 s:\(.*\):\1\nexport _POSIX2_VERSION; _POSIX2_VERSION=199209:g" \
-		"${T}"/cns_solve_env_sh
-
-	einfo "Fixing shebangs..."
-	find "${S}" -type f \
-		-exec sed "s:/bin/csh:${EPREFIX}/bin/csh:g" -i '{}' \; || die
-}
-
-src_compile() {
-	local GLOBALS
-	local MALIGN
-	if [[ ${FORTRANC} = g77 ]]; then
-		GLOBALS="-fno-globals"
-		MALIGN='\$(CNS_MALIGN_I86)'
-	fi
-
-	# Set up the compiler to use
-	pushd instlib/machine/unsupported/g77-unix 2>/dev/null
-	ln -s Makefile.header Makefile.header.${FORTRANC} || die
-	popd 2>/dev/null
-
-	# make install really means build, since it's expected to be used in-place
-	emake \
-		CC="$(tc-getCC)" \
-		F77="${FORTRANC}" \
-		LD="${FORTRANC}" \
-		CCFLAGS="${CFLAGS} -DCNS_ARCH_TYPE_\$(CNS_ARCH_TYPE) \$(EXT_CCFLAGS)" \
-		LDFLAGS="${LDFLAGS}" \
-		F77OPT="${FFLAGS:- -O2} ${MALIGN}" \
-		F77STD="${GLOBALS}" \
-		OMPLIB="${OMPLIB}" \
-		g77install \
-		|| die "emake failed"
-
-}
-
-src_test() {
-	# We need to force on g77 manually, because we can't get aliases working
-	# when we source in a -c
-	einfo "Running tests ..."
-	sh -c \
-		"export CNS_G77=ON; source ${T}/cns_solve_env_sh; make run_tests" \
-		|| die "tests failed"
-	einfo "Displaying test results ..."
-	cat "${S}"/*_g77/test/*.diff-test
-}
-
-src_install() {
-	# Install to locations resembling FHS
-	sed -i \
-		-e "s:${S}:usr:g" \
-		-e "s:^\(setenv CNS_SOLVE.*\):\1\nsetenv CNS_ROOT ${EPREFIX}/usr:g" \
-		-e "s:^\(setenv CNS_SOLVE.*\):\1\nsetenv CNS_DATA \$CNS_ROOT/share/cns:g" \
-		-e "s:^\(setenv CNS_SOLVE.*\):\1\nsetenv CNS_DOC \$CNS_ROOT/share/doc/${PF}:g" \
-		-e "s:CNS_LIB \$CNS_SOLVE/libraries:CNS_LIB \$CNS_DATA/libraries:g" \
-		-e "s:CNS_MODULE \$CNS_SOLVE/modules:CNS_MODULE \$CNS_DATA/modules:g" \
-		-e "s:CNS_HELPLIB \$CNS_SOLVE/helplib:CNS_HELPLIB \$CNS_DATA/helplib:g" \
-		-e "s:\$CNS_SOLVE/bin/cns_info:\$CNS_DATA/cns_info:g" \
-		"${S}"/cns_solve_env
-	# I don't entirely understand why the sh version requires a leading /
-	# for CNS_SOLVE and CNS_ROOT, but it does
-	sed -i \
-		-e "s:${S}:/usr:g" \
-		-e "s:^\(^[[:space:]]*CNS_SOLVE=.*\):\1\nexport CNS_ROOT=${EPREFIX}/usr:g" \
-		-e "s:^\(^[[:space:]]*CNS_SOLVE=.*\):\1\nexport CNS_DATA=\$CNS_ROOT/share/cns:g" \
-		-e "s:^\(^[[:space:]]*CNS_SOLVE=.*\):\1\nexport CNS_DOC=\$CNS_ROOT/share/doc/${PF}:g" \
-		-e "s:CNS_LIB=\$CNS_SOLVE/libraries:CNS_LIB=\$CNS_DATA/libraries:g" \
-		-e "s:CNS_MODULE=\$CNS_SOLVE/modules:CNS_MODULE=\$CNS_DATA/modules:g" \
-		-e "s:CNS_HELPLIB=\$CNS_SOLVE/helplib:CNS_HELPLIB=\$CNS_DATA/helplib:g" \
-		-e "s:\$CNS_SOLVE/bin/cns_info:\$CNS_DATA/cns_info:g" \
-		"${T}"/cns_solve_env_sh
-
-	# Get rid of setup stuff we don't need in the installed script
-	sed -i \
-		-e "83,$ d" \
-		-e "37,46 d" \
-		"${S}"/cns_solve_env
-	sed -i \
-		-e "84,$ d" \
-		-e "39,50 d" \
-		"${T}"/cns_solve_env_sh
-
-	newbin "${S}"/*_g77/bin/cns_solve* cns_solve \
-		|| die "install cns_solve failed"
-
-	# Can be run by either cns_solve or cns
-	dosym cns_solve /usr/bin/cns
-
-	# Don't want to install this
-	rm -f "${S}"/*_g77/utils/Makefile
-
-	dobin "${S}"/*_g77/utils/* || die "install utils failed"
-
-	sed -i \
-		-e "s:\$CNS_SOLVE/doc/:\$CNS_SOLVE/share/doc/${PF}/:g" \
-		"${S}"/bin/cns_web || die
-
-	dobin "${S}"/bin/cns_{edit,header,transfer,web} || die "install bin failed"
-
-	insinto /usr/share/cns
-	doins -r "${S}"/libraries "${S}"/modules "${S}"/helplib || die
-	doins "${S}"/bin/cns_info || die
-
-	insinto /etc/profile.d
-	newins "${S}"/cns_solve_env cns_solve_env.csh || die
-	newins "${T}"/cns_solve_env_sh cns_solve_env.sh || die
-
-	dohtml \
-		-A iq,cgi,csh,cv,def,fm,gif,hkl,inp,jpeg,lib,link,list,mask,mtf,param,pdb,pdf,pl,ps,sc,sca,sdb,seq,tbl,top \
-		-f all_cns_info_template,omac,def \
-		-r doc/html/* || die
-
-	# Conflits with app-text/dos2unix
-	rm -f "${D}"/usr/bin/dos2unix
-}
-
-pkg_info() {
-	if use openmp; then
-		elog "Set OMP_NUM_THREADS to the number of threads you want."
-		elog "If you get segfaults on large structures, set the GOMP_STACKSIZE"
-		elog "variable if using gcc (16384 should be good)."
-	fi
-}
-
-pkg_postinst() {
-	pkg_info
-}
diff --git a/sci-chemistry/cns/cns-1.2.1-r3.ebuild b/sci-chemistry/cns/cns-1.2.1-r3.ebuild
index 25206633cc7e..d556cf1d4ec1 100644
--- a/sci-chemistry/cns/cns-1.2.1-r3.ebuild
+++ b/sci-chemistry/cns/cns-1.2.1-r3.ebuild
@@ -1,6 +1,6 @@
 # Copyright 1999-2010 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/cns/cns-1.2.1-r3.ebuild,v 1.3 2010/11/17 13:14:53 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/cns/cns-1.2.1-r3.ebuild,v 1.4 2010/11/18 17:05:04 jlec Exp $
 
 EAPI="3"
 
@@ -22,7 +22,6 @@ IUSE="aria openmp"
 
 RDEPEND="app-shells/tcsh"
 DEPEND="${RDEPEND}"
-PDEPEND="aria? ( ~sci-chemistry/aria-2.3.1 )"
 
 RESTRICT="fetch"
 S="${WORKDIR}/${MY_P}"
diff --git a/sci-chemistry/cns/cns-1.2.1-r4.ebuild b/sci-chemistry/cns/cns-1.2.1-r4.ebuild
index 1b0cd0580fdd..581854446537 100644
--- a/sci-chemistry/cns/cns-1.2.1-r4.ebuild
+++ b/sci-chemistry/cns/cns-1.2.1-r4.ebuild
@@ -1,6 +1,6 @@
 # Copyright 1999-2010 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/cns/cns-1.2.1-r4.ebuild,v 1.3 2010/11/17 13:14:53 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/cns/cns-1.2.1-r4.ebuild,v 1.4 2010/11/18 17:05:04 jlec Exp $
 
 EAPI="3"
 
@@ -22,7 +22,6 @@ IUSE="aria openmp"
 
 RDEPEND="app-shells/tcsh"
 DEPEND="${RDEPEND}"
-PDEPEND="aria? ( ~sci-chemistry/aria-2.3.1 )"
 
 RESTRICT="fetch"
 S="${WORKDIR}/${MY_P}"
diff --git a/sci-chemistry/cns/cns-1.2.1-r5.ebuild b/sci-chemistry/cns/cns-1.2.1-r5.ebuild
index dba5ac437980..7ad2f4c09452 100644
--- a/sci-chemistry/cns/cns-1.2.1-r5.ebuild
+++ b/sci-chemistry/cns/cns-1.2.1-r5.ebuild
@@ -1,6 +1,6 @@
 # Copyright 1999-2010 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/cns/cns-1.2.1-r5.ebuild,v 1.2 2010/11/17 13:14:53 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/cns/cns-1.2.1-r5.ebuild,v 1.3 2010/11/18 17:05:04 jlec Exp $
 
 EAPI="3"
 
@@ -22,7 +22,6 @@ IUSE="aria openmp"
 
 RDEPEND="app-shells/tcsh"
 DEPEND="${RDEPEND}"
-PDEPEND="aria? ( ~sci-chemistry/aria-2.3.1 )"
 
 RESTRICT="fetch"
 S="${WORKDIR}/${MY_P}"
diff --git a/sci-chemistry/cns/cns-1.3.ebuild b/sci-chemistry/cns/cns-1.3.ebuild
index 8b6dd88b00be..7d48fb918c20 100644
--- a/sci-chemistry/cns/cns-1.3.ebuild
+++ b/sci-chemistry/cns/cns-1.3.ebuild
@@ -1,6 +1,6 @@
 # Copyright 1999-2010 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/cns/cns-1.3.ebuild,v 1.2 2010/11/17 13:14:53 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/cns/cns-1.3.ebuild,v 1.3 2010/11/18 17:05:04 jlec Exp $
 
 EAPI="3"
 
@@ -22,7 +22,6 @@ IUSE="aria openmp"
 
 RDEPEND="app-shells/tcsh"
 DEPEND="${RDEPEND}"
-PDEPEND="aria? ( ~sci-chemistry/aria-2.3.1 )"
 
 RESTRICT="fetch"
 S="${WORKDIR}/${MY_P}"