gentoo resync : 04.07.2020

4 files changed, 0 insertions, 97 deletions

diff --git a/sci-chemistry/pymol-plugins-msms/Manifest b/sci-chemistry/pymol-plugins-msms/Manifest
deleted file mode 100644
index ddc05c719169..000000000000
--- a/sci-chemistry/pymol-plugins-msms/Manifest
+++ /dev/null
@@ -1,4 +0,0 @@
-AUX 100415-msms.patch 1687 BLAKE2B ad00adc0dc028b44296d22dd0f807fc2c3b936e508e56049ff870b437ca0f86a7bc90aaa8dd3fc5dc792d3611541722c2d1cef2cb775a59ea80c464373ab643a SHA512 52410d467c314578cd22e777ae45a0012203fd21d2afa6ff329fa67db6d7ee2cb381558ce6aef48a1305a572f9218cf962ab1fc552ebe1873f94a4d6d2db1bcf
-DIST pymol-plugins-msms-100415.py 62320 BLAKE2B 2778221bd0138764b9f0b75202de8bc46d71005b26d0e23faba582d5f49fc0c3edca04d0ffcddf8f3be541a2142b739afe8a2904912a29d2443d9e6974f453a5 SHA512 924d89836f92d0be52d7534cbe6dc9338dac1c2263a51900ab62dbe96e4f54f565dbaa6bdf51236d8ea8e9042aa09283a117f5285561b252177a5a32f3876489
-EBUILD pymol-plugins-msms-100415-r1.ebuild 1045 BLAKE2B 63743b1514b174576970ef4b19d7a6d6546bf018c005bd9cbf93ad4f0898597cb372923732049a4a05f240fff751977609fc1cb889c48999e24e1fcc319bba50 SHA512 20799591eee520158f5872748c58b5280ec2fa0c0292fc1f069f823b20b6c4134a5b82ac57f884ecd2f8da3add00034ecc961463eada3e503a07246b823c084b
-MISC metadata.xml 705 BLAKE2B a756b9ab6e253b5f6fac0ff6ff637df4952389dfe9aa9391cb6ea0b926c06f9a361bd89340d5cd74047790cdd414232016c85ad9735a12d84f60bd0c8fb6d6eb SHA512 e33e7c380ff1f99f62fc75871dd3f3d0bc98bd3629a5e46c9dcae83ad039f88450d83b46379a6da88636795fb8e7c73c72480c4054a64dedd9c6bb0b501cf210
diff --git a/sci-chemistry/pymol-plugins-msms/files/100415-msms.patch b/sci-chemistry/pymol-plugins-msms/files/100415-msms.patch
deleted file mode 100644
index 0d26fb31c5f1..000000000000
--- a/sci-chemistry/pymol-plugins-msms/files/100415-msms.patch
+++ /dev/null
@@ -1,33 +0,0 @@
- pymol-plugins-msms-100415.py |   18 ++++++++++--------
- 1 files changed, 10 insertions(+), 8 deletions(-)
-
-diff --git a/pymol-plugins-msms-100415.py b/pymol-plugins-msms-100415.py
-index 725934d..7ea00bf 100644
---- a/pymol-plugins-msms-100415.py
-+++ b/pymol-plugins-msms-100415.py
-@@ -99,15 +99,17 @@ class MSMSPlugin:
-         self.cleanup_saved_pymol_sel.set(True) # by default, clean up
- 
-         self.pdb_fn.set('')
--        if 'MSMS_BIN' in os.environ:
--            if VERBOSE: print 'Found MSMS_BIN in environmental variables', os.environ['MSMS_BIN']
--            self.msms_bin.set(os.environ['MSMS_BIN'])
--        else:
--            if VERBOSE: print 'MSMS_BIN not found in environmental variables.'
--            self.msms_bin.set('')
-+        self.msms_bin.set('GENTOOMSMS')
-+##        if 'MSMS_BIN' in os.environ:
-+##            if VERBOSE: print 'Found MSMS_BIN in environmental variables', os.environ['MSMS_BIN']
-+##            self.msms_bin.set(os.environ['MSMS_BIN'])
-+##        else:
-+##            if VERBOSE: print 'MSMS_BIN not found in environmental variables.'
-+##            self.msms_bin.set('')
- ##         self.pdb2xyzr_bin.set('')
--        if 'PDB2XYZRN' in os.environ:  self.pdb2xyzrn_bin.set(os.environ['PDB2XYZRN'])
--        else:                          self.pdb2xyzrn_bin.set('')
-+        self.pdb2xyzrn_bin.set('GENTOOXYZRN')
-+##        if 'PDB2XYZRN' in os.environ:  self.pdb2xyzrn_bin.set(os.environ['PDB2XYZRN'])
-+##        else:                          self.pdb2xyzrn_bin.set('')
-         self.tmp_dir.set('/tmp')
-         self.cleanup_msms_output = Tkinter.BooleanVar()
-         self.cleanup_msms_output.set(True) # by default, clean up msms output
diff --git a/sci-chemistry/pymol-plugins-msms/metadata.xml b/sci-chemistry/pymol-plugins-msms/metadata.xml
deleted file mode 100644
index 214696c4a1f7..000000000000
--- a/sci-chemistry/pymol-plugins-msms/metadata.xml
+++ /dev/null
@@ -1,17 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
-  <maintainer type="project">
-    <email>sci-chemistry@gentoo.org</email>
-    <name>Gentoo Chemistry Project</name>
-  </maintainer>
-  <longdescription>
-MSMS is an excellent tool for computing protein solvent excluded surface (SES).
-MSMS Plugin for PyMOL provides a graphical user interface for running MSMS and 
-displaying its results in PyMOL. 
-
-1. Citation for this plugin: 
-    Hongbo Zhu. MSMS plugin for PyMOL, 2010, Biotechnology Center (BIOTEC), TU Dresden.
-2. Citation for PyMOL can be found at: http://pymol.sourceforge.net/faq.html#CITE
-</longdescription>
-</pkgmetadata>
diff --git a/sci-chemistry/pymol-plugins-msms/pymol-plugins-msms-100415-r1.ebuild b/sci-chemistry/pymol-plugins-msms/pymol-plugins-msms-100415-r1.ebuild
deleted file mode 100644
index 33c7dbf9be7d..000000000000
--- a/sci-chemistry/pymol-plugins-msms/pymol-plugins-msms-100415-r1.ebuild
+++ /dev/null
@@ -1,43 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-PYTHON_COMPAT=( python2_7 )
-
-inherit eutils python-r1
-
-DESCRIPTION="GUI for MSMS and displaying its results in PyMOL"
-HOMEPAGE="http://www.biotec.tu-dresden.de/~hongboz/msms_pymol/msms_pymol.html"
-SRC_URI="http://www.biotec.tu-dresden.de/~hongboz/msms_pymol/pymol_script/msms_pymol.py -> ${P}.py"
-
-SLOT="0"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
-LICENSE="BSD pymol"
-IUSE=""
-REQUIRED_USE="${PYTHON_REQUIRED_USE}"
-
-RDEPEND="
-	${PYTHON_DEPS}
-	sci-chemistry/msms-bin
-	sci-chemistry/pymol[${PYTHON_USEDEP}]"
-DEPEND="${RDEPEND}"
-
-src_unpack() {
-	mkdir "${S}" || die
-	cp "${DISTDIR}"/${A} "${S}/" || die
-}
-
-src_prepare() {
-	epatch "${FILESDIR}"/${PV}-msms.patch
-	sed \
-		-e "s:GENTOOMSMS:${EPREFIX}/opt/bin/msms:g" \
-		-e "s:GENTOOXYZRN:${EPREFIX}/usr/bin/pdb_to_xyzrn:g" \
-		-i ${A} || die
-}
-
-src_install() {
-	python_moduleinto pmg_tk/startup
-	python_foreach_impl python_domodule ${P}.py
-	python_foreach_impl python_optimize
-}