Removing package masked sci-biology/staden (see bug #147396)

16 files changed, 0 insertions, 840 deletions

diff --git a/sci-biology/staden/ChangeLog b/sci-biology/staden/ChangeLog
deleted file mode 100644
index 177df08203b8..000000000000
--- a/sci-biology/staden/ChangeLog
+++ /dev/null
@@ -1,143 +0,0 @@
-# ChangeLog for sci-biology/staden
-# Copyright 1999-2006 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/staden/ChangeLog,v 1.18 2006/02/05 06:15:47 ribosome Exp $
-
-  05 Feb 2006; Olivier Fisette <ribosome@gentoo.org> staden-1.5.3-r1.ebuild:
-  Ported to modular X.
-
-  21 Jan 2006; Olivier Fisette <ribosome@gentoo.org> -staden-1.5.3.ebuild:
-  Removed obsolete version.
-
-  15 Dec 2005; Joshua Jackson <tsunam@gentoo.org> staden-1.5.3-r1.ebuild:
-  Stable on x86; bug #115438
-
-*staden-1.5.3-r1 (13 Nov 2005)
-
-  13 Nov 2005; Olivier Fisette <ribosome@gentoo.org>
-  +staden-1.5.3-r1.ebuild:
-  Migrated to fortran.eclass (bug #65950).
-
-  26 Aug 2005; Carlos Silva <r3pek@gentoo.org> staden-1.5.3.ebuild:
-  Marking ~amd64
-
-  19 Jun 2005; Olivier Fisette <ribosome@gentoo.org> files/staden-1.5.3-env:
-  Cleaned up unnecessary environment variables.
-
-  09 May 2005; Olivier Fisette <ribosome@gentoo.org>
-  -files/staden-1.4.1-env, -files/staden-1.4.1-gap4.patch,
-  -files/staden-1.4.1-getopt.patch, -files/staden-1.4.1-iwidgetsrc.new,
-  -files/staden-1.4.1-mutscan.patch, -files/staden-1.4.1-prefinish.patch,
-  -files/staden-1.4.1-staden_help.new, -files/staden-1.4.1-tk_utils.patch,
-  -files/staden-1.4.1-top.patch, -files/staden-1.4.1-tracediff.patch,
-  +files/staden-1.5.3-env, +files/staden-1.5.3-iwidgetsrc.new,
-  +files/staden-1.5.3-staden_help.new, -staden-1.4.1-r7.ebuild,
-  staden-1.5.3.ebuild:
-  Removed old version.
-
-  01 Mar 2005; Olivier Fisette <ribosome@gentoo.org> staden-1.5.3.ebuild:
-  Added to x86.
-
-  30 Jan 2005; Olivier Fisette <ribosome@gentoo.org> staden-1.5.3.ebuild:
-  Ebuild cleanup.
-
-  24 Jan 2005; Olivier Fisette <ribosome@gentoo.org>
-  +files/staden-1.5.3-mutlib-gcc-3.4.patch, staden-1.5.3.ebuild:
-  Fixed GCC 3.4 oddity.
-
-  17 Jan 2005; Olivier Fisette <ribosome@gentoo.org>
-  +files/staden-1.5.3-mutscan.patch, +files/staden-1.5.3-prefinish.patch,
-  files/staden-1.5.3-tk_utils.patch, +files/staden-1.5.3-tracediff.patch,
-  staden-1.5.3.ebuild:
-  Fixed a few compilation bugs.
-
-*staden-1.5.3 (14 Jan 2005)
-
-  14 Jan 2005; Olivier Fisette <ribosome@gentoo.org>
-  +files/staden-1.5.3-getopt.patch, +files/staden-1.5.3-text_utils.patch,
-  +files/staden-1.5.3-tk_utils.patch, +files/staden-1.5.3-top.patch,
-  +staden-1.5.3.ebuild:
-  New version.
-
-  09 Jan 2005; Sven Wegener <swegener@gentoo.org> staden-1.4.1-r7.ebuild:
-  Added missing parentheses in SRC_URI/*DEPEND/LICENSE.
-
-  02 Jan 2005; Olivier Fisette <ribosome@gentoo.org>
-  -files/staden-1.4.1-emboss.patch, staden-1.4.1-r7.ebuild:
-  Use the toolchain-funcs rather than the gcc eclass. Removed useless patch.
-
-  02 Jan 2005; Olivier Fisette <ribosome@gentoo.org> staden-1.4.1-r7.ebuild:
-  Added to x86.
-
-  28 Dec 2004; Olivier Fisette <ribosome@gentoo.org> staden-1.4.1-r7.ebuild:
-  Dependency update: dev-libs/io_lib -> sci-libs/io_lib.
-
-  14 Oct 2004; Olivier Fisette <ribosome@gentoo.org> staden-1.4.1-r7.ebuild:
-  Use gcc-getCC/CXX from gcc.eclass rather than ${CC/CXX}.
-
-*staden-1.4.1-r7 (22 Sep 2004)
-
-  22 Sep 2004; Olivier Fisette <ribosome@gentoo.org> -staden-1.4.1-r6.ebuild,
-  +staden-1.4.1-r7.ebuild:
-  Fixed the last "-fPIC" problem in mutlib.
-
-  18 Sep 2004; Olivier Fisette <ribosome@gentoo.org> -staden-1.4.1-r5.ebuild,
-  staden-1.4.1-r6.ebuild:
-  Removing EMBOSS support until some issues are fixed.
-
-  18 Sep 2004; Olivier Fisette <ribosome@gentoo.org> staden-1.4.1-r6.ebuild:
-  Fixed an issue with the EMBOSS tcl/tk GUIs.
-
-  18 Sep 2004; Olivier Fisette <ribosome@gentoo.org> staden-1.4.1-r6.ebuild:
-  Fixed issues with "spin_emboss".
-
-*staden-1.4.1-r6 (18 Sep 2004)
-
-  18 Sep 2004; Olivier Fisette <ribosome@gentoo.org>
-  files/staden-1.4.1-emboss.patch, +staden-1.4.1-r6.ebuild:
-  Documentation builds from souce. Updated course material. Updated external
-  io_lib. Fixed some library issues.
-
-*staden-1.4.1-r5 (17 Sep 2004)
-
-  17 Sep 2004; Olivier Fisette <ribosome@gentoo.org> -staden-1.4.1-r4.ebuild,
-  +staden-1.4.1-r5.ebuild:
-  Now compiles with -fPIC.
-
-*staden-1.4.1-r4 (16 Sep 2004)
-
-  16 Sep 2004; Olivier Fisette <ribosome@gentoo.org>
-  +files/staden-1.4.1-emboss.patch, -staden-1.4.1-r3.ebuild,
-  +staden-1.4.1-r4.ebuild:
-  Patched the "create_emboss_files" program to allow more flexibility.
-
-*staden-1.4.1-r3 (16 Sep 2004)
-
-  16 Sep 2004; Olivier Fisette <ribosome@gentoo.org> -staden-1.4.1-r2.ebuild,
-  +staden-1.4.1-r3.ebuild:
-  Fixed problem with EMBOSS GUIs failing to compile.
-
-*staden-1.4.1-r2 (16 Sep 2004)
-
-  16 Sep 2004; Olivier Fisette <ribosome@gentoo.org>
-  +files/staden-1.4.1-top.patch, -staden-1.4.1-r1.ebuild,
-  +staden-1.4.1-r2.ebuild:
-  Provide prebuilt docs to avoid doc compilation problems and reduce the number
-  of dependencies. Made the course installation optional with the "doc" "USE"
-  flag.
-
-*staden-1.4.1-r1 (15 Sep 2004)
-
-  15 Sep 2004; Olivier Fisette <ribosome@gentoo.org> +staden-1.4.1-r1.ebuild,
-  -staden-1.4.1.ebuild:
-  Fixed the staden_help program.
-
-*staden-1.4.1 (14 Sep 2004)
-
-  14 Sep 2004; Olivier Fisette <ribosome@gentoo.org> +metadata.xml,
-  +files/staden-1.4.1-env, +files/staden-1.4.1-gap4.patch,
-  +files/staden-1.4.1-getopt.patch, +files/staden-1.4.1-iwidgetsrc.new,
-  +files/staden-1.4.1-mutscan.patch, +files/staden-1.4.1-prefinish.patch,
-  +files/staden-1.4.1-tk_utils.patch, +files/staden-1.4.1-tracediff.patch,
-  +staden-1.4.1.ebuild:
-  Initial import.
-
diff --git a/sci-biology/staden/Manifest b/sci-biology/staden/Manifest
deleted file mode 100644
index fe31845faf69..000000000000
--- a/sci-biology/staden/Manifest
+++ /dev/null
@@ -1,64 +0,0 @@
-AUX staden-1.5.3-env 163 RMD160 c082adab8664ec43cff9a46c0868649b5191ffb3 SHA1 8ce08d43869d29b096b6d49d8562ba3ca7de1870 SHA256 e51a477dbf630e078a74c4145a79cdc40edd6e9749e3e9175f060bba37de5553
-MD5 10dd81dc9b5fb15600bf8b1d4f7b4c0b files/staden-1.5.3-env 163
-RMD160 c082adab8664ec43cff9a46c0868649b5191ffb3 files/staden-1.5.3-env 163
-SHA256 e51a477dbf630e078a74c4145a79cdc40edd6e9749e3e9175f060bba37de5553 files/staden-1.5.3-env 163
-AUX staden-1.5.3-getopt.patch 367 RMD160 51d5abea8ddf6715526db3f2566de8016c575770 SHA1 5b8d74d92b968138bfaef77ee2dbc38267690ade SHA256 bccb40cb506f15d99347d3fcf130b3044e7efc1855a13489d2d00206d1ac3636
-MD5 daf40c222b80ffc48d9a2ac2544ab631 files/staden-1.5.3-getopt.patch 367
-RMD160 51d5abea8ddf6715526db3f2566de8016c575770 files/staden-1.5.3-getopt.patch 367
-SHA256 bccb40cb506f15d99347d3fcf130b3044e7efc1855a13489d2d00206d1ac3636 files/staden-1.5.3-getopt.patch 367
-AUX staden-1.5.3-iwidgetsrc.new 445 RMD160 4cc07cdda2cc30bfa5b39e549f0ac4c343474c42 SHA1 5a9660e772fc18af5332c09efaa4d1865f9d957e SHA256 7f61682fe0365dcfcaa0c5340f1d4876140bc754ad6ead011d08d07ace38943c
-MD5 bd82265e893628c1b46329d77e1f11d8 files/staden-1.5.3-iwidgetsrc.new 445
-RMD160 4cc07cdda2cc30bfa5b39e549f0ac4c343474c42 files/staden-1.5.3-iwidgetsrc.new 445
-SHA256 7f61682fe0365dcfcaa0c5340f1d4876140bc754ad6ead011d08d07ace38943c files/staden-1.5.3-iwidgetsrc.new 445
-AUX staden-1.5.3-mutlib-gcc-3.4.patch 5460 RMD160 6b46bb167f689cc604f386dfe66845de92b487c5 SHA1 b50e7faba395466de8ce3fadc506f993ae66308b SHA256 a6bb83d70106b515d9a1f01640670454df2fbec938ad79d58c63b8e5ea795371
-MD5 82a31125cf882d95d15578040add39c3 files/staden-1.5.3-mutlib-gcc-3.4.patch 5460
-RMD160 6b46bb167f689cc604f386dfe66845de92b487c5 files/staden-1.5.3-mutlib-gcc-3.4.patch 5460
-SHA256 a6bb83d70106b515d9a1f01640670454df2fbec938ad79d58c63b8e5ea795371 files/staden-1.5.3-mutlib-gcc-3.4.patch 5460
-AUX staden-1.5.3-mutscan.patch 330 RMD160 4e25465dea57ec108810469e5c5b177a07a2bc07 SHA1 82e0a63594a167b55b5a717ffd6ffc426bdc0f71 SHA256 ea442d4b8ff809f633f8af2b6f16a157bc4c12cdd859463b878064ec4ed418e7
-MD5 2d495d394e31807f84859f854024b3fc files/staden-1.5.3-mutscan.patch 330
-RMD160 4e25465dea57ec108810469e5c5b177a07a2bc07 files/staden-1.5.3-mutscan.patch 330
-SHA256 ea442d4b8ff809f633f8af2b6f16a157bc4c12cdd859463b878064ec4ed418e7 files/staden-1.5.3-mutscan.patch 330
-AUX staden-1.5.3-prefinish.patch 362 RMD160 8ef43a7902e512c2491d48121e12159d23f0f4af SHA1 f80cf538f07597004e948ded03489f9062aeb466 SHA256 37fe4a6fcb5f1a0d52105429f88cb646cebb7580ac9b80499c6eb154eb7dba13
-MD5 9f05ecafdd38d17d8dd40ff581dda1a2 files/staden-1.5.3-prefinish.patch 362
-RMD160 8ef43a7902e512c2491d48121e12159d23f0f4af files/staden-1.5.3-prefinish.patch 362
-SHA256 37fe4a6fcb5f1a0d52105429f88cb646cebb7580ac9b80499c6eb154eb7dba13 files/staden-1.5.3-prefinish.patch 362
-AUX staden-1.5.3-staden_help.new 159 RMD160 4b2b9babf4b4156029496b655952050ec5372c96 SHA1 aaf1b291a6ffce474c6a2cea723b014f421ed8ed SHA256 c93c500af0b226ceafa28c42a7f6cf1b18c12ec225748094fdd5c4f5b90cb33a
-MD5 1026629ee4b47aea8043dd7f35eb2ffe files/staden-1.5.3-staden_help.new 159
-RMD160 4b2b9babf4b4156029496b655952050ec5372c96 files/staden-1.5.3-staden_help.new 159
-SHA256 c93c500af0b226ceafa28c42a7f6cf1b18c12ec225748094fdd5c4f5b90cb33a files/staden-1.5.3-staden_help.new 159
-AUX staden-1.5.3-text_utils.patch 478 RMD160 bdfc7b73e3d39117e1fbfa998a104a451bfbc34e SHA1 2b530ccfd91897e823d8c6087c42373c047a7890 SHA256 74498bad66c411019d053bd1b5574bc3acbacdece1f7af604373471aa6a41b33
-MD5 6ce4d77a48d0377a1ada09f1990fb2af files/staden-1.5.3-text_utils.patch 478
-RMD160 bdfc7b73e3d39117e1fbfa998a104a451bfbc34e files/staden-1.5.3-text_utils.patch 478
-SHA256 74498bad66c411019d053bd1b5574bc3acbacdece1f7af604373471aa6a41b33 files/staden-1.5.3-text_utils.patch 478
-AUX staden-1.5.3-tk_utils.patch 787 RMD160 660663cad027e119d9321a272d744835bc20e68b SHA1 40a9cf706253672c80ec92d05cfaba4f6f8328ec SHA256 58df936665d54d1eaa8176970c84e5fdd0d1f5a203ce1d4b8123fea500f18f27
-MD5 7e0b4d0414191e2d1e00c65c16f3c377 files/staden-1.5.3-tk_utils.patch 787
-RMD160 660663cad027e119d9321a272d744835bc20e68b files/staden-1.5.3-tk_utils.patch 787
-SHA256 58df936665d54d1eaa8176970c84e5fdd0d1f5a203ce1d4b8123fea500f18f27 files/staden-1.5.3-tk_utils.patch 787
-AUX staden-1.5.3-top.patch 230 RMD160 8deb4862c24b938489bd1b682fa2711fb08e58b5 SHA1 ba9edb17d22635fb2d2d1130303ca30ffc5737c8 SHA256 b9d4093d220cabd71a20f650b00907554f646d9e5271dc1bd6bb4655da5a56b7
-MD5 0857e0bf79953bfa46b1224f6218701a files/staden-1.5.3-top.patch 230
-RMD160 8deb4862c24b938489bd1b682fa2711fb08e58b5 files/staden-1.5.3-top.patch 230
-SHA256 b9d4093d220cabd71a20f650b00907554f646d9e5271dc1bd6bb4655da5a56b7 files/staden-1.5.3-top.patch 230
-AUX staden-1.5.3-tracediff.patch 334 RMD160 9c3fcdd725e9e5f12dcb24626da3de28cde472b5 SHA1 c3bcd4d10be6a546dcaa21935258a71defb669f9 SHA256 09997f7e636f41e318347400936f8a07501e99aab0601e8ab46281bbace58d5d
-MD5 690ec96f38a668c6cda216d7a3960ecf files/staden-1.5.3-tracediff.patch 334
-RMD160 9c3fcdd725e9e5f12dcb24626da3de28cde472b5 files/staden-1.5.3-tracediff.patch 334
-SHA256 09997f7e636f41e318347400936f8a07501e99aab0601e8ab46281bbace58d5d files/staden-1.5.3-tracediff.patch 334
-DIST course-1.1.tar.gz 5271133
-DIST staden-1.4.1-missing-doc.tar.bz2 63825
-DIST staden-src-1-5-3.tar.gz 19670216
-DIST tcl8.4.6-src.tar.gz 3448711
-DIST tk8.4.6-src.tar.gz 3230760
-EBUILD staden-1.5.3-r1.ebuild 9559 RMD160 cc42ec408ca0ce8a2d56d5234970368f878c1d51 SHA1 1eb1e3afc50a9631e07b85fdfcbac16ef102db88 SHA256 5239ff23b6ba235071771e268c46fc36ad06efbdb6b20e2ace42846bc1b4d402
-MD5 08c238bbea3b668fa03c0b468d3131bf staden-1.5.3-r1.ebuild 9559
-RMD160 cc42ec408ca0ce8a2d56d5234970368f878c1d51 staden-1.5.3-r1.ebuild 9559
-SHA256 5239ff23b6ba235071771e268c46fc36ad06efbdb6b20e2ace42846bc1b4d402 staden-1.5.3-r1.ebuild 9559
-MISC ChangeLog 5368 RMD160 3a342d46b422cbc3885aaab78b953b62188e6eed SHA1 313db92c54d5bc65b8733a71f443a0732acd0143 SHA256 d2211c9cbb9ec5735249dea592bacf11177325ebf683e9d43c3df0ee9a71c3fa
-MD5 6cc8fe615abb91e0020de247147531d2 ChangeLog 5368
-RMD160 3a342d46b422cbc3885aaab78b953b62188e6eed ChangeLog 5368
-SHA256 d2211c9cbb9ec5735249dea592bacf11177325ebf683e9d43c3df0ee9a71c3fa ChangeLog 5368
-MISC metadata.xml 262 RMD160 4eabcbcb990d4d5e3b34db8c27bcd2c0cfcf7501 SHA1 3c024ca60a2b93ed0e0311f6b05ef5ef117bee31 SHA256 89af818a993faf14a4a87e2f254943420156c2a317c385480a9533ba682b650f
-MD5 5f35ae4b4cb1cd144db7c7c093d3fd80 metadata.xml 262
-RMD160 4eabcbcb990d4d5e3b34db8c27bcd2c0cfcf7501 metadata.xml 262
-SHA256 89af818a993faf14a4a87e2f254943420156c2a317c385480a9533ba682b650f metadata.xml 262
-MD5 e3ce8053514641a26df3ca33f2962e55 files/digest-staden-1.5.3-r1 338
-RMD160 3cea49b9aa5410391dbc336bcc0d391d7e615c19 files/digest-staden-1.5.3-r1 338
-SHA256 46e95a2d368c2493d2751ffdcbf7b86acb4497ac0de5ddf595ab0f1e1c098dd8 files/digest-staden-1.5.3-r1 338
diff --git a/sci-biology/staden/files/digest-staden-1.5.3-r1 b/sci-biology/staden/files/digest-staden-1.5.3-r1
deleted file mode 100644
index e56ba566e848..000000000000
--- a/sci-biology/staden/files/digest-staden-1.5.3-r1
+++ /dev/null
@@ -1,5 +0,0 @@
-MD5 8f0ab94abe48972aecda69a1828d59ea staden-src-1-5-3.tar.gz 19670216
-MD5 9550e01cd954c3f672d2a500e051fa53 staden-1.4.1-missing-doc.tar.bz2 63825
-MD5 9009a92dc648775fb8a9b0789b995756 tcl8.4.6-src.tar.gz 3448711
-MD5 24b7774d54c1c568cabe16f3498ddccd tk8.4.6-src.tar.gz 3230760
-MD5 d6e739e823bff99e61007ded4cb71f79 course-1.1.tar.gz 5271133
diff --git a/sci-biology/staden/files/staden-1.5.3-env b/sci-biology/staden/files/staden-1.5.3-env
deleted file mode 100644
index 51aa969f6cde..000000000000
--- a/sci-biology/staden/files/staden-1.5.3-env
+++ /dev/null
@@ -1,6 +0,0 @@
-STADENROOT=/opt/staden
-MACHINE=linux
-STADTABL=/opt/staden/tables
-STADLIB=/opt/staden/lib
-PATH=/opt/staden/linux-bin
-LD_LIBRARY_PATH=/opt/staden/lib/linux-binaries
diff --git a/sci-biology/staden/files/staden-1.5.3-getopt.patch b/sci-biology/staden/files/staden-1.5.3-getopt.patch
deleted file mode 100644
index bc5da3f26275..000000000000
--- a/sci-biology/staden/files/staden-1.5.3-getopt.patch
+++ /dev/null
@@ -1,14 +0,0 @@
---- src/Misc/misc.h.old	2004-11-09 04:53:23.000000000 -0500
-+++ src/Misc/misc.h	2005-01-08 22:25:42.487088768 -0500
-@@ -7,10 +7,7 @@
- 
- #include "os.h"
- #include "xalloc.h"
--
--#ifdef _MSC_VER
--extern int getopt( int argc, char* const argv[], const char* optstring );
--#endif
-+#include <getopt.h>
- 
- extern int is_directory(char * fn);
- extern int is_file(char * fn);
diff --git a/sci-biology/staden/files/staden-1.5.3-iwidgetsrc.new b/sci-biology/staden/files/staden-1.5.3-iwidgetsrc.new
deleted file mode 100644
index 1beae9513b51..000000000000
--- a/sci-biology/staden/files/staden-1.5.3-iwidgetsrc.new
+++ /dev/null
@@ -1,16 +0,0 @@
-set tcl_pkgPath ""
-#if {"$tcl_platform(platform)" == "windows"} {
-#  load_package itcl33
-#  load_package itk33
-#} else {
-load_package itcl3.3
-load_package itk3.3
-#}
-load_package iwidgets
-# Can't use package require as it will still attempt to use /usr/local copy.
-#namespace import itk::*
-#source $env(STADLIB)/itcl3.3/itcl.tcl
-source $env(STADLIB)/iwidgets/iwidgets.tcl
-package require Iwidgets
-namespace import itcl::*
-namespace import itk::*
diff --git a/sci-biology/staden/files/staden-1.5.3-mutlib-gcc-3.4.patch b/sci-biology/staden/files/staden-1.5.3-mutlib-gcc-3.4.patch
deleted file mode 100644
index 1d33096e3d0f..000000000000
--- a/sci-biology/staden/files/staden-1.5.3-mutlib-gcc-3.4.patch
+++ /dev/null
@@ -1,190 +0,0 @@
---- src/mutlib/array.hpp.old	2004-11-09 04:53:27.000000000 -0500
-+++ src/mutlib/array.hpp	2005-01-24 21:59:12.639686328 -0500
-@@ -316,12 +316,12 @@
- template <typename T>
- double NumericArray<T>::Mean() const
- {
--   assert(m_pArray != NULL);
-+   assert(this->m_pArray != NULL);
-    double acc = 0.0;
--   for( int n=m_nLowerLimit; n<=m_nUpperLimit; n++ )
--      acc += m_pArray[n];
--   return (m_nUpperLimit-m_nLowerLimit+1)
--     ? acc / (m_nUpperLimit-m_nLowerLimit+1)
-+   for( int n=this->m_nLowerLimit; n<=this->m_nUpperLimit; n++ )
-+      acc += this->m_pArray[n];
-+   return (this->m_nUpperLimit - this->m_nLowerLimit+1)
-+     ? acc / (this->m_nUpperLimit - this->m_nLowerLimit+1)
-      : 0;
- }
- 
-@@ -334,18 +334,18 @@
- template <typename T>
- double NumericArray<T>::Variance( double* nMean ) const
- {
--   assert(m_pArray != NULL);
-+   assert(this->m_pArray != NULL);
-    double tmp;
-    double acc  = 0.0;
-    double mean = nMean ? *nMean : Mean();
--   for( int n=m_nLowerLimit; n<=m_nUpperLimit; n++ )
-+   for( int n=this->m_nLowerLimit; n<=this->m_nUpperLimit; n++ )
-    {
--      tmp  = double(m_pArray[n]) - mean;
-+      tmp  = double(this->m_pArray[n]) - mean;
-       tmp *= tmp;
-       acc += tmp;
-    }
--   assert(m_nUpperLimit-m_nLowerLimit!=0);
--   return acc / static_cast<double>(m_nUpperLimit-m_nLowerLimit);
-+   assert(this->m_nUpperLimit - this->m_nLowerLimit!=0);
-+   return acc / static_cast<double>(this->m_nUpperLimit - this->m_nLowerLimit);
- }
- 
- 
-@@ -358,10 +358,10 @@
- T NumericArray<T>::Min() const
- {
-    T minval = std::numeric_limits<T>::max();
--   for( int n=m_nLowerLimit; n<=m_nUpperLimit; n++ )
-+   for( int n=this->m_nLowerLimit; n<=this->m_nUpperLimit; n++ )
-    {
--      if( m_pArray[n] < minval )
--         minval = m_pArray[n];
-+      if( this->m_pArray[n] < minval )
-+         minval = this->m_pArray[n];
-    }
-    return minval;
- }
-@@ -376,10 +376,10 @@
- T NumericArray<T>::Max() const
- {
-    T maxval = std::numeric_limits<T>::min();
--   for( int n=m_nLowerLimit; n<=m_nUpperLimit; n++ )
-+   for( int n=this->m_nLowerLimit; n<=this->m_nUpperLimit; n++ )
-    {
--      if( m_pArray[n] > maxval )
--         maxval = m_pArray[n];
-+      if( this->m_pArray[n] > maxval )
-+         maxval = this->m_pArray[n];
-    }
-    return maxval;
- }
-@@ -392,14 +392,14 @@
-    // Linear interpolation between two points using equation y = mx + c
-    assert(x1<x2);
-    assert(x1>=0);
--   assert(x2<m_nLength);
-+   assert(x2<this->m_nLength);
-    if( x2 > x1 )
-    {
-       int    points = x2 - x1;
--      T      c      = m_pArray[x1];
--      double m      = static_cast<double>(m_pArray[x2] - m_pArray[x1]) / static_cast<double>(points);
-+      T      c      = this->m_pArray[x1];
-+      double m      = static_cast<double>(this->m_pArray[x2] - this->m_pArray[x1]) / static_cast<double>(points);
-       for( int x=0; x<points; x++, x1++ )
--         m_pArray[x1] = static_cast<T>( m*x + c );
-+	  this->m_pArray[x1] = static_cast<T>( m*x + c );
-   }
- }
- 
-@@ -436,8 +436,8 @@
- bool DNAArray<CharT>::IsACGT( int nBasePos ) const
- {
-     assert(nBasePos>=0);
--    assert(nBasePos<m_nLength);
--    switch( m_pArray[nBasePos] )
-+    assert(nBasePos<this->m_nLength);
-+    switch( this->m_pArray[nBasePos] )
-     {
-         case 'A':
-         case 'C':
-@@ -467,11 +467,11 @@
-    Base numbers are assumed to be zero-based.
- */
-    assert(nBasePos>=0);
--   assert(nBasePos<m_nLength);
-+   assert(nBasePos<this->m_nLength);
-    int bp = 0;
--   for( int n=0; n<m_nLength; n++ )
-+   for( int n=0; n<this->m_nLength; n++ )
-    {
--      if( m_pArray[n] == cPad )
-+      if( this->m_pArray[n] == cPad )
-          continue;
-       if( bp == nBasePos )
-          return n;
-@@ -493,9 +493,9 @@
-     Counts the number of pad characters contained in the current range.
- */
-     int nPads = 0;
--    for( int n=m_nLowerLimit; n<=m_nUpperLimit; n++ )
-+    for( int n=this->m_nLowerLimit; n<=this->m_nUpperLimit; n++ )
-     {
--        if( m_pArray[n] == cPad )
-+        if( this->m_pArray[n] == cPad )
-             nPads++;
-     }
-     return nPads;
-@@ -519,9 +519,9 @@
-     {
-         // Scan from left
-         i = 0;
--        while( (i<m_nLength) && (n>0) )
-+        while( (i<this->m_nLength) && (n>0) )
-         {
--            if( m_pArray[i] != cPad )
-+            if( this->m_pArray[i] != cPad )
-                 n--;
-             i++;
-         }
-@@ -529,10 +529,10 @@
-     else
-     {
-         // Scan from right
--        i = m_nLength - 1;
-+        i = this->m_nLength - 1;
-         while( (i>=0) && (n>0) )
-         {
--            if( m_pArray[i] != cPad )
-+            if( this->m_pArray[i] != cPad )
-                 n--;
-             i--;
-         }
-@@ -546,12 +546,12 @@
- int DNAArray<CharT>::GetOriginalPosition( int i, bool bLeft, char cPad ) const
- {
-     assert(i>=0);
--    assert(i<m_nLength);
-+    assert(i<this->m_nLength);
- 
- 
-     // Check input
-     int n = -1;
--    if( i >= m_nLength )
-+    if( i >= this->m_nLength )
-         return n;
- 
- 
-@@ -561,7 +561,7 @@
-         // Scan to left
-         while( i >= 0 )
-         {
--            if( m_pArray[i] != cPad )
-+            if( this->m_pArray[i] != cPad )
-                 n++;
-             i--;
-         }
-@@ -569,9 +569,9 @@
-     else
-     {
-         // Scan to right
--        while( i < m_nLength )
-+        while( i < this->m_nLength )
-         {
--            if( m_pArray[i] != cPad )
-+            if( this->m_pArray[i] != cPad )
-                 n++;
-             i++;
-         }
diff --git a/sci-biology/staden/files/staden-1.5.3-mutscan.patch b/sci-biology/staden/files/staden-1.5.3-mutscan.patch
deleted file mode 100644
index 82374a949ca4..000000000000
--- a/sci-biology/staden/files/staden-1.5.3-mutscan.patch
+++ /dev/null
@@ -1,15 +0,0 @@
---- src/mutscan/Makefile.old	2004-11-09 04:53:46.000000000 -0500
-+++ src/mutscan/Makefile	2005-01-17 19:06:25.913557696 -0500
-@@ -20,7 +20,11 @@
- 	$(TEXTUTILS_LIB) \
- 	$(MUT_LIB) \
- 	$(IOLIB_LIB) \
--	$(TK_LIB)
-+	$(TK_LIB) \
-+	-lmisc \
-+	-lseq_utils \
-+	-ltk_utils \
-+	-L../lib/linux-binaries
- 
- OBJSD	= \
- 	$(MUTSCANBIN)/main.o \
diff --git a/sci-biology/staden/files/staden-1.5.3-prefinish.patch b/sci-biology/staden/files/staden-1.5.3-prefinish.patch
deleted file mode 100644
index 16148504996e..000000000000
--- a/sci-biology/staden/files/staden-1.5.3-prefinish.patch
+++ /dev/null
@@ -1,17 +0,0 @@
---- src/prefinish/Makefile.old	2004-11-09 04:53:37.000000000 -0500
-+++ src/prefinish/Makefile	2005-01-17 18:53:38.119280168 -0500
-@@ -54,7 +54,13 @@
- 	$(GAP_LIB) \
- 	$(TEXTUTILS_LIB) \
- 	$(MISC_LIB) \
--	$(TCL_LIB)
-+	$(TCL_LIB) \
-+	-lmutlib \
-+	-lprimer3 \
-+	-ltk_utils \
-+	-lread \
-+	-lseq_utils \
-+	-L../lib/linux-binaries
- 
- ISOBJS=\
- 	$(O)/insert_size_dist.o
diff --git a/sci-biology/staden/files/staden-1.5.3-staden_help.new b/sci-biology/staden/files/staden-1.5.3-staden_help.new
deleted file mode 100644
index 4e371d848ce6..000000000000
--- a/sci-biology/staden/files/staden-1.5.3-staden_help.new
+++ /dev/null
@@ -1,5 +0,0 @@
-#!/bin/sh
-
-[ -z ${BROWSER} ] \
-	&& echo 'staden_help: "BROWSER" environment variable not set.' && exit 1 \
-	|| ${BROWSER} ${STADENROOT}/doc/documentation.html
diff --git a/sci-biology/staden/files/staden-1.5.3-text_utils.patch b/sci-biology/staden/files/staden-1.5.3-text_utils.patch
deleted file mode 100644
index 315860248dfc..000000000000
--- a/sci-biology/staden/files/staden-1.5.3-text_utils.patch
+++ /dev/null
@@ -1,17 +0,0 @@
---- src/text_utils/Makefile.old	2004-11-09 04:53:27.000000000 -0500
-+++ src/text_utils/Makefile	2005-01-08 23:17:12.196381560 -0500
-@@ -41,14 +41,6 @@
- 
- .PRECIOUS:	.links
- .links:
--	ln -s ../licence/boxes.h .
--	ln -s ../licence/licence.h .
--	ln -s ../licence/check_licence.c .
--	ln -s ../licence/licence_utils.c .
--	ln -s ../licence/licence_utils.h .
--	ln -s ../licence/md52.c .
--	ln -s ../licence/md52.h .
--	ln -s ../licence/valid_seq.c .
- 	touch .links
- 	$(MAKE) $(MFLAGS)
- 
diff --git a/sci-biology/staden/files/staden-1.5.3-tk_utils.patch b/sci-biology/staden/files/staden-1.5.3-tk_utils.patch
deleted file mode 100644
index fa2db6e466a2..000000000000
--- a/sci-biology/staden/files/staden-1.5.3-tk_utils.patch
+++ /dev/null
@@ -1,30 +0,0 @@
---- src/tk_utils/Makefile.old	2004-11-09 04:53:26.000000000 -0500
-+++ src/tk_utils/Makefile	2005-01-17 18:47:19.889779792 -0500
-@@ -97,7 +97,9 @@
- 
- STASH_LIBS = \
- 	$(TKUTILS_LIB) \
--	$(TK_LIB)
-+	$(TK_LIB) \
-+	$(IOLIB_LIB) \
-+	$(MISC_LIB)
- 
- $(TKUTILSBIN)/stash: $(STASH_OBJS)
- 	$(CLD) $(LDEXEFLAG)$@$(EXE_SUFFIX) $(SUBSYSTEMWIN) $(STASH_OBJS) $(STASH_LIBS) $(LIBSC)
-@@ -105,16 +107,6 @@
- 
- .PRECIOUS:	.links
- .links:
--	ln -s ../licence/boxes.h .
--	ln -s ../licence/licence.h .
--	ln -s ../licence/check_licence.c .
--	ln -s ../licence/licence_utils.c .
--	ln -s ../licence/licence_utils.h .
--	ln -s ../licence/md52.c .
--	ln -s ../licence/md52.h .
--	ln -s ../licence/valid_seq.c .
--	ln -s ../tcl8.4.6/unix/tclAppInit.c .
--	ln -s ../tk8.4.6/winMain.c .
- 	touch .links
- 	$(MAKE) $(MFLAGS)
- 
diff --git a/sci-biology/staden/files/staden-1.5.3-top.patch b/sci-biology/staden/files/staden-1.5.3-top.patch
deleted file mode 100644
index 049dfa9f9458..000000000000
--- a/sci-biology/staden/files/staden-1.5.3-top.patch
+++ /dev/null
@@ -1,11 +0,0 @@
---- Makefile.old	2004-11-09 04:53:22.000000000 -0500
-+++ Makefile	2005-01-08 21:22:35.561788920 -0500
-@@ -30,8 +30,6 @@
- 
- all:
- 	cd src; $(MAKE) all
--	cd doc; $(MAKE) all
--	cd course; $(MAKE) all
- 
- install:
- 	cd src; $(MAKE) $@
diff --git a/sci-biology/staden/files/staden-1.5.3-tracediff.patch b/sci-biology/staden/files/staden-1.5.3-tracediff.patch
deleted file mode 100644
index 65203ddaa1a7..000000000000
--- a/sci-biology/staden/files/staden-1.5.3-tracediff.patch
+++ /dev/null
@@ -1,15 +0,0 @@
---- src/tracediff/Makefile.old	2004-11-09 04:53:40.000000000 -0500
-+++ src/tracediff/Makefile	2005-01-17 19:00:15.023941488 -0500
-@@ -19,7 +19,11 @@
- HLIBS=\
- 	$(TEXTUTILS_LIB) \
- 	$(MUT_LIB) \
--	$(IOLIB_LIB)
-+	$(IOLIB_LIB) \
-+	-lmisc \
-+	-lseq_utils \
-+	-ltk_utils \
-+	-L../lib/linux-binaries
- 
- OBJSD	= \
- 	$(TRACEDIFFBIN)/main.o \
diff --git a/sci-biology/staden/metadata.xml b/sci-biology/staden/metadata.xml
deleted file mode 100644
index ebbff811d3b4..000000000000
--- a/sci-biology/staden/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>
-	<maintainer>
-		<email>ribosome@gentoo.org</email>
-		<name>Olivier Fisette</name>
-	</maintainer>
-	<herd>sci-biology</herd>
-</pkgmetadata>
diff --git a/sci-biology/staden/staden-1.5.3-r1.ebuild b/sci-biology/staden/staden-1.5.3-r1.ebuild
deleted file mode 100644
index 9e67cad5558b..000000000000
--- a/sci-biology/staden/staden-1.5.3-r1.ebuild
+++ /dev/null
@@ -1,283 +0,0 @@
-# Copyright 1999-2006 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/staden/staden-1.5.3-r1.ebuild,v 1.3 2006/02/05 06:15:47 ribosome Exp $
-
-inherit eutils toolchain-funcs fortran
-
-TCLV="8.4.6"
-TKV="8.4.6"
-
-DESCRIPTION="The Staden Package - Biological sequence handling and analysis"
-LICENSE="${PN}"
-HOMEPAGE="http://staden.sourceforge.net"
-SRC_URI="mirror://sourceforge/${PN}/${PN}-src-${PV//./-}.tar.gz
-	mirror://gentoo/${PN}-1.4.1-missing-doc.tar.bz2
-	mirror://sourceforge/tcl/tcl${TCLV}-src.tar.gz
-	mirror://sourceforge/tcl/tk${TKV}-src.tar.gz
-	doc? ( mirror://sourceforge/${PN}/course-1.1.tar.gz )"
-
-SLOT="0"
-IUSE="doc"
-KEYWORDS="~amd64 x86"
-
-RDEPEND="app-shells/ksh
-	dev-lang/tcl
-	dev-lang/tk
-	sci-libs/io_lib
-	=dev-tcltk/itcl-3.2*
-	dev-tcltk/iwidgets
-	media-libs/libpng
-	|| ( x11-libs/libX11 virtual/x11 )"
-
-DEPEND="${RDEPEND}
-	dev-lang/perl
-	media-gfx/imagemagick
-	virtual/emacs
-	virtual/tetex"
-
-S="${WORKDIR}/${PN}-src-${PV//./-}"
-
-src_unpack() {
-	unpack ${A}
-	mv "${WORKDIR}"/tcl${TCLV} "${S}"/src
-	mv "${WORKDIR}"/tk${TKV} "${S}"/src
-
-	# The following Makefiles are more or less broken. Libraries are missing,
-	# or their directories are not included, or the variables are not set
-	# correctly and must be replaced by hardcoded library names. The
-	# top-level Makefile is also changed to avoid compiling documentation
-	# (which is provided prebuilt because of numerous compilation/dead links
-	# problems).
-	cd "${S}"
-	epatch "${FILESDIR}"/${P}-top.patch
-	epatch "${FILESDIR}"/${P}-text_utils.patch
-	epatch "${FILESDIR}"/${P}-tk_utils.patch
-	epatch "${FILESDIR}"/${P}-prefinish.patch
-	epatch "${FILESDIR}"/${P}-tracediff.patch
-	epatch "${FILESDIR}"/${P}-mutscan.patch
-	epatch "${FILESDIR}"/${P}-mutlib-gcc-3.4.patch
-	cd "${S}"/src/mk
-	# Remove the "-fpic" flag. This will be replaced by "-fPIC".
-	sed -i -e 's/SHLIB_CFLAGS		= -fpic/SHLIB_CFLAGS		= /' linux.mk || die
-	cd "${S}"
-
-	# "getopt" is incorrectly included as an extern (for Win32 compatibility).
-	epatch "${FILESDIR}"/${P}-getopt.patch
-
-	# The original iwidgetsrc crashes...
-	einfo 'Replacing broken iwidgetsrc'
-	cp "${FILESDIR}"/${P}-iwidgetsrc.new "${S}"/tables/iwidgetsrc
-
-	# Netscape is not a good default browser (security masked in Portage).
-	# Use documentation.html rather than staden_home.html as the top-level
-	# hypertext documentation file.
-	einfo 'Replacing old staden_help script.'
-	cp "${FILESDIR}"/${P}-staden_help.new "${S}"/src/scripts/staden_help
-	chmod +x "${S}"/src/scripts/staden_help
-
-	# The documentation building process is broken on Gentoo, mainly because
-	# incorrect program locations are assumed.
-	einfo "Patching Staden Package documentation build system."
-
-	# Documentation build process cannot find "update-nodes.el".
-	cd "${S}"/doc/manual/tools
-	sed -i -e 's%emacs -batch $1 -l ${DOCDIR:-.}/tools/update-nodes.el%emacs -batch $1 -l ${DOCDIR:-..}/manual/tools/update-nodes.el%' update-nodes || die
-
-	# Perl scripts search for "pearl" in "/usr/local".
-	for SCRIPT in *.pl texi2html; do
-		sed -i -e 's%/usr/local/bin/perl%/usr/bin/perl%' ${SCRIPT} || die
-	done
-
-	# The "convert" tool from Imagemagick is searched for in "/usr/X11R6".
-	sed -i -e 's%/usr/X11R6/bin/convert%/usr/bin/convert%' make_ps || die
-
-	# Solves issues with images in the exercise* texi files.
-	cd "${S}"/course/texi
-	for FILE in exercise*.texi; do
-		sed -i -e 's/,,8in}/,,8in,,eps}/' ${FILE}
-		sed -i -e 's/,6in}/,6in,,,eps}/' ${FILE}
-	done
-
-	# "CFLAGS" and "FFLAGS" need to be set to the user's values in the build
-	# system global Makefile. We also want only "-fPIC" shared libraries.
-	einfo "Applying user-defined compilation/linking flags:"
-	cd "${S}"/src/mk
-	sed -e "s/COPT		= -O2 -g3 -DNDEBUG/COPT = ${CFLAGS:-"-O2 -g3 -DNDEBUG"} -fPIC/" \
-		-e "s/FOPT		= -O2 -g3 -DNDEBUG/FOPT = ${FFLAGS:-"-O2 -g3 -DNDEBUG"} -fPIC/" \
-		-i global.mk || die
-}
-
-src_compile() {
-	# "MACHINE", "{STADEN,SRC}ROOT" and "JOB" are mandatory arguments to the
-	# Staden Package build process. "O" is redefined on the command line to
-	# avoid a conflict between Portage and the Staden Package build system,
-	# which both use this variable. (In Portage, its value is the directory
-	# containing the current ebuild, while in the Staden Package build system
-	# it is set to the directory containing the compiler object files.)
-	# Compiler program names also need to be specified to override the
-	# incorrect hardcoded ones.
-
-	# Compile executables and libraries.
-	make \
-		STADENROOT="${S}" \
-		SRCROOT="${S}/src" \
-		MACHINE="linux" \
-		JOB="all" \
-		O="linux-binaries" \
-		CC=$(tc-getCC) \
-		CXX=$(tc-getCXX) \
-		F77=${F77:-g77} \
-		|| die "Package compilation failed."
-
-	# Build documentation.
-	cd "${S}"/doc
-	make \
-		STADENROOT="${S}" \
-		SRCROOT="${S}/src" \
-		MACHINE="linux" \
-		JOB="all" \
-		O="linux-binaries" \
-		CC=$(tc-getCC) \
-		CXX=$(tc-getCXX) \
-		F77=${F77:-g77} \
-		|| die "Package compilation failed."
-
-
-	# The install process will copy the libraries in ${S}/lib/linux-binaries,
-	# but this directory is in fact a symlink to the source directory.
-	rm "${S}"/lib/linux-binaries
-	mkdir "${S}"/lib/linux-binaries
-
-	# Moves executables in "${S}/linux-bin" and libraries to
-	# ${S}/lib/linux-binaries.
-	cd "${S}"
-	make \
-		STADENROOT="${S}" \
-		SRCROOT="${S}/src" \
-		MACHINE="linux" \
-		JOB="all" \
-		O="linux-binaries" \
-		install || die "Package pre-installation failed."
-
-	# Remove Makefiles from directories which will be manually installed.
-	rm "${S}"/lib/Makefile
-	rm "${S}"/demo/Makefile
-	rm "${S}"/tables/Makefile
-	rm "${S}"/userdata/Makefile
-
-	#Remove libread since an updated version is included in "sci-libs/io_lib".
-	rm "${S}"/lib/linux-binaries/libread.so
-	# Delete the binaries already included in "sci-libs/io_lib".
-	for FILE in convert_trace \
-		extract_seq \
-		get_comment \
-		index_tar \
-		makeSCF \
-		scf_{dump,info,update} \
-		trace_dump; do
-		rm "${S}"/linux-bin/${FILE}
-	done
-
-	# These won't be found if they are not symlinked in the lib dir.
-	ln -s /usr/$(get_libdir)/libitcl3.2.so "${S}"/lib/itcl3.3/libitcl3.3.so
-	ln -s /usr/$(get_libdir)/libitk3.2.so "${S}"/lib/itk3.3/libitk3.3.so
-
-	# Remove the (broken) prebuilt EMBOSS tcl/tk GUIs.
-	rm "${S}"/tables/emboss_menu
-	rm -r "${S}"/lib/spin2_emboss/acdtcl
-	rm -r "${S}"/lib/spin_emboss/acdtcl
-
-	# Patch hypertext documentation.
-	cd "${S}"/doc/manual
-	for FILE in *.html; do
-		sed -i -e 's%<a href="../staden_home.html"><img src="i/nav_home.gif" alt="home"></a>%%' ${FILE}
-	done
-	cd "${S}"/doc/scripting_manual
-	for FILE in *.html; do
-		sed -i -e 's%<a href="../staden_home.html"><img src="i/nav_home.gif" alt="home"></a>%%' ${FILE}
-	done
-}
-
-src_install() {
-	# Executables and libraries
-	mkdir -p "${D}"/opt/${PN}
-
-	for FILE in "${S}"/lib/linux-binaries/*; do
-		dolib ${FILE}
-	done
-
-	mv "${S}"/linux-bin "${D}"/opt/${PN}/linux-bin
-	mv "${S}"/lib "${D}"/opt/${PN}/lib
-
-	# Shared files
-	mv "${S}"/demo "${D}"/opt/${PN}
-	mv "${S}"/tables "${D}"/opt/${PN}
-	mv "${S}"/userdata "${D}"/opt/${PN}
-
-	# "env" file for setting paths to Staden Package root, libraries, tables...
-	insinto /etc/env.d
-	newins "${FILESDIR}"/${P}-env 27${PN}
-
-	# Basic documentation
-	insinto /opt/${PN}/doc
-	doins "${S}"/doc/Acknowledgements
-	newins "${S}"/doc/emboss.txt README.emboss
-
-	# Man pages
-	doman "${S}"/doc/manual/man/man*/*.*
-
-	# Hypertext documentation
-	insinto /opt/${PN}/doc/manual
-	doins "${S}"/doc/manual/*unix*.{png,html,index}
-	insinto /opt/${PN}/doc/scripting_manual
-	doins "${S}"/doc/scripting_manual/*.html
-	insinto /opt/${PN}/doc/manual/i
-	doins "${S}"/doc/manual/i/*
-	insinto /opt/${PN}/doc/scripting_manual/i
-	doins "${S}"/doc/scripting_manual/i/*
-
-	# Missing hypertext documentation
-	insinto /opt/${PN}/doc
-	doins "${WORKDIR}"/${PN}-1.4.1-missing-doc/documentation.html
-	insinto /opt/${PN}/doc/misc
-	doins "${WORKDIR}"/${PN}-1.4.1-missing-doc/misc/*
-	insinto /opt/${PN}/doc/misc/i
-	doins "${S}"/doc/manual/i/*
-
-	# Printable manuals and articles
-	insinto /opt/${PN}/doc
-	newins "${S}"/doc/gkb547_gml.pdf Staden1998.pdf
-	newins "${S}"/doc/manual/manual_unix.pdf manual.pdf
-	newins "${S}"/doc/manual/mini_unix.pdf mini_manual.pdf
-	newins "${S}"/doc/scripting_manual/scripting.pdf scripting_manual.pdf
-
-	# A short course in printable format, along with example data
-	if use doc; then
-		mkdir -p "${D}"/opt/${PN}/course
-		mv "${WORKDIR}"/course-1.1/data "${D}"/opt/${PN}/course/data
-		insinto /opt/${PN}/course
-		doins "${WORKDIR}"/course-1.1/README
-		newins "${WORKDIR}"/course-1.1/unix_docs/mutation_talk.ppt course_mutation_detection_diapos.pdf
-		newins "${WORKDIR}"/course-1.1/unix_docs/course_unix.pdf course_project_management.pdf
-		newins "${WORKDIR}"/course-1.1/unix_docs/mutation_notes.pdf course_mutation_detection.pdf
-	fi
-}
-
-pkg_postinst() {
-	echo
-	ewarn 'Known issues:'
-	ewarn
-	ewarn 'The help browser integrated in the GUI applications reports missing'
-	ewarn 'files when following hyperlinks on the main documentation page. This'
-	ewarn 'seems to be a problem in the Staden Package help browser. You might'
-	ewarn 'want to use your favorite browser instead of the integrated one to'
-	ewarn 'read the documentation.'
-	ewarn
-	ewarn 'The GUI programs may crash when bringing up the font selection'
-	ewarn 'dialog. This problem is related to the presence of certain'
-	ewarn 'fonts in "FontPath". If you experience this problem, try using'
-	ewarn '"strace" to identify the problematic font(s) and either uninstall'
-	ewarn 'them or remove the directory they are in from "FontPath" by'
-	ewarn 'editing your X server configuration file.'
-	echo
-}