Pruning old version

Package-Manager: portage-2.1.1-r2

30 files changed, 40 insertions, 458 deletions

diff --git a/sci-biology/embassy-domainatrix/Manifest b/sci-biology/embassy-domainatrix/Manifest
index 33879f7cf9ef..f06cf5667690 100644
--- a/sci-biology/embassy-domainatrix/Manifest
+++ b/sci-biology/embassy-domainatrix/Manifest
@@ -1,36 +1,17 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
-
-DIST DOMAINATRIX-0.1.0.tar.gz 349882 RMD160 9a526a2792e5396020c27f9789fd8392cf319586 SHA1 f91eac10215ca406456cac1a221689233ae6fa94 SHA256 6bc374c5275dead68ef09d8273bf4d73a03bc56990e795d6eddcee4de25c12a0
-DIST EMBOSS-3.0.0.tar.gz 16257908 RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 SHA1 5ed529c3a8066e95fe4044d324991a876d906cca SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea
 DIST EMBOSS-4.0.0.tar.gz 17651607 RMD160 5b29ac2946a1315928581bf0e40a0f6b5023c599 SHA1 784c729f2d2e746339a90048277c9e4f052e036a SHA256 bbfd127adc064a5211542f3b5400cbb13c7f74d9171fd16b8531cee9fd11b231
 DIST embassy-4.0.0-domainatrix-0.1.0.tar.gz 405474 RMD160 65f60a617d1d59b2de530d7cdf0be6e77416a0b6 SHA1 f4e0176abbc687881472ec53ae2bc2a2acb89f16 SHA256 efeb08f29cfd18a87fb54a448eb5b13a5805ae0d3a2d067563c8ff86feb1a1d7
 EBUILD embassy-domainatrix-0.1.0-r1.ebuild 495 RMD160 3907074ebc07689ac9ff0e71e902b997636b20d2 SHA1 8b7bb537c0b1e4c25bec1442fb6cca618f3d10c1 SHA256 8f37ebbd7edfcc9db3b403cbf832d5b051ecc5b135cb69a0a0b8265dfeeb36a5
 MD5 833d7fb2b00d72735f11f0ccfb0de69d embassy-domainatrix-0.1.0-r1.ebuild 495
 RMD160 3907074ebc07689ac9ff0e71e902b997636b20d2 embassy-domainatrix-0.1.0-r1.ebuild 495
 SHA256 8f37ebbd7edfcc9db3b403cbf832d5b051ecc5b135cb69a0a0b8265dfeeb36a5 embassy-domainatrix-0.1.0-r1.ebuild 495
-EBUILD embassy-domainatrix-0.1.0.ebuild 526 RMD160 5527c7ce190b1fa4f058a612f809dfe811b4f1c1 SHA1 59f37d172cc833d92b27c6a3c1756715679a9911 SHA256 8e29083ae06b4aceffdcdf09574d618b6a8472eae2538b1a4fc478e862b90a20
-MD5 194cf4efd50cca6ce6f311dea1ef503a embassy-domainatrix-0.1.0.ebuild 526
-RMD160 5527c7ce190b1fa4f058a612f809dfe811b4f1c1 embassy-domainatrix-0.1.0.ebuild 526
-SHA256 8e29083ae06b4aceffdcdf09574d618b6a8472eae2538b1a4fc478e862b90a20 embassy-domainatrix-0.1.0.ebuild 526
-MISC ChangeLog 3472 RMD160 1bed93d44d61fa826cf00fda49bccf0a3c33a143 SHA1 94c315edadba246d89e3d58aa277385eb6985846 SHA256 a14b6ed53a79e6cf2c4df0a5cfe1ebcb06dff15305f233d0cfa93ed0f570f929
-MD5 5de43fe1ebfb0f02ae3628ba8de7e970 ChangeLog 3472
-RMD160 1bed93d44d61fa826cf00fda49bccf0a3c33a143 ChangeLog 3472
-SHA256 a14b6ed53a79e6cf2c4df0a5cfe1ebcb06dff15305f233d0cfa93ed0f570f929 ChangeLog 3472
+MISC ChangeLog 3588 RMD160 4b9dd4111bcb299385b9fc62bf340b26bec45cb7 SHA1 126ddfc4069f007b2f74798bf162f9d1e2f506a7 SHA256 46f370499e200aa60b95b2c811118dc32580b8c1439b83d715506e1a18ce70f6
+MD5 efaa04c80b5f80d787a7910a5a0aaf05 ChangeLog 3588
+RMD160 4b9dd4111bcb299385b9fc62bf340b26bec45cb7 ChangeLog 3588
+SHA256 46f370499e200aa60b95b2c811118dc32580b8c1439b83d715506e1a18ce70f6 ChangeLog 3588
 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 78a6d11392aa3faebbff0b978338f26c files/digest-embassy-domainatrix-0.1.0 497
-RMD160 e46fcb270e0fac410d484dc8b485cde17325bd7b files/digest-embassy-domainatrix-0.1.0 497
-SHA256 d103408584be34b426ffb49d360afc9bb8b49b2c98e7023eeb46a3f63392e960 files/digest-embassy-domainatrix-0.1.0 497
 MD5 0b9f712a2fc85b20f14102eb578422cb files/digest-embassy-domainatrix-0.1.0-r1 539
 RMD160 e3402b86c8c83bcd4a6aba48c6c2ce457e072ade files/digest-embassy-domainatrix-0.1.0-r1 539
 SHA256 86e8c129e02426f6782b65403055dc481f1017d5337c8058860f357bf1d72cf7 files/digest-embassy-domainatrix-0.1.0-r1 539
------BEGIN PGP SIGNATURE-----
-Version: GnuPG v1.4.5 (GNU/Linux)
-
-iD8DBQFFSz0DwLwTda5NScMRAtstAJ9MMY3pU1is0bLVIggbgJFqweRyZACfW1nN
-CpeF/HBZPv+5KZhZawbWNAU=
-=55WY
------END PGP SIGNATURE-----
diff --git a/sci-biology/embassy-domainatrix/embassy-domainatrix-0.1.0.ebuild b/sci-biology/embassy-domainatrix/embassy-domainatrix-0.1.0.ebuild
deleted file mode 100644
index 2937da54670b..000000000000
--- a/sci-biology/embassy-domainatrix/embassy-domainatrix-0.1.0.ebuild
+++ /dev/null
@@ -1,15 +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/embassy-domainatrix/embassy-domainatrix-0.1.0.ebuild,v 1.8 2006/11/03 07:14:53 grobian Exp $
-
-EBOV="3.0.0"
-
-inherit embassy
-
-DESCRIPTION="Protein domain analysis add-on package for EMBOSS"
-SRC_URI="ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/EMBOSS-${EBOV}.tar.gz
-	ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/${EF}.tar.gz"
-
-RESTRICT="mirror"
-
-KEYWORDS="ppc x86"
diff --git a/sci-biology/embassy-domainatrix/files/digest-embassy-domainatrix-0.1.0 b/sci-biology/embassy-domainatrix/files/digest-embassy-domainatrix-0.1.0
deleted file mode 100644
index cd54e65d465f..000000000000
--- a/sci-biology/embassy-domainatrix/files/digest-embassy-domainatrix-0.1.0
+++ /dev/null
@@ -1,6 +0,0 @@
-MD5 655f6ec58e0b9dfdac111fd9481359cb DOMAINATRIX-0.1.0.tar.gz 349882
-RMD160 9a526a2792e5396020c27f9789fd8392cf319586 DOMAINATRIX-0.1.0.tar.gz 349882
-SHA256 6bc374c5275dead68ef09d8273bf4d73a03bc56990e795d6eddcee4de25c12a0 DOMAINATRIX-0.1.0.tar.gz 349882
-MD5 fa72feded9ab9272e3e731c09f545dcc EMBOSS-3.0.0.tar.gz 16257908
-RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 EMBOSS-3.0.0.tar.gz 16257908
-SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea EMBOSS-3.0.0.tar.gz 16257908
diff --git a/sci-biology/embassy-domalign/Manifest b/sci-biology/embassy-domalign/Manifest
index b2d9e52a7fdb..ed2c0ccec1a9 100644
--- a/sci-biology/embassy-domalign/Manifest
+++ b/sci-biology/embassy-domalign/Manifest
@@ -1,36 +1,17 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
-
-DIST DOMALIGN-0.1.0.tar.gz 347672 RMD160 c3274d2639a0c830d4fceb49255e6d69476cca33 SHA1 e22d622d28634ab3a85cca2c33fd5f30118743da SHA256 de66ddfdb72ccf7291be614c9a83fd8fc47363191cb2c045b372de5cc334a594
-DIST EMBOSS-3.0.0.tar.gz 16257908 RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 SHA1 5ed529c3a8066e95fe4044d324991a876d906cca SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea
 DIST EMBOSS-4.0.0.tar.gz 17651607 RMD160 5b29ac2946a1315928581bf0e40a0f6b5023c599 SHA1 784c729f2d2e746339a90048277c9e4f052e036a SHA256 bbfd127adc064a5211542f3b5400cbb13c7f74d9171fd16b8531cee9fd11b231
 DIST embassy-4.0.0-domalign-0.1.0.tar.gz 440714 RMD160 252202a6263d8da1166166610db836037f205ea3 SHA1 6f8aadc9acb479db4615e98da997d03e94e1500c SHA256 9abf35023e64229a103039d505bda23b0d3eef45d7cd79bdac14f2fe133764b6
 EBUILD embassy-domalign-0.1.0-r1.ebuild 490 RMD160 1b263ef33d917d29cd22d52f9352ef75133bec63 SHA1 4e305b9ed4ce3e9fd4278bd57ea766a9dedb49ce SHA256 ce3b7858917ae528978c3b056b9dc1bd961e064e5ef5898f189796c28e1d57c0
 MD5 726cb41a842defd495252595b8a89772 embassy-domalign-0.1.0-r1.ebuild 490
 RMD160 1b263ef33d917d29cd22d52f9352ef75133bec63 embassy-domalign-0.1.0-r1.ebuild 490
 SHA256 ce3b7858917ae528978c3b056b9dc1bd961e064e5ef5898f189796c28e1d57c0 embassy-domalign-0.1.0-r1.ebuild 490
-EBUILD embassy-domalign-0.1.0.ebuild 521 RMD160 38a7fed0ca869b5d0fa200fe3f22cb8e732064d9 SHA1 237b8f1e954ecd14322a824eb0b904454dcb44ae SHA256 ce446090c1d1fa4b3bbe7523f35ecbc767310126f4300403586d80ba03a9c363
-MD5 43810a6a8cf0ff28687d1108708b25a5 embassy-domalign-0.1.0.ebuild 521
-RMD160 38a7fed0ca869b5d0fa200fe3f22cb8e732064d9 embassy-domalign-0.1.0.ebuild 521
-SHA256 ce446090c1d1fa4b3bbe7523f35ecbc767310126f4300403586d80ba03a9c363 embassy-domalign-0.1.0.ebuild 521
-MISC ChangeLog 1666 RMD160 fc0ef8de010a34c69e9ac93711f75ef77384b852 SHA1 6f9d5f57a1743d021579e1a637791785f8ce3db7 SHA256 0e31963ae194eaa810e00c2b1bfdb9f5a1f18b5772257049cc0a41441538d5da
-MD5 8e4a572774ee0a7bc4f01c0b9cac395c ChangeLog 1666
-RMD160 fc0ef8de010a34c69e9ac93711f75ef77384b852 ChangeLog 1666
-SHA256 0e31963ae194eaa810e00c2b1bfdb9f5a1f18b5772257049cc0a41441538d5da ChangeLog 1666
+MISC ChangeLog 1779 RMD160 868b2aa3589ac530061bf7b6a966bc4c51ad498e SHA1 28eef7e4902b9ee0f69c5fe2e0f70b07085a9766 SHA256 d205415511555771ecf614c5e781c9ff11941cb6357eb28638b34920a7d5ff4c
+MD5 456532baf290688f5fd1099a6407f82a ChangeLog 1779
+RMD160 868b2aa3589ac530061bf7b6a966bc4c51ad498e ChangeLog 1779
+SHA256 d205415511555771ecf614c5e781c9ff11941cb6357eb28638b34920a7d5ff4c ChangeLog 1779
 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 1c124fd9482ce85b6dbfcb5ae435b82f files/digest-embassy-domalign-0.1.0 488
-RMD160 43a2ca104adab76f39420cf6cd934754d9cfd97b files/digest-embassy-domalign-0.1.0 488
-SHA256 dafe7aef791ed91191946e4dfe36ff82ceb6e6ff5e590e13aca8720a9772494c files/digest-embassy-domalign-0.1.0 488
 MD5 66e877ea6c16fb27dc21d717ab3b1288 files/digest-embassy-domalign-0.1.0-r1 530
 RMD160 131ec1a5977967f5add7a9210e95aa8f53b69923 files/digest-embassy-domalign-0.1.0-r1 530
 SHA256 ea36f98e2caaa06f47b4c22f4f1e6523a88af1e04c7c10cc253eb2a9b9a92aa4 files/digest-embassy-domalign-0.1.0-r1 530
------BEGIN PGP SIGNATURE-----
-Version: GnuPG v1.4.5 (GNU/Linux)
-
-iD8DBQFFSz2mwLwTda5NScMRAgh5AJ0dcNICmse0JFcRk3ewFAbPcFaIqQCfQilr
-IZPF6FWS2k6ZF7q9MIU8PJY=
-=lGvd
------END PGP SIGNATURE-----
diff --git a/sci-biology/embassy-domalign/embassy-domalign-0.1.0.ebuild b/sci-biology/embassy-domalign/embassy-domalign-0.1.0.ebuild
deleted file mode 100644
index b0d2cedcc012..000000000000
--- a/sci-biology/embassy-domalign/embassy-domalign-0.1.0.ebuild
+++ /dev/null
@@ -1,15 +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/embassy-domalign/embassy-domalign-0.1.0.ebuild,v 1.7 2006/11/03 07:21:02 grobian Exp $
-
-EBOV="3.0.0"
-
-inherit embassy
-
-DESCRIPTION="Protein domain alignment add-on package for EMBOSS"
-SRC_URI="ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/EMBOSS-${EBOV}.tar.gz
-	ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/${EF}.tar.gz"
-
-RESTRICT="mirror"
-
-KEYWORDS="ppc x86"
diff --git a/sci-biology/embassy-domalign/files/digest-embassy-domalign-0.1.0 b/sci-biology/embassy-domalign/files/digest-embassy-domalign-0.1.0
deleted file mode 100644
index 0df6b034b9f8..000000000000
--- a/sci-biology/embassy-domalign/files/digest-embassy-domalign-0.1.0
+++ /dev/null
@@ -1,6 +0,0 @@
-MD5 4332d7de49b27f257b58a90510223eb7 DOMALIGN-0.1.0.tar.gz 347672
-RMD160 c3274d2639a0c830d4fceb49255e6d69476cca33 DOMALIGN-0.1.0.tar.gz 347672
-SHA256 de66ddfdb72ccf7291be614c9a83fd8fc47363191cb2c045b372de5cc334a594 DOMALIGN-0.1.0.tar.gz 347672
-MD5 fa72feded9ab9272e3e731c09f545dcc EMBOSS-3.0.0.tar.gz 16257908
-RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 EMBOSS-3.0.0.tar.gz 16257908
-SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea EMBOSS-3.0.0.tar.gz 16257908
diff --git a/sci-biology/embassy-domsearch/Manifest b/sci-biology/embassy-domsearch/Manifest
index 6c2f7d00d16e..93d82556b4a7 100644
--- a/sci-biology/embassy-domsearch/Manifest
+++ b/sci-biology/embassy-domsearch/Manifest
@@ -1,36 +1,17 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
-
-DIST DOMSEARCH-0.1.0.tar.gz 352793 RMD160 b69d7d6cc0482ce9d32ec41837c646bada6872d2 SHA1 f183f8dcdc8d5bf68d981c8db422430d6ea51a5d SHA256 f4933b62e19ee6b23a78b70c3cf2d5a9a18eff1d7532f92e2d33b1d683877916
-DIST EMBOSS-3.0.0.tar.gz 16257908 RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 SHA1 5ed529c3a8066e95fe4044d324991a876d906cca SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea
 DIST EMBOSS-4.0.0.tar.gz 17651607 RMD160 5b29ac2946a1315928581bf0e40a0f6b5023c599 SHA1 784c729f2d2e746339a90048277c9e4f052e036a SHA256 bbfd127adc064a5211542f3b5400cbb13c7f74d9171fd16b8531cee9fd11b231
 DIST embassy-4.0.0-domsearch-0.1.0.tar.gz 452839 RMD160 8e7821127b1234708f9b03da9bdbca38e21666f2 SHA1 079fd2e08629560b84eac46fad5716968e9ebb9c SHA256 d285d85b18dc34062a2c1ff3ec57bae552782ad982ca9cb0f7e5481e862fbbe3
 EBUILD embassy-domsearch-0.1.0-r1.ebuild 489 RMD160 add7e6d343a56d694650f5cdba85d21f1083b0c5 SHA1 42d58f9738e8333b8b381a01c06aad1bd2f49f69 SHA256 54be258ed8a178b55d7dc63d90eb1c284cdae7791072a6849fe2481ed34ee2fd
 MD5 3c9e5dc84c4007694acecf6f6bba0934 embassy-domsearch-0.1.0-r1.ebuild 489
 RMD160 add7e6d343a56d694650f5cdba85d21f1083b0c5 embassy-domsearch-0.1.0-r1.ebuild 489
 SHA256 54be258ed8a178b55d7dc63d90eb1c284cdae7791072a6849fe2481ed34ee2fd embassy-domsearch-0.1.0-r1.ebuild 489
-EBUILD embassy-domsearch-0.1.0.ebuild 520 RMD160 64467c44c590f9d2017eb1e97fdaee65c5143384 SHA1 41d52f4ccfa49358753461f8928f4e7e6ae64fec SHA256 a29f247d90d0435ee0a97d74a7a98bdc9a8cb9b4ccff8576da39e21418e4c188
-MD5 67205eaad5f381997365d5ce4636878a embassy-domsearch-0.1.0.ebuild 520
-RMD160 64467c44c590f9d2017eb1e97fdaee65c5143384 embassy-domsearch-0.1.0.ebuild 520
-SHA256 a29f247d90d0435ee0a97d74a7a98bdc9a8cb9b4ccff8576da39e21418e4c188 embassy-domsearch-0.1.0.ebuild 520
-MISC ChangeLog 1585 RMD160 df033a0e2a7be64d91bf097fb3dfadd3da2f2ff9 SHA1 af9214db082486299853a654d711d852b57338c5 SHA256 8f3be9e786c7dd4fb52d1c55d36384a72d485c55d96c0c3157bb144dfc8b975d
-MD5 e23f971e8b1ae68e9d1a445bc1e8c459 ChangeLog 1585
-RMD160 df033a0e2a7be64d91bf097fb3dfadd3da2f2ff9 ChangeLog 1585
-SHA256 8f3be9e786c7dd4fb52d1c55d36384a72d485c55d96c0c3157bb144dfc8b975d ChangeLog 1585
+MISC ChangeLog 1699 RMD160 23f03ca148a6bcc8935a6a28c39eaad6061f7bcc SHA1 6af3160561bfea4dcee415e6b4bf26b2bca86ae5 SHA256 df2bd65ea6955b4022cb7ac130a65aa69143993e4b65cdbe450ff6d8f4062d04
+MD5 29f4e576cad791b72567f522463e0be0 ChangeLog 1699
+RMD160 23f03ca148a6bcc8935a6a28c39eaad6061f7bcc ChangeLog 1699
+SHA256 df2bd65ea6955b4022cb7ac130a65aa69143993e4b65cdbe450ff6d8f4062d04 ChangeLog 1699
 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 477d878615643ab7d637f7a5d03bb4a9 files/digest-embassy-domsearch-0.1.0 491
-RMD160 2c1c02a2cf32be68408681ef7ac5d6187737fffe files/digest-embassy-domsearch-0.1.0 491
-SHA256 e113174db6eaa49f49264243566d6f828d2ea99a7d7190c4357c91d392355338 files/digest-embassy-domsearch-0.1.0 491
 MD5 75d88b819b724e89e9035dbc61609fc4 files/digest-embassy-domsearch-0.1.0-r1 533
 RMD160 c1466bb87582f9e14244e316414855ed23703742 files/digest-embassy-domsearch-0.1.0-r1 533
 SHA256 0a4d385ea97dec7f17c2b2eb2fd2a49628bad04297bad2a48017511f0035c586 files/digest-embassy-domsearch-0.1.0-r1 533
------BEGIN PGP SIGNATURE-----
-Version: GnuPG v1.4.5 (GNU/Linux)
-
-iD8DBQFFS0NlwLwTda5NScMRAqxcAKCa3PHUKojp/+Sg8jrIf7Yfpp41YgCfeSN/
-qddmtb7RGhNzxInQydH7y5c=
-=tq6Y
------END PGP SIGNATURE-----
diff --git a/sci-biology/embassy-domsearch/embassy-domsearch-0.1.0.ebuild b/sci-biology/embassy-domsearch/embassy-domsearch-0.1.0.ebuild
deleted file mode 100644
index c6e2ee8b6f3b..000000000000
--- a/sci-biology/embassy-domsearch/embassy-domsearch-0.1.0.ebuild
+++ /dev/null
@@ -1,15 +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/embassy-domsearch/embassy-domsearch-0.1.0.ebuild,v 1.6 2006/11/03 07:22:22 grobian Exp $
-
-EBOV="3.0.0"
-
-inherit embassy
-
-DESCRIPTION="Protein domain search add-on package for EMBOSS"
-SRC_URI="ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/EMBOSS-${EBOV}.tar.gz
-	ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/${EF}.tar.gz"
-
-RESTRICT="mirror"
-
-KEYWORDS="ppc x86"
diff --git a/sci-biology/embassy-domsearch/files/digest-embassy-domsearch-0.1.0 b/sci-biology/embassy-domsearch/files/digest-embassy-domsearch-0.1.0
deleted file mode 100644
index cec5a4d4073e..000000000000
--- a/sci-biology/embassy-domsearch/files/digest-embassy-domsearch-0.1.0
+++ /dev/null
@@ -1,6 +0,0 @@
-MD5 c62f9b69a9ed9580d4489a8de9ea4863 DOMSEARCH-0.1.0.tar.gz 352793
-RMD160 b69d7d6cc0482ce9d32ec41837c646bada6872d2 DOMSEARCH-0.1.0.tar.gz 352793
-SHA256 f4933b62e19ee6b23a78b70c3cf2d5a9a18eff1d7532f92e2d33b1d683877916 DOMSEARCH-0.1.0.tar.gz 352793
-MD5 fa72feded9ab9272e3e731c09f545dcc EMBOSS-3.0.0.tar.gz 16257908
-RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 EMBOSS-3.0.0.tar.gz 16257908
-SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea EMBOSS-3.0.0.tar.gz 16257908
diff --git a/sci-biology/embassy-emnu/Manifest b/sci-biology/embassy-emnu/Manifest
index 8d0984f95869..b67fa81b0318 100644
--- a/sci-biology/embassy-emnu/Manifest
+++ b/sci-biology/embassy-emnu/Manifest
@@ -1,36 +1,17 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
-
-DIST EMBOSS-3.0.0.tar.gz 16257908 RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 SHA1 5ed529c3a8066e95fe4044d324991a876d906cca SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea
 DIST EMBOSS-4.0.0.tar.gz 17651607 RMD160 5b29ac2946a1315928581bf0e40a0f6b5023c599 SHA1 784c729f2d2e746339a90048277c9e4f052e036a SHA256 bbfd127adc064a5211542f3b5400cbb13c7f74d9171fd16b8531cee9fd11b231
-DIST EMNU-1.05.tar.gz 348924 RMD160 ee5c6b20c44f49dcfcc9a15f87abc22b0269c8e9 SHA1 deb3da24c3090385d2e3cc3e48eac69fe2de0ad9 SHA256 d7261d615d6547a9824d3d9e3f82ff756c0db5786e8356bc54cc5fa0c516b26f
 DIST embassy-4.0.0-emnu-1.05.tar.gz 377734 RMD160 7c82e48085b711e27d026476f73524f9afac3275 SHA1 f1f361e4049a22c9e15f472bf080af330fa12eb1 SHA256 f826eb3e8a782ba00f5e565015468fd2032d43ac9800fe31634f4ec107a7bd01
-EBUILD embassy-emnu-1.05-r2.ebuild 603 RMD160 636f60f8afe1dd539189a0f2e40ab1954cd7474b SHA1 48cb8dd76b5d49753eeea266282e64df69069429 SHA256 bf60ad1f8920f9cd5877340b28df333ebb47b02ba2a9eb39fac20b26e858120c
-MD5 9c20dbe2e0ae1a2ebc0afe01f817ea62 embassy-emnu-1.05-r2.ebuild 603
-RMD160 636f60f8afe1dd539189a0f2e40ab1954cd7474b embassy-emnu-1.05-r2.ebuild 603
-SHA256 bf60ad1f8920f9cd5877340b28df333ebb47b02ba2a9eb39fac20b26e858120c embassy-emnu-1.05-r2.ebuild 603
 EBUILD embassy-emnu-1.05-r3.ebuild 569 RMD160 13dec87c3e247f51879d069adf9959c61ec91f2c SHA1 2783edf4b5192efeb9097936a69a34a27943b8af SHA256 5ea33908eb090be42fa56ec1b482ae8e4cf561fb13c636a94d3dc1b41694fe05
 MD5 07b7e70984f000f94f4a97d9a9eef7f0 embassy-emnu-1.05-r3.ebuild 569
 RMD160 13dec87c3e247f51879d069adf9959c61ec91f2c embassy-emnu-1.05-r3.ebuild 569
 SHA256 5ea33908eb090be42fa56ec1b482ae8e4cf561fb13c636a94d3dc1b41694fe05 embassy-emnu-1.05-r3.ebuild 569
-MISC ChangeLog 3069 RMD160 8a67366019b140ffb58e5143b18aeee3b0320e48 SHA1 d3fb6b79f2b1d19b8f240a3f666ef729cadd3f02 SHA256 9301e3f71d49fc90cbb2d088b7d966ec14ba64400786374dcbf213fc6fcc48e2
-MD5 c6057cd5b46b8196e265433406e8e3b8 ChangeLog 3069
-RMD160 8a67366019b140ffb58e5143b18aeee3b0320e48 ChangeLog 3069
-SHA256 9301e3f71d49fc90cbb2d088b7d966ec14ba64400786374dcbf213fc6fcc48e2 ChangeLog 3069
+MISC ChangeLog 3180 RMD160 f2eb0d6c061da96d83bdeb0170ddedc5af2b66fb SHA1 5ca6822eed77b233d1eef6fadb0d0e46e472d201 SHA256 f54c71d74c2cc0e3724e6f35a6712f445a716b5c1929ec2a009f2a5c898ac94d
+MD5 7d50834b94565c2bbf33e4000ac05efc ChangeLog 3180
+RMD160 f2eb0d6c061da96d83bdeb0170ddedc5af2b66fb ChangeLog 3180
+SHA256 f54c71d74c2cc0e3724e6f35a6712f445a716b5c1929ec2a009f2a5c898ac94d ChangeLog 3180
 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 7c0493217fe5a3287b39279882af9ffa files/digest-embassy-emnu-1.05-r2 473
-RMD160 b6eacee4dad1cb61861e9275c3ec54092e00c32f files/digest-embassy-emnu-1.05-r2 473
-SHA256 73edc7e25305f6a134378f386d28eaa1ff0fabaf3b09fb957a35cbdf6c59ccf4 files/digest-embassy-emnu-1.05-r2 473
 MD5 18357091c97bcd9643e341a032072a23 files/digest-embassy-emnu-1.05-r3 515
 RMD160 96657fb675975bf5b3ed1ff193b9132a8e79fd16 files/digest-embassy-emnu-1.05-r3 515
 SHA256 30702bcb43c0d005090a6925d3147136263dcb82a65e4c6da52e3f1de2c97c4f files/digest-embassy-emnu-1.05-r3 515
------BEGIN PGP SIGNATURE-----
-Version: GnuPG v1.4.5 (GNU/Linux)
-
-iD8DBQFFSz/vwLwTda5NScMRAhTKAJoDXZvk5FOKHO8Thd6U/piPkSnsugCghp2l
-w6sM+J1PBNzGkgvnOefyGMk=
-=vrdP
------END PGP SIGNATURE-----
diff --git a/sci-biology/embassy-emnu/embassy-emnu-1.05-r2.ebuild b/sci-biology/embassy-emnu/embassy-emnu-1.05-r2.ebuild
deleted file mode 100644
index 0a0038893dcc..000000000000
--- a/sci-biology/embassy-emnu/embassy-emnu-1.05-r2.ebuild
+++ /dev/null
@@ -1,21 +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/embassy-emnu/embassy-emnu-1.05-r2.ebuild,v 1.8 2006/11/03 07:23:31 grobian Exp $
-
-EBOV="3.0.0"
-
-inherit embassy
-
-DESCRIPTION="EMBOSS Menu is Not UNIX - Simple menu of EMBOSS applications"
-SRC_URI="ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/EMBOSS-${EBOV}.tar.gz
-	ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/${EF}.tar.gz"
-
-RESTRICT="mirror"
-
-KEYWORDS="ppc x86"
-
-RDEPEND="sys-libs/ncurses
-	${RDEPEND}"
-
-DEPEND="sys-libs/ncurses
-	${DEPEND}"
diff --git a/sci-biology/embassy-emnu/files/digest-embassy-emnu-1.05-r2 b/sci-biology/embassy-emnu/files/digest-embassy-emnu-1.05-r2
deleted file mode 100644
index 1bfb6624511b..000000000000
--- a/sci-biology/embassy-emnu/files/digest-embassy-emnu-1.05-r2
+++ /dev/null
@@ -1,6 +0,0 @@
-MD5 fa72feded9ab9272e3e731c09f545dcc EMBOSS-3.0.0.tar.gz 16257908
-RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 EMBOSS-3.0.0.tar.gz 16257908
-SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea EMBOSS-3.0.0.tar.gz 16257908
-MD5 b3a7fc11e46f7166ddeec11f2fe03d9b EMNU-1.05.tar.gz 348924
-RMD160 ee5c6b20c44f49dcfcc9a15f87abc22b0269c8e9 EMNU-1.05.tar.gz 348924
-SHA256 d7261d615d6547a9824d3d9e3f82ff756c0db5786e8356bc54cc5fa0c516b26f EMNU-1.05.tar.gz 348924
diff --git a/sci-biology/embassy-esim4/Manifest b/sci-biology/embassy-esim4/Manifest
index 8ce56b1ff979..97b14b7c5c52 100644
--- a/sci-biology/embassy-esim4/Manifest
+++ b/sci-biology/embassy-esim4/Manifest
@@ -1,36 +1,17 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
-
-DIST EMBOSS-3.0.0.tar.gz 16257908 RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 SHA1 5ed529c3a8066e95fe4044d324991a876d906cca SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea
 DIST EMBOSS-4.0.0.tar.gz 17651607 RMD160 5b29ac2946a1315928581bf0e40a0f6b5023c599 SHA1 784c729f2d2e746339a90048277c9e4f052e036a SHA256 bbfd127adc064a5211542f3b5400cbb13c7f74d9171fd16b8531cee9fd11b231
-DIST ESIM4-1.0.0.tar.gz 384396 RMD160 d90bb0c894ffc3911219e9c73b12d30b219799c0 SHA1 b573cedfc747363eb8b1706b982aafca0c8b7e2d SHA256 f8241c9e37ccc17dbd29df2d9c90063ba7caf4e64cc5c368b6878c3aa3895620
 DIST embassy-4.0.0-esim4-1.0.0.tar.gz 417724 RMD160 76aaffa27b6a20c5734ec575346f58428974c36e SHA1 6eacc97c88681ad3944fee31af0d78bb21323119 SHA256 94c864bc0c2d12b01987f098470437b0535b4f8d2a7a275d29e4034ee07ebe7e
-EBUILD embassy-esim4-1.0.0-r2.ebuild 537 RMD160 f84a541b1fa1d81295633a5a2a7d7d58df51ec93 SHA1 8ecca7ad4b04232ea07e47997af2b942114f8010 SHA256 6798e7f27b701f4ef0187a5204f66bdcbd1ced6bab92d3eee64cff3ac2de423d
-MD5 4eeefc66d775e606c30998b1fbda6783 embassy-esim4-1.0.0-r2.ebuild 537
-RMD160 f84a541b1fa1d81295633a5a2a7d7d58df51ec93 embassy-esim4-1.0.0-r2.ebuild 537
-SHA256 6798e7f27b701f4ef0187a5204f66bdcbd1ced6bab92d3eee64cff3ac2de423d embassy-esim4-1.0.0-r2.ebuild 537
 EBUILD embassy-esim4-1.0.0-r3.ebuild 503 RMD160 ee5e892f20f88d96c62f05ad51b70b0f08c70f79 SHA1 9866d3dddff2bbffa72bb8c0bfc9c4e5dad6ab66 SHA256 bb329148c943522a216dc26323ca11c3b83dcb0d4b2adf4099608d2ee9eb0960
 MD5 d8809bf32b4684c58ac69e6e40e1a19a embassy-esim4-1.0.0-r3.ebuild 503
 RMD160 ee5e892f20f88d96c62f05ad51b70b0f08c70f79 embassy-esim4-1.0.0-r3.ebuild 503
 SHA256 bb329148c943522a216dc26323ca11c3b83dcb0d4b2adf4099608d2ee9eb0960 embassy-esim4-1.0.0-r3.ebuild 503
-MISC ChangeLog 2974 RMD160 baf30864a09cab6751c067aa8679668e0c78a744 SHA1 ac0cfa14b2f3b1519dcf9ac33408d1bb0795aae6 SHA256 8615159ae2852f323ca5df46635c7a3ba00441c2bed74e6a77b60c791eb15819
-MD5 e3d9c12d35cb858a05ce397fccf6bbe7 ChangeLog 2974
-RMD160 baf30864a09cab6751c067aa8679668e0c78a744 ChangeLog 2974
-SHA256 8615159ae2852f323ca5df46635c7a3ba00441c2bed74e6a77b60c791eb15819 ChangeLog 2974
+MISC ChangeLog 3087 RMD160 0496bc3d69449a084ac2218324b41d92705b4ed4 SHA1 c95935875fe1f96ff866623f240ed949e175c074 SHA256 53d7a0f06ccf70e2c18799e84cc0587174153c4d4c6a931149c8504bb15fcd19
+MD5 895a73f26f015b123e882cc550591a69 ChangeLog 3087
+RMD160 0496bc3d69449a084ac2218324b41d92705b4ed4 ChangeLog 3087
+SHA256 53d7a0f06ccf70e2c18799e84cc0587174153c4d4c6a931149c8504bb15fcd19 ChangeLog 3087
 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 2c87cd7c0296f226a7516dc47e65846e files/digest-embassy-esim4-1.0.0-r2 479
-RMD160 a1c342b6fd55765a2deff8891b625c4e62c1c1f8 files/digest-embassy-esim4-1.0.0-r2 479
-SHA256 afc98cb4a161f549ac4bec78ee693961c940dcd02edd4ec234533ac08bf0a2bc files/digest-embassy-esim4-1.0.0-r2 479
 MD5 3bb009156cb634a0497a2070cf820484 files/digest-embassy-esim4-1.0.0-r3 521
 RMD160 038cc50fdc97a4ace5a0bd30b6341a305defa01e files/digest-embassy-esim4-1.0.0-r3 521
 SHA256 fcc3e49ac89fb24810064bb2151fc51f5992450808d8b5534b49eef33fedd3f8 files/digest-embassy-esim4-1.0.0-r3 521
------BEGIN PGP SIGNATURE-----
-Version: GnuPG v1.4.5 (GNU/Linux)
-
-iD8DBQFFS0BDwLwTda5NScMRArnsAKCRhOhVzNSmr3ieW4RffrqS6LdhlACgn8LD
-zESjbtGmMpwVght+UcoxvFQ=
-=n6is
------END PGP SIGNATURE-----
diff --git a/sci-biology/embassy-esim4/embassy-esim4-1.0.0-r2.ebuild b/sci-biology/embassy-esim4/embassy-esim4-1.0.0-r2.ebuild
deleted file mode 100644
index 69c61f0ecb67..000000000000
--- a/sci-biology/embassy-esim4/embassy-esim4-1.0.0-r2.ebuild
+++ /dev/null
@@ -1,15 +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/embassy-esim4/embassy-esim4-1.0.0-r2.ebuild,v 1.7 2006/11/02 22:24:56 grobian Exp $
-
-EBOV="3.0.0"
-
-inherit embassy
-
-DESCRIPTION="EMBOSS integrated version of sim4 - Alignment of cDNA and genomic DNA"
-SRC_URI="ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/EMBOSS-${EBOV}.tar.gz
-	ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/${EF}.tar.gz"
-
-RESTRICT="mirror"
-
-KEYWORDS="ppc x86"
diff --git a/sci-biology/embassy-esim4/files/digest-embassy-esim4-1.0.0-r2 b/sci-biology/embassy-esim4/files/digest-embassy-esim4-1.0.0-r2
deleted file mode 100644
index a2437cd96218..000000000000
--- a/sci-biology/embassy-esim4/files/digest-embassy-esim4-1.0.0-r2
+++ /dev/null
@@ -1,6 +0,0 @@
-MD5 fa72feded9ab9272e3e731c09f545dcc EMBOSS-3.0.0.tar.gz 16257908
-RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 EMBOSS-3.0.0.tar.gz 16257908
-SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea EMBOSS-3.0.0.tar.gz 16257908
-MD5 835393b3246eb4543a694362c6f335ff ESIM4-1.0.0.tar.gz 384396
-RMD160 d90bb0c894ffc3911219e9c73b12d30b219799c0 ESIM4-1.0.0.tar.gz 384396
-SHA256 f8241c9e37ccc17dbd29df2d9c90063ba7caf4e64cc5c368b6878c3aa3895620 ESIM4-1.0.0.tar.gz 384396
diff --git a/sci-biology/embassy-hmmer/Manifest b/sci-biology/embassy-hmmer/Manifest
index edcd02ce5bcb..72169b2e8c48 100644
--- a/sci-biology/embassy-hmmer/Manifest
+++ b/sci-biology/embassy-hmmer/Manifest
@@ -1,36 +1,17 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
-
-DIST EMBOSS-3.0.0.tar.gz 16257908 RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 SHA1 5ed529c3a8066e95fe4044d324991a876d906cca SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea
 DIST EMBOSS-4.0.0.tar.gz 17651607 RMD160 5b29ac2946a1315928581bf0e40a0f6b5023c599 SHA1 784c729f2d2e746339a90048277c9e4f052e036a SHA256 bbfd127adc064a5211542f3b5400cbb13c7f74d9171fd16b8531cee9fd11b231
-DIST HMMER-2.1.1.tar.gz 561289 RMD160 99e5e3a207784e6585d9cb87a6ab8c1b938a702f SHA1 deb67c8f4aeec1587d5baf9e6d7084751f553c6e SHA256 78647dfb7841e8b52b4c3de34400c68d17a877b698956ac9a5ee5e030569cca6
 DIST embassy-4.0.0-hmmer-2.3.2.tar.gz 546870 RMD160 2bde7ce9240fdeb1c1f14440f56db02266ac52c1 SHA1 0ec3aa902129bf5d028dc4806e030240db6de2a0 SHA256 87c2ac5ae9d62bbf5e60c7b61f777ac0790b74a1ac825ac7960d29b11ae5f7c7
-EBUILD embassy-hmmer-2.1.1-r2.ebuild 641 RMD160 0577e2685dcd24e8cb751c611dd256140d1bde3c SHA1 40adfd598e7b9e33bac062ee1e86064f06a2cb76 SHA256 40de013803c46c1be809364857dc206fa9c4838dd1e32c30c2055cea2abe07bd
-MD5 d8603ca1622fa9d84a9631d3cec125f3 embassy-hmmer-2.1.1-r2.ebuild 641
-RMD160 0577e2685dcd24e8cb751c611dd256140d1bde3c embassy-hmmer-2.1.1-r2.ebuild 641
-SHA256 40de013803c46c1be809364857dc206fa9c4838dd1e32c30c2055cea2abe07bd embassy-hmmer-2.1.1-r2.ebuild 641
 EBUILD embassy-hmmer-2.3.2.ebuild 604 RMD160 86bbe34ae21bc9b8595a9b79bd35da43a6e11c57 SHA1 150b7e83dba56261bf19220b69f5b6b7b093b71b SHA256 4ca9ba580b7b342e46f28d1ffb4cd632c54283bb2287b46f5006b9038833a6a2
 MD5 986ea76ab596c8a2b14ede0b9b73a47a embassy-hmmer-2.3.2.ebuild 604
 RMD160 86bbe34ae21bc9b8595a9b79bd35da43a6e11c57 embassy-hmmer-2.3.2.ebuild 604
 SHA256 4ca9ba580b7b342e46f28d1ffb4cd632c54283bb2287b46f5006b9038833a6a2 embassy-hmmer-2.3.2.ebuild 604
-MISC ChangeLog 3096 RMD160 f3367f411309310c2feb4c32a6c5e95f234fa744 SHA1 8154c913fedde7df19a6d04b986af9c129280978 SHA256 841108474cf688c1c04d667ef1ca8aef752947453da960659f3685f24ecf5602
-MD5 0bc02c66f8e827f8d408a47bc7aea27e ChangeLog 3096
-RMD160 f3367f411309310c2feb4c32a6c5e95f234fa744 ChangeLog 3096
-SHA256 841108474cf688c1c04d667ef1ca8aef752947453da960659f3685f24ecf5602 ChangeLog 3096
+MISC ChangeLog 3209 RMD160 6132c8cdd1a8719906f89a121f07d5be47f28e8d SHA1 16e2bd64645087307d70d498aa1f8f6b534f96a4 SHA256 fc347b1e9799d7c2a489e4bb4682467146ff9305750f8ea8833ac8145c4868b2
+MD5 58a4006bac294f932d4ed62ab6d31786 ChangeLog 3209
+RMD160 6132c8cdd1a8719906f89a121f07d5be47f28e8d ChangeLog 3209
+SHA256 fc347b1e9799d7c2a489e4bb4682467146ff9305750f8ea8833ac8145c4868b2 ChangeLog 3209
 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 f903990a8be48705a9b8bcd59947b58d files/digest-embassy-hmmer-2.1.1-r2 479
-RMD160 02cb980fd7365a087ac0fb2c66e4acea950ce3bf files/digest-embassy-hmmer-2.1.1-r2 479
-SHA256 19346d798d278150d68bd34783e90c218e89a91fab83ea80b136b334e272fbce files/digest-embassy-hmmer-2.1.1-r2 479
 MD5 40977961efafcca7738c76f763135539 files/digest-embassy-hmmer-2.3.2 521
 RMD160 c2cbfa68d69f4481b22099c9b4ae3242b5a3a7e9 files/digest-embassy-hmmer-2.3.2 521
 SHA256 2676f217bb2afc1118f9068c0317d5e48ce4c7319a263660806a7fb1d5a40531 files/digest-embassy-hmmer-2.3.2 521
------BEGIN PGP SIGNATURE-----
-Version: GnuPG v1.4.5 (GNU/Linux)
-
-iD8DBQFFS0CbwLwTda5NScMRAoDgAJ41TwY1ouSDEN4T7EzzIuBSWP+mLgCfclVD
-gslhWIhXpis/Ak11J/z3uOE=
-=H5+Y
------END PGP SIGNATURE-----
diff --git a/sci-biology/embassy-hmmer/embassy-hmmer-2.1.1-r2.ebuild b/sci-biology/embassy-hmmer/embassy-hmmer-2.1.1-r2.ebuild
deleted file mode 100644
index 18310c257d25..000000000000
--- a/sci-biology/embassy-hmmer/embassy-hmmer-2.1.1-r2.ebuild
+++ /dev/null
@@ -1,21 +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/embassy-hmmer/embassy-hmmer-2.1.1-r2.ebuild,v 1.7 2006/11/02 22:26:31 grobian Exp $
-
-EBOV="3.0.0"
-
-inherit embassy
-
-DESCRIPTION="EMBOSS integrated version of HMMER - Biological sequence analysis with profile HMMs"
-SRC_URI="ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/EMBOSS-${EBOV}.tar.gz
-	ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/${EF}.tar.gz"
-
-RESTRICT="mirror"
-
-KEYWORDS="ppc x86"
-
-src_install() {
-	embassy_src_install
-	insinto /usr/include/emboss/hmmer
-	doins src/*.h
-}
diff --git a/sci-biology/embassy-hmmer/files/digest-embassy-hmmer-2.1.1-r2 b/sci-biology/embassy-hmmer/files/digest-embassy-hmmer-2.1.1-r2
deleted file mode 100644
index 55554b14b899..000000000000
--- a/sci-biology/embassy-hmmer/files/digest-embassy-hmmer-2.1.1-r2
+++ /dev/null
@@ -1,6 +0,0 @@
-MD5 fa72feded9ab9272e3e731c09f545dcc EMBOSS-3.0.0.tar.gz 16257908
-RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 EMBOSS-3.0.0.tar.gz 16257908
-SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea EMBOSS-3.0.0.tar.gz 16257908
-MD5 382594654e45a7e8d5872b4b1016a494 HMMER-2.1.1.tar.gz 561289
-RMD160 99e5e3a207784e6585d9cb87a6ab8c1b938a702f HMMER-2.1.1.tar.gz 561289
-SHA256 78647dfb7841e8b52b4c3de34400c68d17a877b698956ac9a5ee5e030569cca6 HMMER-2.1.1.tar.gz 561289
diff --git a/sci-biology/embassy-mse/Manifest b/sci-biology/embassy-mse/Manifest
index e0ea9f6d49a5..48c3517c5cfe 100644
--- a/sci-biology/embassy-mse/Manifest
+++ b/sci-biology/embassy-mse/Manifest
@@ -1,36 +1,17 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
-
-DIST EMBOSS-3.0.0.tar.gz 16257908 RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 SHA1 5ed529c3a8066e95fe4044d324991a876d906cca SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea
 DIST EMBOSS-4.0.0.tar.gz 17651607 RMD160 5b29ac2946a1315928581bf0e40a0f6b5023c599 SHA1 784c729f2d2e746339a90048277c9e4f052e036a SHA256 bbfd127adc064a5211542f3b5400cbb13c7f74d9171fd16b8531cee9fd11b231
-DIST MSE-1.0.0.tar.gz 415051 RMD160 c15c6341e2897f4a6f683e70375a14d6c9b32fcf SHA1 ef360066a4f925e88aee7fd293200679b2373bc2 SHA256 ddf9092721666d64c56733d9b6d04e749957848cafa8ba4ec6eee083a0ffcab3
 DIST embassy-4.0.0-mse-1.0.0.tar.gz 428940 RMD160 9f4d85aed5b27ecb6e6b5f814c46fe5edfc6c66c SHA1 5d29f4054a2985cd28a01d77c925be7368cdbc02 SHA256 9168315bcfb1a658f298891204b8b31f8faa7986e24eb513283c15cf61f8a01a
-EBUILD embassy-mse-1.0.0-r2.ebuild 616 RMD160 cd496c50e78964dc44c744729ebb9ed0b347b6d3 SHA1 8ba7b769e18b87a4d45164bb64bfe16d3267b6b7 SHA256 7eabb07bd602e154bb266d435256a043eeed8c7de3cd2bb9a46b29897b3aaad9
-MD5 aa948a94749582c7c69b1a129a47909f embassy-mse-1.0.0-r2.ebuild 616
-RMD160 cd496c50e78964dc44c744729ebb9ed0b347b6d3 embassy-mse-1.0.0-r2.ebuild 616
-SHA256 7eabb07bd602e154bb266d435256a043eeed8c7de3cd2bb9a46b29897b3aaad9 embassy-mse-1.0.0-r2.ebuild 616
 EBUILD embassy-mse-1.0.0-r3.ebuild 582 RMD160 c5447ef4d9886fcff90c8a7ba5e9bf7f8f0e8f00 SHA1 2a1edecd376928053658863eeb05cd37fce1a8a1 SHA256 b53ae6dfbf1aef00dfa98174e294e214ffa4b01a4f7c4f0a586429978bde83ca
 MD5 e5350a5bd67bc450ebf8398ae24f3203 embassy-mse-1.0.0-r3.ebuild 582
 RMD160 c5447ef4d9886fcff90c8a7ba5e9bf7f8f0e8f00 embassy-mse-1.0.0-r3.ebuild 582
 SHA256 b53ae6dfbf1aef00dfa98174e294e214ffa4b01a4f7c4f0a586429978bde83ca embassy-mse-1.0.0-r3.ebuild 582
-MISC ChangeLog 3113 RMD160 aa1f96c2bd8643912636d72d1ff6fe8451cef2e7 SHA1 32c11c3389d5a19930fda8844c8390877aa5b35e SHA256 737c9d94b3bce45fa362d2717d8149cc30e293afd4dbafcbb93c67df738c1bc1
-MD5 a9c86555df9d3372da03a18a85a5dcbf ChangeLog 3113
-RMD160 aa1f96c2bd8643912636d72d1ff6fe8451cef2e7 ChangeLog 3113
-SHA256 737c9d94b3bce45fa362d2717d8149cc30e293afd4dbafcbb93c67df738c1bc1 ChangeLog 3113
+MISC ChangeLog 3224 RMD160 f308d6d5a49d7f4e5178d2969656a2a40f29e42b SHA1 ad12c12aaf2b4e6bfdeb885b1626fbe980a81d57 SHA256 6b38db997561603f3d0e854709ecbf716e0922202d94adb2584dcd5fe7acfc85
+MD5 afdbae22f7376af0608bd60e40e43cf5 ChangeLog 3224
+RMD160 f308d6d5a49d7f4e5178d2969656a2a40f29e42b ChangeLog 3224
+SHA256 6b38db997561603f3d0e854709ecbf716e0922202d94adb2584dcd5fe7acfc85 ChangeLog 3224
 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 75b792bdd6d84385bf4866ca66ecbe8c files/digest-embassy-mse-1.0.0-r2 473
-RMD160 e55b79af9b08390fae59923378f6f70f4a853084 files/digest-embassy-mse-1.0.0-r2 473
-SHA256 d95887ac82261b5edf7001cc131e9aee750d76895d6b480a760022ab0cf40f37 files/digest-embassy-mse-1.0.0-r2 473
 MD5 333db965293960a1c09d13301dc60ccf files/digest-embassy-mse-1.0.0-r3 515
 RMD160 c6eeff0d6c1f940bfe8f8e78c5b00b29258fa7e6 files/digest-embassy-mse-1.0.0-r3 515
 SHA256 98127a6911bddf00ab10f36de745606179061592e7e90cbb4a19f1bb41e1f386 files/digest-embassy-mse-1.0.0-r3 515
------BEGIN PGP SIGNATURE-----
-Version: GnuPG v1.4.5 (GNU/Linux)
-
-iD8DBQFFS0FPwLwTda5NScMRAmGpAJ4yGJsNM43WF7pfeLzFXwPsaJ/DAgCfaAG4
-3kw89K+ajrtQCNqH3WdnAns=
-=WK5k
------END PGP SIGNATURE-----
diff --git a/sci-biology/embassy-mse/embassy-mse-1.0.0-r2.ebuild b/sci-biology/embassy-mse/embassy-mse-1.0.0-r2.ebuild
deleted file mode 100644
index 1b27c13bf53f..000000000000
--- a/sci-biology/embassy-mse/embassy-mse-1.0.0-r2.ebuild
+++ /dev/null
@@ -1,21 +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/embassy-mse/embassy-mse-1.0.0-r2.ebuild,v 1.6 2006/11/02 22:29:51 grobian Exp $
-
-EBOV="3.0.0"
-
-inherit embassy
-
-DESCRIPTION="EMBOSS integrated version of MSE - Multiple Sequence Screen Editor"
-SRC_URI="ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/EMBOSS-${EBOV}.tar.gz
-	ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/${EF}.tar.gz"
-
-KEYWORDS="ppc x86"
-
-RESTRICT="mirror"
-
-src_install() {
-	embassy_src_install
-	insinto /usr/include/emboss/mse
-	doins h/*.h
-}
diff --git a/sci-biology/embassy-mse/files/digest-embassy-mse-1.0.0-r2 b/sci-biology/embassy-mse/files/digest-embassy-mse-1.0.0-r2
deleted file mode 100644
index 6d7c76b963b4..000000000000
--- a/sci-biology/embassy-mse/files/digest-embassy-mse-1.0.0-r2
+++ /dev/null
@@ -1,6 +0,0 @@
-MD5 fa72feded9ab9272e3e731c09f545dcc EMBOSS-3.0.0.tar.gz 16257908
-RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 EMBOSS-3.0.0.tar.gz 16257908
-SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea EMBOSS-3.0.0.tar.gz 16257908
-MD5 3b9810e870937ec32220b5c9fe7a83cd MSE-1.0.0.tar.gz 415051
-RMD160 c15c6341e2897f4a6f683e70375a14d6c9b32fcf MSE-1.0.0.tar.gz 415051
-SHA256 ddf9092721666d64c56733d9b6d04e749957848cafa8ba4ec6eee083a0ffcab3 MSE-1.0.0.tar.gz 415051
diff --git a/sci-biology/embassy-signature/Manifest b/sci-biology/embassy-signature/Manifest
index 7ff667d0353c..4101083c7126 100644
--- a/sci-biology/embassy-signature/Manifest
+++ b/sci-biology/embassy-signature/Manifest
@@ -1,36 +1,17 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
-
-DIST EMBOSS-3.0.0.tar.gz 16257908 RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 SHA1 5ed529c3a8066e95fe4044d324991a876d906cca SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea
 DIST EMBOSS-4.0.0.tar.gz 17651607 RMD160 5b29ac2946a1315928581bf0e40a0f6b5023c599 SHA1 784c729f2d2e746339a90048277c9e4f052e036a SHA256 bbfd127adc064a5211542f3b5400cbb13c7f74d9171fd16b8531cee9fd11b231
-DIST SIGNATURE-0.1.0.tar.gz 400125 RMD160 eccec0b5d57ee2e2a0a9c37adff04d11a395ddb7 SHA1 7fe823d4a0e4a47cdcc58ea6d607eb425d595f1f SHA256 c6bb252beaccac5256d99301933b15da6ef90af3f20d7f92fed1f78b271785ee
 DIST embassy-4.0.0-signature-0.1.0.tar.gz 549405 RMD160 6b7c345c93554f2a0f94a781b7ed7a660e9bc784 SHA1 f319d9a1589d73f497af967fff74ce3dae80e475 SHA256 f7d05c645a6501ccf1ab59343db2f2ee147d2eb3ab7636ae38e09c59c07989b4
 EBUILD embassy-signature-0.1.0-r1.ebuild 485 RMD160 d7c9c9715cafad6e725d97d4c812877cea344453 SHA1 308f29588342de05202965f3e617603276e62074 SHA256 5e05dfddae09036ba105cb7e434f2474e983ea5c9d49bbf107984075fa98d4d8
 MD5 fe29ef634316ccc7420727c61ab496c8 embassy-signature-0.1.0-r1.ebuild 485
 RMD160 d7c9c9715cafad6e725d97d4c812877cea344453 embassy-signature-0.1.0-r1.ebuild 485
 SHA256 5e05dfddae09036ba105cb7e434f2474e983ea5c9d49bbf107984075fa98d4d8 embassy-signature-0.1.0-r1.ebuild 485
-EBUILD embassy-signature-0.1.0.ebuild 516 RMD160 56e6137de83f0bd695d5c9312df0d1ce85f240c1 SHA1 7403643bea127e6a4bfa569ea9eb15915fd64eab SHA256 ae3f01d4538e8cbe885ed08925b0e708e8e40d1b3e4c39e6dff3324d3bb84502
-MD5 e2defe4d4d8511faa8c7323a5e13d5d4 embassy-signature-0.1.0.ebuild 516
-RMD160 56e6137de83f0bd695d5c9312df0d1ce85f240c1 embassy-signature-0.1.0.ebuild 516
-SHA256 ae3f01d4538e8cbe885ed08925b0e708e8e40d1b3e4c39e6dff3324d3bb84502 embassy-signature-0.1.0.ebuild 516
-MISC ChangeLog 1614 RMD160 2fc78c06f745b59c8a83ccacfa5e6affebe71c41 SHA1 80d5dee38ddaa833c49a9efa14672534d9ee05a2 SHA256 2baeae07e7db2acdce5bf831bdec645ba19cae0c6229f9ada560b664558d7010
-MD5 3c4ff6f31f34a3bdab7ae2d29ef3d6f7 ChangeLog 1614
-RMD160 2fc78c06f745b59c8a83ccacfa5e6affebe71c41 ChangeLog 1614
-SHA256 2baeae07e7db2acdce5bf831bdec645ba19cae0c6229f9ada560b664558d7010 ChangeLog 1614
+MISC ChangeLog 1728 RMD160 fd311622a622d7379270711dd54640488a19f6aa SHA1 00b148c83ce9956fee873e78f4a7b2c77dd74992 SHA256 28c9b06415b2bb42089d253ea523e8bbb6916d61c0a85137b9f0e5ed071a2dea
+MD5 b05efda5220ee16388fd93cbbfe6d417 ChangeLog 1728
+RMD160 fd311622a622d7379270711dd54640488a19f6aa ChangeLog 1728
+SHA256 28c9b06415b2bb42089d253ea523e8bbb6916d61c0a85137b9f0e5ed071a2dea ChangeLog 1728
 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 f662e6d565464a9e194a9904cb93ea29 files/digest-embassy-signature-0.1.0 491
-RMD160 4b39b7968973e05620ef31cecfa8892331a57c33 files/digest-embassy-signature-0.1.0 491
-SHA256 2493f5e7a2f603011b159a753b5ae48108aedd5874b39500a5068b072ff4e57f files/digest-embassy-signature-0.1.0 491
 MD5 4aa3b4a01cf03fd5e47aaa751b49ccaa files/digest-embassy-signature-0.1.0-r1 533
 RMD160 1db2ea612949a953da38ce1a34c8991f19d77ab7 files/digest-embassy-signature-0.1.0-r1 533
 SHA256 dd2f5bf3ce922a7af21a8d0fbcd11a978c5c496157d34d7e0e31f958dd7da75a files/digest-embassy-signature-0.1.0-r1 533
------BEGIN PGP SIGNATURE-----
-Version: GnuPG v1.4.5 (GNU/Linux)
-
-iD8DBQFFS0ISwLwTda5NScMRAtslAJ9HLV5mfewSHzeFEeutzvDA5cTnDwCfWwEC
-H2e6q6A89HFlfIqxbtN8ZHg=
-=fVEE
------END PGP SIGNATURE-----
diff --git a/sci-biology/embassy-signature/embassy-signature-0.1.0.ebuild b/sci-biology/embassy-signature/embassy-signature-0.1.0.ebuild
deleted file mode 100644
index 14435545df82..000000000000
--- a/sci-biology/embassy-signature/embassy-signature-0.1.0.ebuild
+++ /dev/null
@@ -1,15 +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/embassy-signature/embassy-signature-0.1.0.ebuild,v 1.6 2006/11/02 22:32:33 grobian Exp $
-
-EBOV="3.0.0"
-
-inherit embassy
-
-DESCRIPTION="Protein signature add-on package for EMBOSS"
-SRC_URI="ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/EMBOSS-${EBOV}.tar.gz
-	ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/${EF}.tar.gz"
-
-RESTRICT="mirror"
-
-KEYWORDS="ppc x86"
diff --git a/sci-biology/embassy-signature/files/digest-embassy-signature-0.1.0 b/sci-biology/embassy-signature/files/digest-embassy-signature-0.1.0
deleted file mode 100644
index 03ee605345fd..000000000000
--- a/sci-biology/embassy-signature/files/digest-embassy-signature-0.1.0
+++ /dev/null
@@ -1,6 +0,0 @@
-MD5 fa72feded9ab9272e3e731c09f545dcc EMBOSS-3.0.0.tar.gz 16257908
-RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 EMBOSS-3.0.0.tar.gz 16257908
-SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea EMBOSS-3.0.0.tar.gz 16257908
-MD5 1e30e12048609a468b7b4d4affb177cf SIGNATURE-0.1.0.tar.gz 400125
-RMD160 eccec0b5d57ee2e2a0a9c37adff04d11a395ddb7 SIGNATURE-0.1.0.tar.gz 400125
-SHA256 c6bb252beaccac5256d99301933b15da6ef90af3f20d7f92fed1f78b271785ee SIGNATURE-0.1.0.tar.gz 400125
diff --git a/sci-biology/embassy-structure/Manifest b/sci-biology/embassy-structure/Manifest
index b408526cc1e8..c9ad9324a20f 100644
--- a/sci-biology/embassy-structure/Manifest
+++ b/sci-biology/embassy-structure/Manifest
@@ -1,36 +1,17 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
-
-DIST EMBOSS-3.0.0.tar.gz 16257908 RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 SHA1 5ed529c3a8066e95fe4044d324991a876d906cca SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea
 DIST EMBOSS-4.0.0.tar.gz 17651607 RMD160 5b29ac2946a1315928581bf0e40a0f6b5023c599 SHA1 784c729f2d2e746339a90048277c9e4f052e036a SHA256 bbfd127adc064a5211542f3b5400cbb13c7f74d9171fd16b8531cee9fd11b231
-DIST STRUCTURE-0.1.0.tar.gz 362563 RMD160 3e7bc43f51031fdbc4484323f74252db48ae8e03 SHA1 39860b02cf1190d292aa12ad2d797ec8f17b1eda SHA256 7142e207987da46cd85c81088ea475abb866da90ff57e4c3ca1c63bd8f209b64
 DIST embassy-4.0.0-structure-0.1.0.tar.gz 514336 RMD160 709e37e26ddb61f2fa9001766a4176baef4f62b6 SHA1 a00549bb3c2b786a23500d8a9b8e743737c586c2 SHA256 54a1352ab3fca5ea8e451c2409bdf2ccd31f2b65e9fff566199542ac1455f858
 EBUILD embassy-structure-0.1.0-r1.ebuild 485 RMD160 60d776ce4f12b3a68a6688a413b1662ee921d210 SHA1 070c6ef5c0496e51351955dd8d998d50f6ae7404 SHA256 26cba5193ea66d4ef6efaafcea37f6614337f29df3efe7b65505e8c0a0cd8c53
 MD5 e105e7b9dd744219b36f5ff1fcb4c40f embassy-structure-0.1.0-r1.ebuild 485
 RMD160 60d776ce4f12b3a68a6688a413b1662ee921d210 embassy-structure-0.1.0-r1.ebuild 485
 SHA256 26cba5193ea66d4ef6efaafcea37f6614337f29df3efe7b65505e8c0a0cd8c53 embassy-structure-0.1.0-r1.ebuild 485
-EBUILD embassy-structure-0.1.0.ebuild 516 RMD160 bc03679c697aed88f739ebfa8a5b491b4c99903d SHA1 0e780f0d7e1fe777e6f68ec146784122d8499e81 SHA256 f87236197ef837b57444015520a53ed0bba89a066a2a119a0b4dbfde74c88c81
-MD5 e1c261d17f7e6bfb7bb129fc07262bf1 embassy-structure-0.1.0.ebuild 516
-RMD160 bc03679c697aed88f739ebfa8a5b491b4c99903d embassy-structure-0.1.0.ebuild 516
-SHA256 f87236197ef837b57444015520a53ed0bba89a066a2a119a0b4dbfde74c88c81 embassy-structure-0.1.0.ebuild 516
-MISC ChangeLog 1614 RMD160 bbcc37f17cae4a0d3c8fcc09b68010989c0cb183 SHA1 f1769e9457ad5dc0f5c93cb28c19fa74a3d43eb1 SHA256 5eeb9c422eb2b9c22172040d4ea378990f14d8624560274d75fd11a94c675df7
-MD5 5a05e88eaa383edc640b5cd1c81e261d ChangeLog 1614
-RMD160 bbcc37f17cae4a0d3c8fcc09b68010989c0cb183 ChangeLog 1614
-SHA256 5eeb9c422eb2b9c22172040d4ea378990f14d8624560274d75fd11a94c675df7 ChangeLog 1614
+MISC ChangeLog 1728 RMD160 eda57c070be21119776886fe1abcef2dc2bc27b0 SHA1 f2e0264cb8f5e0a9e0471d3b5647271a115fdb29 SHA256 77c5b0fd71ea03342cffa0a077a0ac24156fecde22657d81f9b7dd301e95dd5b
+MD5 2fe73cd17867ece8549445bffc5f2668 ChangeLog 1728
+RMD160 eda57c070be21119776886fe1abcef2dc2bc27b0 ChangeLog 1728
+SHA256 77c5b0fd71ea03342cffa0a077a0ac24156fecde22657d81f9b7dd301e95dd5b ChangeLog 1728
 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 c54d058d653cac75fb082f3b583375e6 files/digest-embassy-structure-0.1.0 491
-RMD160 6effb37a7007a206e9bbc3ec664b1e87f9bff29d files/digest-embassy-structure-0.1.0 491
-SHA256 9973a91b1200f86b1db400a8585841de416636c17e1d67283516dbeeac8217f7 files/digest-embassy-structure-0.1.0 491
 MD5 2f1ceb6a8bd731aabc4a573dc9ac5639 files/digest-embassy-structure-0.1.0-r1 533
 RMD160 5e65ccd4f675fec16d4f9eee1c9973db968d8660 files/digest-embassy-structure-0.1.0-r1 533
 SHA256 a8a08bb25811a93e7def697ebd1bc878fc9ad167d4051ba2c365aacf85695ed3 files/digest-embassy-structure-0.1.0-r1 533
------BEGIN PGP SIGNATURE-----
-Version: GnuPG v1.4.5 (GNU/Linux)
-
-iD8DBQFFS0JpwLwTda5NScMRAsumAJsFZap+Gk46ZL74juLq4fgbig2C8QCgqpR9
-xzDfVZt3KQVYr4HRm3nLFMM=
-=1sjs
------END PGP SIGNATURE-----
diff --git a/sci-biology/embassy-structure/embassy-structure-0.1.0.ebuild b/sci-biology/embassy-structure/embassy-structure-0.1.0.ebuild
deleted file mode 100644
index 19d4340b096b..000000000000
--- a/sci-biology/embassy-structure/embassy-structure-0.1.0.ebuild
+++ /dev/null
@@ -1,15 +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/embassy-structure/embassy-structure-0.1.0.ebuild,v 1.6 2006/11/02 22:33:43 grobian Exp $
-
-EBOV="3.0.0"
-
-inherit embassy
-
-DESCRIPTION="Protein structure add-on package for EMBOSS"
-SRC_URI="ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/EMBOSS-${EBOV}.tar.gz
-	ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/${EF}.tar.gz"
-
-RESTRICT="mirror"
-
-KEYWORDS="ppc x86"
diff --git a/sci-biology/embassy-structure/files/digest-embassy-structure-0.1.0 b/sci-biology/embassy-structure/files/digest-embassy-structure-0.1.0
deleted file mode 100644
index df0130cad511..000000000000
--- a/sci-biology/embassy-structure/files/digest-embassy-structure-0.1.0
+++ /dev/null
@@ -1,6 +0,0 @@
-MD5 fa72feded9ab9272e3e731c09f545dcc EMBOSS-3.0.0.tar.gz 16257908
-RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 EMBOSS-3.0.0.tar.gz 16257908
-SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea EMBOSS-3.0.0.tar.gz 16257908
-MD5 6efc35eb2855738252e0537198f5225d STRUCTURE-0.1.0.tar.gz 362563
-RMD160 3e7bc43f51031fdbc4484323f74252db48ae8e03 STRUCTURE-0.1.0.tar.gz 362563
-SHA256 7142e207987da46cd85c81088ea475abb866da90ff57e4c3ca1c63bd8f209b64 STRUCTURE-0.1.0.tar.gz 362563
diff --git a/sci-biology/embassy-topo/Manifest b/sci-biology/embassy-topo/Manifest
index d458a81ba998..c0cfe82c54e1 100644
--- a/sci-biology/embassy-topo/Manifest
+++ b/sci-biology/embassy-topo/Manifest
@@ -1,36 +1,17 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
-
-DIST EMBOSS-3.0.0.tar.gz 16257908 RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 SHA1 5ed529c3a8066e95fe4044d324991a876d906cca SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea
 DIST EMBOSS-4.0.0.tar.gz 17651607 RMD160 5b29ac2946a1315928581bf0e40a0f6b5023c599 SHA1 784c729f2d2e746339a90048277c9e4f052e036a SHA256 bbfd127adc064a5211542f3b5400cbb13c7f74d9171fd16b8531cee9fd11b231
-DIST TOPO-1.0.0.tar.gz 351796 RMD160 a35d9b3921dd03ba51115eab3a5835fdf7f39fa1 SHA1 a29139605044328cec80bbcc9ceecfb5d8ed68d9 SHA256 ff10378b4ecad69ddb374cd47a7d3c7fa5975d6695057f05ea264940258ebaa3
 DIST embassy-4.0.0-topo-1.0.0.tar.gz 367882 RMD160 0cefa2eabf3bebedd97b747909036feb98f17ce9 SHA1 c4f8c12ad1b3264b880aaa180ad8453d21dbc519 SHA256 bd1e6833f00ff6d09b5841824d7372f1ecd8a6175c5c76bd65ee727d0a7c4523
-EBUILD embassy-topo-1.0.0-r2.ebuild 531 RMD160 8141abb522195d6dcc3001edf1243aaf7e8aa77d SHA1 f24c4dc401c7ad84f64e4475443d9bd0d078dd8e SHA256 02a1f9dfb5e013a908e9ff486f3d174acbc8e6ac0a4b6229a34aae351bd77d37
-MD5 7db2bb9c8b30727c085a76cd6ade6a77 embassy-topo-1.0.0-r2.ebuild 531
-RMD160 8141abb522195d6dcc3001edf1243aaf7e8aa77d embassy-topo-1.0.0-r2.ebuild 531
-SHA256 02a1f9dfb5e013a908e9ff486f3d174acbc8e6ac0a4b6229a34aae351bd77d37 embassy-topo-1.0.0-r2.ebuild 531
 EBUILD embassy-topo-1.0.0-r3.ebuild 497 RMD160 56f558b03aa67cdc0a129107a35622291d806b2d SHA1 bd0655e6134b3ddc752a74a5f46d84dfaa28cda9 SHA256 0eb64284375f6bb167aa0e3c0646a6b4e17a74b4ee900782f1a53d33054fc2b8
 MD5 fe12968ff05598f2e082a0e3e8a831dd embassy-topo-1.0.0-r3.ebuild 497
 RMD160 56f558b03aa67cdc0a129107a35622291d806b2d embassy-topo-1.0.0-r3.ebuild 497
 SHA256 0eb64284375f6bb167aa0e3c0646a6b4e17a74b4ee900782f1a53d33054fc2b8 embassy-topo-1.0.0-r3.ebuild 497
-MISC ChangeLog 3045 RMD160 3c1a1460ac3b5c5105a6d42f76a02f1f14240beb SHA1 718ff058f4fd6382d79f6941af66ffd93022c233 SHA256 fc39f0d10965ebc54587bd679c1e375bea26b88b9c703c2566eac3021bf03ff7
-MD5 fe583d8b6508f06d161823661e13f776 ChangeLog 3045
-RMD160 3c1a1460ac3b5c5105a6d42f76a02f1f14240beb ChangeLog 3045
-SHA256 fc39f0d10965ebc54587bd679c1e375bea26b88b9c703c2566eac3021bf03ff7 ChangeLog 3045
+MISC ChangeLog 3157 RMD160 c6898e23c9ad9d8b5b8e4bec051fd3d4dc9fd8d2 SHA1 4a09be662d685ac5637a77280226021f9f7a2a53 SHA256 25f5447aa6b8e13f464df93bfd5c7240fac231bbab18e4fc09d892ee1ba3fc5f
+MD5 4239251eff182756c31effefd6415e55 ChangeLog 3157
+RMD160 c6898e23c9ad9d8b5b8e4bec051fd3d4dc9fd8d2 ChangeLog 3157
+SHA256 25f5447aa6b8e13f464df93bfd5c7240fac231bbab18e4fc09d892ee1ba3fc5f ChangeLog 3157
 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 425c8cc39a0913844bf34dc5aba03fef files/digest-embassy-topo-1.0.0-r2 476
-RMD160 1a01bfc71e6221d218572be8f3a02a327ed9078d files/digest-embassy-topo-1.0.0-r2 476
-SHA256 27e3f8fcdc9f4a30df831d7c8d7b4957d9f93fab3c77f64e6a0a5b09c580e507 files/digest-embassy-topo-1.0.0-r2 476
 MD5 925ae2917976f619b25cbfee44c06aa4 files/digest-embassy-topo-1.0.0-r3 518
 RMD160 5e3434ce1f9eae25e11706a084a0bbce24fe9cef files/digest-embassy-topo-1.0.0-r3 518
 SHA256 cf1e9f29d528761de66a370b32acac99cef79918cdf91eb59a12675198136b9c files/digest-embassy-topo-1.0.0-r3 518
------BEGIN PGP SIGNATURE-----
-Version: GnuPG v1.4.5 (GNU/Linux)
-
-iD8DBQFFS0K/wLwTda5NScMRAoBUAKCoOmyzK5lGOuDwhFqTmSEH6EbKuQCfVdfK
-F5Z+1oy1oAJbhSZ4m7QX8Es=
-=j6xw
------END PGP SIGNATURE-----
diff --git a/sci-biology/embassy-topo/embassy-topo-1.0.0-r2.ebuild b/sci-biology/embassy-topo/embassy-topo-1.0.0-r2.ebuild
deleted file mode 100644
index 1141aba5f058..000000000000
--- a/sci-biology/embassy-topo/embassy-topo-1.0.0-r2.ebuild
+++ /dev/null
@@ -1,15 +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/embassy-topo/embassy-topo-1.0.0-r2.ebuild,v 1.6 2006/11/02 22:34:44 grobian Exp $
-
-EBOV="3.0.0"
-
-inherit embassy
-
-DESCRIPTION="EMBOSS integrated version of TOPO - Transmembrane protein display"
-SRC_URI="ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/EMBOSS-${EBOV}.tar.gz
-	ftp://emboss.open-bio.org/pub/EMBOSS/old/${EBOV}/${EF}.tar.gz"
-
-RESTRICT="mirror"
-
-KEYWORDS="ppc x86"
diff --git a/sci-biology/embassy-topo/files/digest-embassy-topo-1.0.0-r2 b/sci-biology/embassy-topo/files/digest-embassy-topo-1.0.0-r2
deleted file mode 100644
index 4c7fbf59bb68..000000000000
--- a/sci-biology/embassy-topo/files/digest-embassy-topo-1.0.0-r2
+++ /dev/null
@@ -1,6 +0,0 @@
-MD5 fa72feded9ab9272e3e731c09f545dcc EMBOSS-3.0.0.tar.gz 16257908
-RMD160 4f8a2b0c05f2d77bec27bd3b1886d253b55b1c40 EMBOSS-3.0.0.tar.gz 16257908
-SHA256 47a51ba7aeb9f6e7f4cd23c28cffad7c6d28432e92f37d6f08121791ef894dea EMBOSS-3.0.0.tar.gz 16257908
-MD5 7b3355570ba36f7daf57dcbc717215ce TOPO-1.0.0.tar.gz 351796
-RMD160 a35d9b3921dd03ba51115eab3a5835fdf7f39fa1 TOPO-1.0.0.tar.gz 351796
-SHA256 ff10378b4ecad69ddb374cd47a7d3c7fa5975d6695057f05ea264940258ebaa3 TOPO-1.0.0.tar.gz 351796