gentoo resync : 17.02.2020

9 files changed, 9 insertions, 9 deletions

diff --git a/sci-biology/Manifest.gz b/sci-biology/Manifest.gz
index f9edb0bfb762..3301012dde8b 100644
--- a/sci-biology/Manifest.gz
+++ b/sci-biology/Manifest.gz
diff --git a/sci-biology/clustalw/Manifest b/sci-biology/clustalw/Manifest
index 720fc8c2aeff..9e48ef945bec 100644
--- a/sci-biology/clustalw/Manifest
+++ b/sci-biology/clustalw/Manifest
@@ -1,6 +1,6 @@
 AUX 1.83-as-needed.patch 388 BLAKE2B 8da98e05dcdc74ee41ff7a3d75b11590507bc769df0adb181f7c2d0a656f80d15b7363723bd760c359efb666cf962f5cf8c055abc1b7181d37203b0bfe659717 SHA512 1f66a0b539f9101a52b4117d0369294f706a048464d1908ae457def27d33ace0e5c5f9ba507f82a1406bb78ff51896ac6bb76cb03dfe8ff6bbb8ed182dc0f5ea
 DIST clustalw-2.1.tar.gz 350761 BLAKE2B 479acb42ec0b0adee8e04e99132a782c947a1261f48e674c6a11e4f38e44e5709d03f0c864f0cd3cf7eb4faf76a36b6121c3e3d3573c86ee3895971df07f1a58 SHA512 659cfe0121015dd2b84578b1a0a7f016fc944de155686b9bdef31122200a21e792203f3a6ab93a31676a50ffb70858b506ceb7ac27d921189a8381dbe0887921
 DIST clustalw1.83.UNIX.tar.gz 166863 BLAKE2B a3b1eabad8bc736cde4655f13fa8544759b7b5c50ea97fd45ee0be45ac6c361db5ced8ad21622ac2530b57c37c77dfd67657afd2c411acbfb7ff2a3ba014637e SHA512 c0cc9ebf4c8869be819065546b499b547990342c87425fae8f921a141704343f2a518ecfc2b8bfd527061902825fc5befcb2cd080c83ba887390e48338c9dc1a
-EBUILD clustalw-1.83-r4.ebuild 825 BLAKE2B bfa35e66766071d699eb339bc6757381f48a4f290aab4917b9e59d52809301d21f7323f66503ed9c53034a443e221ce9c43124bcbf43e72f08b026855462470c SHA512 939bdc76feddcd607c4b44145885bdfe147e57c986c0b8b04466cf58ae76e5f13828725553bc8149befd58e65e463703984a0723f3d3c4b9ff26dd7f8ef255b3
+EBUILD clustalw-1.83-r4.ebuild 822 BLAKE2B a27f08c23c7ab69cdcfaa989205f47c07e46cef709d09a433d7476a7caf468ef13b76614d44d869b5e16209b32a0426487bbe147d71f2e82059e2066dc067f63 SHA512 1d4b9be166c531885a68982fcc1cecdebf60d616920306f7b716bdf0f49c42b540cf5f8398a0fd22f449bff18b2d290cb18291062b3706b1d14ae4de2e7bedc7
 EBUILD clustalw-2.1-r1.ebuild 473 BLAKE2B 76c7432b4cd6d68b5dd51bdc9b4e1629d8e958f432bb9c35738373bc7ea34180e74c9d0ba498d02e5d4db3243ccd711255157490d4b42d84bc7b0b493f526234 SHA512 6cd64a7ffa784daeef1146a695e588a78e74b5b453e3cc1751907fbe09aa394eb9c962e681ecdef9eb2627d5c490a49ff58484c2c77599f169d48482521749e0
 MISC metadata.xml 267 BLAKE2B 7cf386952842945148119de3263231db4d1046d5f54811f7e303ed8ec4d27cbc1960b99c92daf6f32e5b981c2fb9f50ec666be6193865d6e18541b7427a152a9 SHA512 91ab266d9ab24401bc0fec759c5b6cfcf44a3c5669fc31c7301d79770839bb5dfa0e155d949392ef06176b4a0b2c32b91b1b54b0027f972db61f0a5e54644403
diff --git a/sci-biology/clustalw/clustalw-1.83-r4.ebuild b/sci-biology/clustalw/clustalw-1.83-r4.ebuild
index 7f6accd6b4c8..6bccfd828e99 100644
--- a/sci-biology/clustalw/clustalw-1.83-r4.ebuild
+++ b/sci-biology/clustalw/clustalw-1.83-r4.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2020 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=6
diff --git a/sci-biology/poa/Manifest b/sci-biology/poa/Manifest
index 2c6ed6e80a62..c7e6e27a6c45 100644
--- a/sci-biology/poa/Manifest
+++ b/sci-biology/poa/Manifest
@@ -1,4 +1,4 @@
 AUX 2-respect-flags.patch 743 BLAKE2B f4da40ae90b7304520232cc9c2d61a3eecaac6ba1b9b886b29e473b1df8766286e3fd89874e2e836b9ddcd91f4bffe276ad74c1b6d073af3c1ca91e540f96c30 SHA512 496415d501040057155ba2ba261564fc00dc764626c8d41081f5463b0b40f9eae978bb8a81db15cf90f193c4ca9fe8725a2876ed175e15d37a983196b70e192f
 DIST poaV2.tar.gz 62612 BLAKE2B 92f7b2926dd7fc93745411fc04c8dd3380c32e3e87cf89afa81aefe787a1aa0e7a416d08809cce531a21d5118398a9474a751a742ee1fca47e83bd907444e9c0 SHA512 2a54b025f0a74ff4c01828f3e4b9e8e135bffe26d08f651f981bc95a64196173b5d887ef988a25c1f5fbf89333b4771622d5dc93946d66e7ec9abacb6167595c
-EBUILD poa-2-r1.ebuild 929 BLAKE2B fa75054c3c89b6ca46af50d85e0e12d654e19b5fa717c0a8d0720468b41198d3b67a8bb90ade0eac17b8fb3205f71bc2109a8b6a9a585f26a4c3d342af2c05fa SHA512 09fd7b6f965e33cd2c803a520309fbc031da5048e48e9831042c524152001684f2916e7a23ad6baa6f20498611aabe56dfd3d37754ecbac45c1c9e2f37742f22
+EBUILD poa-2-r1.ebuild 945 BLAKE2B 73d50cff0c550fe82490c93ca07db3661a71a0a2d6f67ad2d69fe658f156734aba5702137adae5cf091ff9e1e6f153894259ecfaabed05be92858038c7042668 SHA512 2c76bd5587239e7f260aeb82c362008610904dda01907a224577af9e0ef06cad8012ff21788edc24d7d3ae360867748b5e245fc73b6e1480f890787cea727c66
 MISC metadata.xml 347 BLAKE2B f003b9e0541ffd38d84b2daf8b4df59bfbec1510ae162ac42af1cb1cb110f19297074d61b9b84d71441a0ceba9acbd38123db467e8500c482165fcd6c7e7b90b SHA512 8610e747bbc86428757f77ed688520cdd9efeabc08e08f99ce74d98e7763f3f8cb7648b1eea01bc4db79ae16a650cb119b82022d1ac41e8fcbd6a6b40385e580
diff --git a/sci-biology/poa/poa-2-r1.ebuild b/sci-biology/poa/poa-2-r1.ebuild
index efee14d1dfd6..fc472ce96007 100644
--- a/sci-biology/poa/poa-2-r1.ebuild
+++ b/sci-biology/poa/poa-2-r1.ebuild
@@ -1,9 +1,9 @@
-# Copyright 1999-2019 Gentoo Authors
+# Copyright 1999-2020 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=5
 
-inherit eutils
+inherit eutils toolchain-funcs
 
 MY_P="${PN}V${PV}"
 
diff --git a/sci-biology/pysam/Manifest b/sci-biology/pysam/Manifest
index a6062676eabc..7f96ff719811 100644
--- a/sci-biology/pysam/Manifest
+++ b/sci-biology/pysam/Manifest
@@ -1,4 +1,4 @@
 AUX pysam-0.12-fix-buildsystem.patch 2356 BLAKE2B 95542f99b411a00eeaa24836cb7489bf2bbf690d804669f69f6f1a8c07f66d9c6ef34624eb511036cd36b1268b49959d38db497cb557e9cc40f3a35b2d349f4d SHA512 24c5c521ddd2e8a88a713c2cab2aedb0cd9a589e2ae87696a60815f9714e2b222a5e0824c5ac293f9023f6f772a599256a5c07228b5a2df40b62a1bf7616c84a
 DIST pysam-0.12.0.1.tar.gz 2672020 BLAKE2B 4bc6330405724f7b1126da91ba3338687f4dd17f015895f42b971f22ffbb6c32eda65e2667035a4cc830c0370b34d95d3aa6ae0f026b2b3276af1fd6841eed28 SHA512 31460ca98ad2ac5489905ffce76bfbb5bf4a295159f3cc8e088c78dcfbfc34b30d6f7871fd1454de01da98f82b7438ac2aca678a771d7b97ae0029a418f29f1d
-EBUILD pysam-0.12.0.1.ebuild 1192 BLAKE2B d5ef892543371571dfbee120d3dd07687fce35abfaa302996ffcbd6de1f0cf38b24ff53b96aba8bc545bc1ecf742e4d56701250101db00d87a04ca3b1bd4ef15 SHA512 3e596b01add1f58d9ed4fbb0c44dd4fdba5a3ef899b8941b0c6f2546e83ba098f548e53b814d7bf0eeee18fbb8ea41e154d0285d372698ad1f68393cf7d7daee
+EBUILD pysam-0.12.0.1.ebuild 1182 BLAKE2B 11c3a036ca7c6560a6316963ea6133708d36cce2d0f21a1e327180d303406ae23ad021ba04024191eda1687ef538f41c0bfe34bbed742bc85f9aeb12b38dc6da SHA512 fd71cf196e68f640343e2b43e3bb8b5355462f6816a1eb0e7755d188435c567ce53209f6f2599a84e5052d26b4747038c7a4b5a2e9b916c117f388ca369a3919
 MISC metadata.xml 410 BLAKE2B ed86e3ffe38a306e581762625b37cf6596dc2a2ba404406ab12f681d5b48529764e281d40411bedbdf6016bc57d02adb705e8c8703b8120cf89b4961f75bed67 SHA512 38bcd511561b2466ef5d39473a6d1a838af0aff6eeb520307331fe0fc3177be3062fa0be39f48a333bb8e31841115cafd9dfb80a5985c316c9b8df1609f00810
diff --git a/sci-biology/pysam/pysam-0.12.0.1.ebuild b/sci-biology/pysam/pysam-0.12.0.1.ebuild
index e6500903f847..e7567f3501bf 100644
--- a/sci-biology/pysam/pysam-0.12.0.1.ebuild
+++ b/sci-biology/pysam/pysam-0.12.0.1.ebuild
@@ -3,7 +3,7 @@
 
 EAPI=6
 
-PYTHON_COMPAT=( python2_7 python3_6 )
+PYTHON_COMPAT=( python3_6 )
 
 inherit distutils-r1
 
diff --git a/sci-biology/tophat/Manifest b/sci-biology/tophat/Manifest
index 391b7baa196a..994f585d8924 100644
--- a/sci-biology/tophat/Manifest
+++ b/sci-biology/tophat/Manifest
@@ -2,5 +2,5 @@ AUX tophat-2.1.1-fix-c++14.patch 655 BLAKE2B 760f2d371e6467340d31c688187a62b0266
 AUX tophat-2.1.1-python2-shebangs.patch 758 BLAKE2B 83bda360dc36d3eaa890adee00bdb58698fb5eaaa29255c85b3b63f61536921386115662051a4938d21079a3eb1a103dce752f0320fe1990535d35ae74480fcc SHA512 887e5a8b02c2e43a7fa35c9f98670dd722527c45454ca24d5e2f9d2f372267905d7e0142317769b14830706cf82868cb83ede970ffe527f736d71df794fd6342
 AUX tophat-2.1.1-unbundle-seqan-samtools.patch 5224 BLAKE2B acdf26085b6eab54f478f5e31e2f180a008b9a05b853253f8f161759dc79a0fb5ea0c54bbf3a0f4ebf79da71988c60d17899aaa1ff6e927a308eca01edccbdf1 SHA512 d920cee92a0a694a34d6ac5b949e5b883bf9dcff338f36e227cb014732231b96461c02e75418972c85880169751a96c2367f6a4be6ce8c91f310b4b4f6858248
 DIST tophat-2.1.1.tar.gz 2259554 BLAKE2B f01b08cc2046b7d143864d64aa3e34d3000c7c10d7e50a4e102d500556e8620996de03392463f9d08ae97858eaec85b2df3b5d5ee5b0b4f7a5c0ae06bb3d08e8 SHA512 e2e0943a6f3d34b83922e6e403b65a3bee480a2b2bb4bf2de0cae7e0ef5bb166b66fec923316c2b643e8550e43c842f0f1bcc2ca7249d20fbcf5a4733fbdeabc
-EBUILD tophat-2.1.1-r5.ebuild 2222 BLAKE2B 6495a600bb9986ecb5fb2eb09a7c0a5066cc1e28bea0c40df319294dde84a4d08f4eb9e784492f4f416fde4c981d2b6881182439af1a80320eef0ab567a70d7f SHA512 b07baa1225df5a2dbe8d6b031249ab212f815c8710a6d5e74d4a5a9ea8af149e76c045fc1fc943d09b10f7e0e035c899a7a79d7386c73381a0c13f57d6d58e44
+EBUILD tophat-2.1.1-r5.ebuild 2229 BLAKE2B 592ad2da66507557ae794c2372d3502a66c5d10248de271ae1df19ce6e2652aa568c2948940b172ebe62adb0f5f186b476fbaaa5b25d6ecda50abd34488097fa SHA512 32c653dc0abacb77e342142d64e0522c1c9305a34e66475b84ec8d5843c200a8a8ab3acb9138b2d51e48fb6540ab53d70f4bfd8f26447c00f14ef174486c3eb8
 MISC metadata.xml 267 BLAKE2B 7cf386952842945148119de3263231db4d1046d5f54811f7e303ed8ec4d27cbc1960b99c92daf6f32e5b981c2fb9f50ec666be6193865d6e18541b7427a152a9 SHA512 91ab266d9ab24401bc0fec759c5b6cfcf44a3c5669fc31c7301d79770839bb5dfa0e155d949392ef06176b4a0b2c32b91b1b54b0027f972db61f0a5e54644403
diff --git a/sci-biology/tophat/tophat-2.1.1-r5.ebuild b/sci-biology/tophat/tophat-2.1.1-r5.ebuild
index 84f3d82b39d0..753188771381 100644
--- a/sci-biology/tophat/tophat-2.1.1-r5.ebuild
+++ b/sci-biology/tophat/tophat-2.1.1-r5.ebuild
@@ -5,7 +5,7 @@ EAPI=6
 
 PYTHON_COMPAT=( python2_7 )
 
-inherit autotools flag-o-matic python-single-r1 toolchain-funcs
+inherit autotools eutils flag-o-matic python-single-r1 toolchain-funcs
 
 DESCRIPTION="Python-based splice junction mapper for RNA-Seq reads using bowtie2"
 HOMEPAGE="https://ccb.jhu.edu/software/tophat/"