13 files changed, 19 insertions, 19 deletions
diff --git a/sci-biology/Manifest.gz b/sci-biology/Manifest.gz
index e25a74af0c60..005e5cad6bb7 100644
--- a/sci-biology/Manifest.gz
+++ b/sci-biology/Manifest.gz
diff --git a/sci-biology/biosql/Manifest b/sci-biology/biosql/Manifest
index 126b5f822610..b01dc8d040fd 100644
--- a/sci-biology/biosql/Manifest
+++ b/sci-biology/biosql/Manifest
@@ -1,3 +1,3 @@
 DIST biosql-1.0.1.tar.bz2 253516 BLAKE2B d2b0d6c3f03389fbcf9dfca823b02c611b63d4c1ee1356150f92bb8c14c534d988644253fd1a6ed6522b8d2d06cacf7b21d7a9e9fe7b9464704497e7f976b283 SHA512 2e1fef6ab9b4386f146910937700f9108f8ef266161b7adfbbc52c0011eebc84716637c897a01a399ff39b066ff0a5905ba3fa27e7b41f53a87baf58d5b32695
-EBUILD biosql-1.0.1-r2.ebuild 985 BLAKE2B 84dddadc810143f3a756d32f5ff881686cf6fdb3f3811b2a75257e6bdfeb95199cccad2e5bd328c7aacdd6c31476504a58d5f299fb1d6343a8fe05ff07c541f7 SHA512 5b7508456174d5893af2a6eb4a794542aa5ba02a3359aa7f93e73deb8ff9146a4a9264b66ff586ceea19d2fb5c31ef180c2ce2a022f83067eb5e070e995782d4
+EBUILD biosql-1.0.1-r2.ebuild 983 BLAKE2B 01978ad51480c8fad57d48ce108583832a9d8eb12b5fed010784d6c4760589bc6840fe3d57bf8979ad750be737220ed7b6f21188f6304710f5075dac30740961 SHA512 b241af21b076ee4df162a9ed8927cc6fb16f46e143103dd388426b7adbc4b7f10d04fd54caa93edbce72e4b3a379fd06a0ca7042f6d24b8741204d9d05e56059
 MISC metadata.xml 268 BLAKE2B a4d67334cdad8626d60e46b677ee1c83f569e5e20b3739a7664bb33be1829f8478af35e135bf734a6ff151b8543ea6c4ecafbf822cee8189f7e7096bd9698711 SHA512 59d3d8213b1a219396b74b6f4188c01e1cb4eb1c63e6792ce1e7fdb8000d1a4625919337ff77288ca7f7e07d9753f481d2381a06f554012633cd678194c980de
diff --git a/sci-biology/biosql/biosql-1.0.1-r2.ebuild b/sci-biology/biosql/biosql-1.0.1-r2.ebuild
index c32ff970f9af..fd42d5e58a9a 100644
--- a/sci-biology/biosql/biosql-1.0.1-r2.ebuild
+++ b/sci-biology/biosql/biosql-1.0.1-r2.ebuild
@@ -4,8 +4,8 @@
 EAPI=8
 
 DESCRIPTION="A generic bioinformatics relational database model"
-HOMEPAGE="http://www.biosql.org/"
-SRC_URI="http://biosql.org/DIST/${P}.tar.bz2"
+HOMEPAGE="https://biosql.org/"
+SRC_URI="https://biosql.org/DIST/${P}.tar.bz2"
 
 LICENSE="LGPL-3"
 SLOT="0"
diff --git a/sci-biology/exonerate/Manifest b/sci-biology/exonerate/Manifest
index 5474f7a87784..d167e19a87ca 100644
--- a/sci-biology/exonerate/Manifest
+++ b/sci-biology/exonerate/Manifest
@@ -1,4 +1,4 @@
 AUX exonerate-2.2.0-autotools.patch 1407 BLAKE2B b34e8c4d8301d4f416b44f4516154917943e17d30b548c7710e097706ce2c9123770d97d3ae962a268c6253a83ab60159f9285fadab1328be4ad5dc48249ee3f SHA512 f34c35228d23a8fd9402c514312c58bd877a7844487ade7f9f8d545d66c5d350f3f82f1aab1862a7b647b7f7aaaa0dbd8100d34bc0ef7d79969063c30a8558d0
 DIST exonerate-2.2.0.tar.gz 509870 BLAKE2B 58b12338ef7d819a8e33ab87d72afe807ca219581a8f35ae38951860915a676bb9ba34a481f685e970948d9272be3e5f28d6b63c14f4d5facf35c4be52530d3b SHA512 c0aec4df83fbf6bcd1b27242397349769211ab88d71e2d081e20cb5453a03acd805807535a69841e991cf543d99fcd458cbd22d60b21f0fc6ce813eac45b838c
-EBUILD exonerate-2.2.0-r3.ebuild 945 BLAKE2B 5df41a4c19730cb7b342dcae7875fba40b7c7404ceb85f4568f55f0eaf9d8446195e922c709ae09a62f4a5c0a35b581ef86f03c3a58ead41b0d70313ec7da76f SHA512 f928328f1cb14719343df4c4d7df4fc834b59a3909c6f47ca9d1358d4d2d1d6d31c404074e45e747b3e5736040897861c00bb9e0974582f3472639638cc4c80d
+EBUILD exonerate-2.2.0-r3.ebuild 946 BLAKE2B 2e45818d3920b0ce295831122765dfd164b6612dd11a1ce72b87a52c84a73aee7b4c22f3cdb86db953900fc52182798daf73adeae1e9f3fd3cdc3b49baad15b1 SHA512 40a8ad91c8fb09103ca1ddcdc8466f08e637e2a002021dbbf2b33a35d00c649ca022cff4275c1ba42bb65cb714ca1b5e417f6683ec0d4c12bfb5e3f45061a2d0
 MISC metadata.xml 654 BLAKE2B c84cf7eb3eed086e51e990906b2ea2645160683ba9314d2d15790e03d077714c1592bd4f305a8f3ed9109e376292118b44a1d10ea9ad1118139874a4e451bf6b SHA512 820b824d3d2a05feee023573580135fa2895832dd1b602c35253c1b8ee46aafdd0e010b5e8a77ce1805058264e3110821d27533a1dfe9d30799a5e63ea1551f1
diff --git a/sci-biology/exonerate/exonerate-2.2.0-r3.ebuild b/sci-biology/exonerate/exonerate-2.2.0-r3.ebuild
index 73fa9eca83e5..20110bdb6f1c 100644
--- a/sci-biology/exonerate/exonerate-2.2.0-r3.ebuild
+++ b/sci-biology/exonerate/exonerate-2.2.0-r3.ebuild
@@ -7,7 +7,7 @@ inherit autotools toolchain-funcs
 
 DESCRIPTION="Generic tool for pairwise sequence comparison"
 HOMEPAGE="https://www.ebi.ac.uk/about/vertebrate-genomics/software/exonerate"
-SRC_URI="http://ftp.ebi.ac.uk/pub/software/vertebrategenomics/exonerate/${P}.tar.gz"
+SRC_URI="https://ftp.ebi.ac.uk/pub/software/vertebrategenomics/exonerate/${P}.tar.gz"
 
 LICENSE="GPL-3"
 SLOT="0"
diff --git a/sci-biology/iedera/Manifest b/sci-biology/iedera/Manifest
index 3edddb50dc42..a676471cd695 100644
--- a/sci-biology/iedera/Manifest
+++ b/sci-biology/iedera/Manifest
@@ -1,4 +1,4 @@
 AUX iedera-1.05-fix-buildsystem.patch 385 BLAKE2B 84865e3a1714e4ef67db70f5d144eb82426abf56c22391f576a783c9d237e6c64c2613a5034c7157007679d2456510b84f31bebc1c2d758c98822a1373cf0792 SHA512 5c36266426ac3c51fed5a738d688b23932b3d28de7affa942781beab2460cbff0add6f452b034fcca9733469deb493357ce3865181e71e6721a642667d69486f
 DIST iedera-1.05.tar.gz 129163 BLAKE2B fe499276da7571be83b847ab98bbe4878470b07fb13ee80ffb55bff1b5674b54fd4bf5e21fa34e10b8296d9c6aad298dbde79910cfa45670ea8afe047de1a979 SHA512 60d35227d5479fea693e8a3c0e629aae9e21f3c7e2be7b2f10aaddcade70cc6525fa18dea1851f73d6c1aadbb5e8776dd4a146b1a81ecfe8c910729a2300066f
-EBUILD iedera-1.05-r2.ebuild 449 BLAKE2B 30d93b6df82103d33135b04d44ebc9587ca30337ce0e5838ec6965081a890f79dc8882827a92b69053a3396056d8bc0c113081bdcab8644daa89d651a945e808 SHA512 6c9bd21c13d202fb7bcd36f37bfae83291d8aec90700fad0f4763cb24e870170217f4f70d00e528c4258ea057430d7486d40725a7403dec2b03de6638e094979
+EBUILD iedera-1.05-r2.ebuild 449 BLAKE2B 1938bb777bbb9168e77bad3d034670654556bc9120faba9147542645a437fc19fdf3534a89713b5ea33d2b1d9f65759bfc5c13123a8f739e56aa1c0129f652b2 SHA512 d78699cd120b5ce00069be248b3065e9848b948c4c25b308deb53b50dfc97ed1f7383cc0c9a54f91e7b457a97f30c519f2fc432f1486aea56b9cbe241a7b0811
 MISC metadata.xml 268 BLAKE2B a4d67334cdad8626d60e46b677ee1c83f569e5e20b3739a7664bb33be1829f8478af35e135bf734a6ff151b8543ea6c4ecafbf822cee8189f7e7096bd9698711 SHA512 59d3d8213b1a219396b74b6f4188c01e1cb4eb1c63e6792ce1e7fdb8000d1a4625919337ff77288ca7f7e07d9753f481d2381a06f554012633cd678194c980de
diff --git a/sci-biology/iedera/iedera-1.05-r2.ebuild b/sci-biology/iedera/iedera-1.05-r2.ebuild
index 96734c6ef1c4..22a4bd9225f2 100644
--- a/sci-biology/iedera/iedera-1.05-r2.ebuild
+++ b/sci-biology/iedera/iedera-1.05-r2.ebuild
@@ -5,9 +5,9 @@ EAPI=8
 
 inherit autotools
 
-DESCRIPTION="A subset seed design tool for DNA sequence alignment"
-HOMEPAGE="http://bioinfo.lifl.fr/yass/iedera.php"
-SRC_URI="http://bioinfo.lifl.fr/yass/files/${P}.tar.gz"
+DESCRIPTION="Subset seed design tool for DNA sequence alignment"
+HOMEPAGE="https://bioinfo.lifl.fr/yass/iedera.php"
+SRC_URI="https://bioinfo.lifl.fr/yass/files/${P}.tar.gz"
 
 LICENSE="GPL-2"
 SLOT="0"
diff --git a/sci-biology/muscle/Manifest b/sci-biology/muscle/Manifest
index b636ad50d68a..8a5aea9c17ad 100644
--- a/sci-biology/muscle/Manifest
+++ b/sci-biology/muscle/Manifest
@@ -1,4 +1,4 @@
 AUX 3.8.31-make.patch 922 BLAKE2B 57f112a4538b1b0a791f9e151e0e27ba8c6af2beefb6ce95f064edd183315e17a09d92a9cd0a368907e2b4a1571463669e5ef83e96758603fa4807780ea98bc0 SHA512 c948991ab4f7b7d6e05ab63df00ea6ac576587e63f808c377cc86f4e3863c7cee207569d7f0a8572a8fcf81f2e23d9dd6b1270447a0028910301d74554ab1fac
 DIST muscle3.8.31_src.tar.gz 515267 BLAKE2B 79a8517f7a14d8ee907104e9035e1284fcabec556544508fd9b712789759448969ce39ecbefcedac62c435dc91e109b3b5b7027120691310ffebda80ca80dd9e SHA512 2baf2aae354ae1e3f529e627be2ace86e89dd15567e1f642a625b63f08ebe3d4bd7315080c7d786d95e3eda8703545ec74af9fe83ad1523d55d00137fb7274ce
-EBUILD muscle-3.8.31.ebuild 581 BLAKE2B f8b4bfd1f1cec05e80f44198e9f9377bcc3fdfd38f5026eb4a3e965d97d5087106ba91590aad9ffec43feac3062ec94d0c821570f0f887672699e1cf79f73272 SHA512 b2560acd41f7c7ffe90ac235b96ee1ee9dcce6a3a3efc2114925ad5f97fcb2f142e99d29f3f6905993549650aca4e5e3dbf9add0b64d1fd942783c1cf162fc94
+EBUILD muscle-3.8.31.ebuild 583 BLAKE2B e8c673ec8ecdfcd6e8d490ecb5fb3ed8c15d7610764c35c7b83b5cbc8abffc51b59ced33f45be4d46cf3c858139358644c5944a95b9ce7f2767b9eb18614107c SHA512 66010e20d06b0c8053988ec6288d95f6df0f8e66e907e7d2592ef811290b0950f44dffec3015d60d8b73be6cc2fcaaad6795fd8e740ab9c18fc2edaa05055f85
 MISC metadata.xml 341 BLAKE2B 6b03204418f247ef22fd3237509b77f74c4e3a8f2df5874c387fb0c63a8e36fc3fff55ee252409cf541fbedc1cef37a4ba58dd73b647cc3ae2e6ce5d653b5e34 SHA512 e921eda7a3135f20b64253b388af339085f7f5c020f72a082dab4a6600fbe8841f236348974886f177a3196c83ed0fb25954128b272c3e92544f1880f49fa809
diff --git a/sci-biology/muscle/muscle-3.8.31.ebuild b/sci-biology/muscle/muscle-3.8.31.ebuild
index 14781d000e78..1638c655be32 100644
--- a/sci-biology/muscle/muscle-3.8.31.ebuild
+++ b/sci-biology/muscle/muscle-3.8.31.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2021 Gentoo Authors
+# Copyright 1999-2022 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=7
@@ -8,8 +8,8 @@ inherit toolchain-funcs
 MY_P="${PN}${PV}_src"
 
 DESCRIPTION="Multiple sequence comparison by log-expectation"
-HOMEPAGE="http://www.drive5.com/muscle/"
-SRC_URI="http://www.drive5.com/muscle/downloads${PV}/${MY_P}.tar.gz"
+HOMEPAGE="https://www.drive5.com/muscle/"
+SRC_URI="https://www.drive5.com/muscle/downloads${PV}/${MY_P}.tar.gz"
 
 LICENSE="public-domain"
 SLOT="0"
diff --git a/sci-biology/pals/Manifest b/sci-biology/pals/Manifest
index 860bd22b0564..fc94ed371cb5 100644
--- a/sci-biology/pals/Manifest
+++ b/sci-biology/pals/Manifest
@@ -1,4 +1,4 @@
 AUX pals-1.0-fix-build-system.patch 681 BLAKE2B 8460ce718ce1a1a57970ecab525aa798e033c496a0108f44457155312653ce180ee700c76b1cf3a7b9f099a924cd7a8c0f027ba1cd65d96b688a67b97fe247a7 SHA512 bd95517d72cf567a4608878d556919396c9dd1cd77a4e49f2f8604f058c76a1f26c31760ad6ef6048ec12b76de46a6f4c56b5cb27b4aa1f91339c8f14bd963ac
 DIST pals-1.0.tar.gz 24895 BLAKE2B 09a24b3a2e99471378f33a84c447dea9153ddedd502de4e6b771c85ef99df5ca30f687b58d1d9d4726b29345215b617f1dc93a71b8be417d8c0c03e8ecd71015 SHA512 655e3311c63709dab1f8a13b193ed30a5ee97c04757a1e8408a74f6110ff3bdd96ba9eb07f4987ed5b83790ffa8cec67f722fee783c4ab4120483a683ebb9b8f
-EBUILD pals-1.0-r2.ebuild 495 BLAKE2B c056df63e24b170b20bfd958ce6e67f447a028a2199724740d8ca6ea4af20302a33fc46ba40e3b5533b1e8c0ebb6681b4d1db44730aae40c17860a49118e9cdd SHA512 8d7027e01db3f11ebb7c8030c5711ca53af100e0de40510faa4a8ef11f6a08884e88507682d7d72bf36ac39912bfa68299a21455ed1682f9a2874471a66525eb
+EBUILD pals-1.0-r2.ebuild 497 BLAKE2B b36e2b2b6a59da25b6502c60e94effca3c077d3a4d5fb2c080242249060018902c6618be0858b87a3bc3ad636547b0d8d947aaab82c2ae04367dfe7157a16449 SHA512 4337ca026fb8ba1f103c49216235be329f55b5eca9fe8ab31d91939a239d5b03a442408745123947377956241f5ce9ff66f979308855677b2094f5f60a79a178
 MISC metadata.xml 268 BLAKE2B a4d67334cdad8626d60e46b677ee1c83f569e5e20b3739a7664bb33be1829f8478af35e135bf734a6ff151b8543ea6c4ecafbf822cee8189f7e7096bd9698711 SHA512 59d3d8213b1a219396b74b6f4188c01e1cb4eb1c63e6792ce1e7fdb8000d1a4625919337ff77288ca7f7e07d9753f481d2381a06f554012633cd678194c980de
diff --git a/sci-biology/pals/pals-1.0-r2.ebuild b/sci-biology/pals/pals-1.0-r2.ebuild
index 8f251d2b82ab..4e367283bf01 100644
--- a/sci-biology/pals/pals-1.0-r2.ebuild
+++ b/sci-biology/pals/pals-1.0-r2.ebuild
@@ -6,8 +6,8 @@ EAPI=8
 inherit toolchain-funcs
 
 DESCRIPTION="Pairwise Aligner for Long Sequences"
-HOMEPAGE="http://www.drive5.com/pals/"
-SRC_URI="http://www.drive5.com/pals/pals_source.tar.gz -> ${P}.tar.gz"
+HOMEPAGE="https://www.drive5.com/pals/"
+SRC_URI="https://www.drive5.com/pals/pals_source.tar.gz -> ${P}.tar.gz"
 S="${WORKDIR}"
 
 LICENSE="public-domain"
diff --git a/sci-biology/trf/Manifest b/sci-biology/trf/Manifest
index f8a92cfd3364..3fe00c412cf2 100644
--- a/sci-biology/trf/Manifest
+++ b/sci-biology/trf/Manifest
@@ -1,3 +1,3 @@
 DIST trf404.linux 89853 BLAKE2B 36abf95c88a5b8793e875a276f1494af4df48ff3b3f095e07683589d84eaadfb54099c1764dcd437158c356dcd9d55dd274e7e41515ef098ee2a929493cc0d83 SHA512 c1aa05e394d47ea153df3082258f9a089aa59976963e9ac5d5816ef9dcd95c47e2e46861d1b2aae52b5ea9950a823a2449dd0d8426b04f2b738f5552c319393e
-EBUILD trf-4.04-r2.ebuild 613 BLAKE2B 4c9dc62a46b3278d29a154028d74c070f66e98534f6cbbc207b95e277fefcac5f59ba170abfbc89cbe616764f3a6b9386ec9a54481b75dbd217ab57642f927c6 SHA512 98ac0a58b6c24dc45b62310cd4d5bfd06f1c25cfae2855a0853c801211efec4d44a2b9cdf5b9236355dfbb956dbd0fa6c3a158f4c21910b82a49e900aa56a124
+EBUILD trf-4.04-r2.ebuild 615 BLAKE2B b12ca83b210055d3406af3d4b24e520b8a5ec347dc41df8cb89f976329799a38b218d1a6144011d6b59917460ba02577323b4c243e84508545455befaa60231f SHA512 21b4b7c00c4b56b2887ffdc00f91035e26343b7e4d6d9a46b31163124e5e539d309fdcc46d2f81dc37c15ea486e791d948b0e1df39bce547e161b526be3405bc
 MISC metadata.xml 268 BLAKE2B a4d67334cdad8626d60e46b677ee1c83f569e5e20b3739a7664bb33be1829f8478af35e135bf734a6ff151b8543ea6c4ecafbf822cee8189f7e7096bd9698711 SHA512 59d3d8213b1a219396b74b6f4188c01e1cb4eb1c63e6792ce1e7fdb8000d1a4625919337ff77288ca7f7e07d9753f481d2381a06f554012633cd678194c980de
diff --git a/sci-biology/trf/trf-4.04-r2.ebuild b/sci-biology/trf/trf-4.04-r2.ebuild
index c534b74988bd..16cbb1c3cab9 100644
--- a/sci-biology/trf/trf-4.04-r2.ebuild
+++ b/sci-biology/trf/trf-4.04-r2.ebuild
@@ -6,8 +6,8 @@ EAPI=8
 MY_P="${PN}404"
 
 DESCRIPTION="Tandem Repeats Finder"
-HOMEPAGE="http://tandem.bu.edu/trf/trf.html"
-SRC_URI="http://tandem.bu.edu/trf/downloads/${MY_P}.linux"
+HOMEPAGE="https://tandem.bu.edu/trf/trf.html"
+SRC_URI="https://tandem.bu.edu/trf/downloads/${MY_P}.linux"
 S="${WORKDIR}"
 
 LICENSE="trf"	# http://tandem.bu.edu/trf/trf.license.html