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* sci-biology/bioperl: use <pkg> tags in metadata.xmlPetr Vaněk2022-08-261-3/+3
| | | | | Signed-off-by: Petr Vaněk <arkamar@atlas.cz> Signed-off-by: Sam James <sam@gentoo.org>
* sci-biology/pals: use HTTPSMichael Mair-Keimberger2022-08-231-2/+2
| | | | | | | Signed-off-by: Michael Mair-Keimberger <mmk@levelnine.at> Portage 3.0.34 / pkgdev 0.2.1 / pkgcheck 0.10.11 Closes: https://github.com/gentoo/gentoo/pull/26708 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-biology/muscle: use HTTPSMichael Mair-Keimberger2022-08-231-3/+3
| | | | | | Signed-off-by: Michael Mair-Keimberger <mmk@levelnine.at> Portage 3.0.34 / pkgdev 0.2.1 / pkgcheck 0.10.11 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-biology/iedera: use HTTPSMichael Mair-Keimberger2022-08-231-3/+3
| | | | | | Signed-off-by: Michael Mair-Keimberger <mmk@levelnine.at> Portage 3.0.34 / pkgdev 0.2.1 / pkgcheck 0.10.11 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-biology/trf: use HTTPSMichael Mair-Keimberger2022-08-231-2/+2
| | | | | | Signed-off-by: Michael Mair-Keimberger <mmk@levelnine.at> Portage 3.0.34 / pkgdev 0.2.1 / pkgcheck 0.10.11 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-biology/biosql: use HTTPSMichael Mair-Keimberger2022-08-231-2/+2
| | | | | | Signed-off-by: Michael Mair-Keimberger <mmk@levelnine.at> Portage 3.0.34 / pkgdev 0.2.1 / pkgcheck 0.10.11 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-biology/exonerate: use HTTPSMichael Mair-Keimberger2022-08-231-1/+1
| | | | | | Signed-off-by: Michael Mair-Keimberger <mmk@levelnine.at> Portage 3.0.34 / pkgdev 0.2.1 / pkgcheck 0.10.11 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-biology/transfac: treecleanJakov Smolić2022-08-093-59/+0
| | | | | Closes: https://bugs.gentoo.org/361411 Signed-off-by: Jakov Smolić <jsmolic@gentoo.org>
* sci-biology/t-coffee: add github upstream metadataSam James2022-07-301-0/+3
| | | | Signed-off-by: Sam James <sam@gentoo.org>
* sci-biology/newick-utils: add github upstream metadataSam James2022-07-301-0/+3
| | | | Signed-off-by: Sam James <sam@gentoo.org>
* sci-biology/muscle: add github upstream metadataSam James2022-07-301-4/+7
| | | | Signed-off-by: Sam James <sam@gentoo.org>
* sci-biology/mothur: add github upstream metadataSam James2022-07-301-4/+7
| | | | Signed-off-by: Sam James <sam@gentoo.org>
* sci-biology/fasta: add github upstream metadataSam James2022-07-301-4/+7
| | | | Signed-off-by: Sam James <sam@gentoo.org>
* sci-biology/abyss: fix metadata indentationSam James2022-07-301-10/+10
| | | | Signed-off-by: Sam James <sam@gentoo.org>
* sci-biology/bwa: add github upstream metadataSam James2022-07-301-7/+8
| | | | Signed-off-by: Sam James <sam@gentoo.org>
* sci-biology/uchime: update EAPI 7 -> 8David Seifert2022-07-153-28/+26
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/uchime: use append-cxxflagsSam James2022-07-151-2/+2
| | | | Signed-off-by: Sam James <sam@gentoo.org>
* sci-biology/trnascan-se: drop 1.31David Seifert2022-07-092-80/+0
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/trnascan-se: improve makefileDavid Seifert2022-07-093-20/+182
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/rebase: fix RDEPEND typoSam James2022-07-091-1/+1
| | | | Signed-off-by: Sam James <sam@gentoo.org>
* sci-biology/biopandas: update EAPI 7 -> 8David Seifert2022-07-081-3/+3
| | | | | | Closes: https://bugs.gentoo.org/809665 Closes: https://bugs.gentoo.org/846218 Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/bedtools: update EAPI 7 -> 8David Seifert2022-07-081-6/+5
| | | | | Closes: https://bugs.gentoo.org/846215 Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/yass: update EAPI 6 -> 8David Seifert2022-07-071-3/+3
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/trf: update EAPI 6 -> 8David Seifert2022-07-071-8/+7
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/transfac: update EAPI 6 -> 8David Seifert2022-07-071-7/+6
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/t-coffee: update EAPI 6 -> 8David Seifert2022-07-072-17/+29
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/rnaview: update EAPI 6 -> 8David Seifert2022-07-071-8/+5
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/recon: update EAPI 6 -> 8David Seifert2022-07-072-8/+28
| | | | | Closes: https://bugs.gentoo.org/716082 Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/prodigal: update EAPI 6 -> 8David Seifert2022-07-071-8/+3
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/prank: update EAPI 6 -> 8David Seifert2022-07-074-39/+57
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/piler: update EAPI 6 -> 8David Seifert2022-07-071-6/+3
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/pilercr: update EAPI 6 -> 8David Seifert2022-07-071-6/+4
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/phyml: update EAPI 6 -> 8David Seifert2022-07-071-8/+5
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/phred: update EAPI 6 -> 8David Seifert2022-07-071-14/+10
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/pals: update EAPI 6 -> 8David Seifert2022-07-071-8/+3
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/mummer: update EAPI 6 -> 8David Seifert2022-07-071-6/+4
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/maqview: update EAPI 6 -> 8David Seifert2022-07-071-5/+3
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/maq: update EAPI 6 -> 8David Seifert2022-07-071-5/+4
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/kalign: update EAPI 6 -> 8David Seifert2022-07-073-33/+54
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/iqpnni: update EAPI 6 -> 8David Seifert2022-07-071-7/+4
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/iedera: update EAPI 6 -> 8David Seifert2022-07-072-9/+5
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/hmmer: update EAPI 6 -> 8 (3.1_beta2)David Seifert2022-07-072-14/+41
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/hmmer: update EAPI 6 -> 8 (2.3.2)David Seifert2022-07-071-11/+16
| | | | | Closes: https://bugs.gentoo.org/725306 Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/exonerate: update EAPI 6 -> 8David Seifert2022-07-074-29/+54
| | | | | Closes: https://bugs.gentoo.org/600766 Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/eugene: update EAPI 6 -> 8David Seifert2022-07-073-31/+114
| | | | | Closes: https://bugs.gentoo.org/829816 Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/embassy: update EAPI 6 -> 8David Seifert2022-07-071-2/+2
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/elph: update EAPI 6 -> 8David Seifert2022-07-071-7/+5
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/dialign2: update EAPI 6 -> 8David Seifert2022-07-073-13/+222
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/clustalw: update EAPI 6 -> 8 (2.1)David Seifert2022-07-071-4/+3
| | | | Signed-off-by: David Seifert <soap@gentoo.org>
* sci-biology/clustalw: update EAPI 6 -> 8 (1.83)David Seifert2022-07-073-17/+48
| | | | | Closes: https://bugs.gentoo.org/741180 Signed-off-by: David Seifert <soap@gentoo.org>