github.com/sagemath/homebrew-science commits | Ecosyste.ms: OpenCollective

Merge pull request #1 from mwageringel/master

arb: fix conflict with flint from homebrew-core

c2cd11733499ca0a55afdcb22d2e69e17f34962e authored almost 5 years ago by Dima Pasechnik <[email protected]>

arb: fix conflict with flint from homebrew-core

This solves https://trac.sagemath.org/ticket/29104#comment:36.

a2d0b68b5b3ba7eba3a9be2999ac77bbed5020d6 authored almost 5 years ago by Markus Wageringel <[email protected]>

Update flint.rb

109e51013ec5c376b04733deab917794e32ae41c authored over 5 years ago by Dima Pasechnik <[email protected]>

Update arb.rb

c14b91f4b646b821a2884ba006dbca67c8d4b02f authored over 5 years ago by Dima Pasechnik <[email protected]>

Update arb.rb

108b51352dfc74563c4e4574c51f75fc8843c545 authored over 5 years ago by Dima Pasechnik <[email protected]>

use NTL with flint

c315dba6bf2129e03e9d6b23364b26e67c7b1ac8 authored over 5 years ago by Dima Pasechnik <[email protected]>

Update arb.rb

4696d7f46c74b4abe7b8ce33038b83381b6363ec authored over 5 years ago by Dima Pasechnik <[email protected]>

bbtools: migrate to brewsci/bio (#247)

d69e522ac3e77ca86394f7e0c1bf3ef09b7c68c1 authored over 5 years ago by Jonathan Chang <[email protected]>

stacks: migrate to brewsci/bio (#244)

129c71f6a983654a9035320301fb82d0633e6e21 authored over 5 years ago by Jonathan Chang <[email protected]>

wiggletools: migrate to brewsci/bio (#241)

dcf77587aab7c7c0ac77f0fc4782af1aff479d1d authored over 5 years ago by Shaun Jackman <[email protected]>

libbigwig: migrate to brewsci/bio (#240)

1246b6a9341000bc43c36750e715fb1f2f8c3328 authored over 5 years ago by Shaun Jackman <[email protected]>

abyss-explorer: migrate to brewsci/bio (#239)

See https://github.com/brewsci/homebrew-bio/pull/579

32b729c55dfee12b5e3b4d8791e803672830e9f9 authored almost 6 years ago by Shaun Jackman <[email protected]>

masurca: migrate to brewsci/bio

88760e66c1ccb1f74c1596b694e6e48c5b11b9fc authored almost 6 years ago by Jonathan Chang <[email protected]>

masurca: migrate to brewsci/bio (#237)

c3a8bb40d8cdb2613df44cf4cd3c37a314f17298 authored almost 6 years ago by Jonathan Chang <[email protected]>

Remove anvio (#230)

0b4777ddcf7140344612c176ffc1cf837ffb481f authored almost 6 years ago by Özcan Esen <[email protected]>

libdivsufsort: migrate to brewsci/bio (#235)

25084380a5f24755f695f51dfbe47e24d88d7b7a authored almost 6 years ago by Shaun Jackman <[email protected]>

Update concorde.rb (#233)

MacOS.is_64_bit? Should be used instead of the deprecated function

c942e6c35d6311104ad79ce6a142554f30ded025 authored almost 6 years ago by Michael Perk <[email protected]>

seqan: migrate to brewsci/bio (#229)

77d3429ae314412dc816252ba5c36d8a99db78e3 authored almost 6 years ago by Shaun Jackman <[email protected]>

Remove fails_with :gcc

a002b058423aeb4f94c720d7a075e42ecc800a32 authored almost 6 years ago by Shaun Jackman <[email protected]>

Remove :lion and :mountain_lion

e9e79840d871270c89ec44752c4cab3534a64854 authored almost 6 years ago by Shaun Jackman <[email protected]>

Remove use of :snow_leopard

4b04e6bb873c22aa198934d4196f0bc227b4accd authored almost 6 years ago by Shaun Jackman <[email protected]>

Remove depends_on :macos => :leopard

51a319dbc776026969da406dc1345674c4eb9e94 authored almost 6 years ago by Shaun Jackman <[email protected]>

Remove fails_with :clang with build < 600

806b9e38b4a8f537b84edf97b0fcb5af035a41e9 authored almost 6 years ago by Shaun Jackman <[email protected]>

Remove needs :cxx14

b2dc6f054cf133d4652e3c978bc69816a54e28f9 authored almost 6 years ago by Shaun Jackman <[email protected]>

Remove needs :cxx11

048ae86e4ffe7d8954385521cf429b517c861aaa authored almost 6 years ago by Shaun Jackman <[email protected]>

mumps: formula moved to brewsci/num

9a0c11235ebf271a2395da9d5d4d92d6fe059e7f authored about 6 years ago by Dominique Orban <[email protected]>

scotch: formula moved to brewsci/num

0a021d5d6fd427cf24c4feef04481e6148cd2278 authored about 6 years ago by Dominique Orban <[email protected]>

metis4: formula moved to brewsci/num

eb4c65977063d2683ac20e7ec324db8898a7d490 authored about 6 years ago by Dominique Orban <[email protected]>

superlu_mt: formula moved to brewsci/num

369c417d3ca06b5772734b794c508f53feafbf40 authored about 6 years ago by Dominique Orban <[email protected]>

migrate: kaiju

7aa90c43e85bcb24c70cdb99ff7281bfe45138f0 authored about 6 years ago by Torsten Seemann <[email protected]>

kmergenie: migrate to brewsci/bio (#218)

See https://github.com/brewsci/homebrew-bio/pull/487

0af05589fb9ba313370e7b8c078ef47226929297 authored about 6 years ago by Shaun Jackman <[email protected]>

sambamba: migrate to brewsci/bio (#140)

See https://github.com/brewsci/homebrew-bio/pull/212

1e4cb060043687a590198080afa0cc4155347232 authored over 6 years ago by Shaun Jackman <[email protected]>

trans-abyss: migrate to brewsci/bio/transabyss (#217)

See https://github.com/brewsci/homebrew-bio/pull/470

dce41b6c87816f251f74cab448036d91aea12e86 authored over 6 years ago by Shaun Jackman <[email protected]>

migrate: bfc

772322d1961a727a48de27fe697ffbbecaf9b4b2 authored over 6 years ago by Torsten Seemann <[email protected]>

trimadap: migrate to brewsci/bio (#215)

See https://github.com/brewsci/homebrew-bio/pull/452

28f3e2464b55cb6f2a0b5c2ffe49590e4472a7d4 authored over 6 years ago by Shaun Jackman <[email protected]>

rcorrector: migrate to brewsci/bio (#213)

See https://github.com/brewsci/homebrew-bio/pull/435

04be4ac98a94f827eb0939669e01debb6d201565 authored over 6 years ago by Jonathan Chang <[email protected]>

quip: migrate

a2a17d0a89c588a60f6ab5dcb0ea40ee7de0eff0 authored over 6 years ago by Torsten Seemann <[email protected]>

parsnp: migrate

e4f45da37b849d106e96b71eff13af22103e532f authored over 6 years ago by Torsten Seemann <[email protected]>

trinity: migrate to brewsci/bio (#210)

See https://github.com/brewsci/homebrew-bio/pull/420

4aac2e10d9a9cddda4e5f1cb097abece90aded08 authored over 6 years ago by Jonathan Chang <[email protected]>

jellyfish: migrate to brewsci/bio (#209)

See https://github.com/brewsci/homebrew-bio/pull/419

78e0ec7cc51ae002be121804b6cef1fdf71f8da7 authored over 6 years ago by Jonathan Chang <[email protected]>

cutadapt: migrate to brewsci/bio (#208)

637e79d3577a9f55d2c9f3282d36be4bde7602b8 authored over 6 years ago by Shaun Jackman <[email protected]>

express: migrate to brewsci/bio (#188)

See https://github.com/brewsci/homebrew-bio/pull/331

e86a0ccc6956a10c8c2681619492c0acfd8549db authored over 6 years ago by Jonathan Chang <[email protected]>

iva: migrate to brewsci/bio (#207)

6838ae77a55f34dfdff5e355a9a5bc9da59aa43c authored over 6 years ago by Shaun Jackman <[email protected]>

lrsim: migrate (#203)

96d30aea14f485aec2ca41c38735a9ccc92378f7 authored over 6 years ago by Susie C <[email protected]>

smalt: migrate

c73aefe67b99a6b84ad7de6861c10745eef3fcb8 authored over 6 years ago by Torsten Seemann <[email protected]>

edirect: migrate

d9c33dd46ee265c86b039b3964061a053161981e authored over 6 years ago by Torsten Seemann <[email protected]>

breseq: migrate to brewsci/bio brewsci/homebrew-bio#122

dd1435a09155ebba5634ba6e49569e3a5bcb6c49 authored over 6 years ago by Susie Chen <[email protected]>

circlator: migrate to brewsci/bio (#199)

550e60f9c35ad3964272266e3fcc0f0d986375bf authored over 6 years ago by Shaun Jackman <[email protected]>

harvest-tools : migrate

bb1b3e767fd515df19b8b268640adc5e005c20a9 authored over 6 years ago by Torsten Seemann <[email protected]>

vsearch: migrate

55f2c4d00992c8188e3777d20a79abb7b8f63531 authored over 6 years ago by Torsten Seemann <[email protected]>

phylip: migrate to brewsci/bio (#196)

See https://github.com/brewsci/homebrew-bio/pull/360

921ea65ece1f10c8cbaed23daaafde6b9ff60370 authored over 6 years ago by Shaun Jackman <[email protected]>

Update for deprecations (#190)

c.f. https://github.com/Homebrew/brew/pull/4392

Fixes https://github.com/brewsci/homebrew-sci...

ad26b434962e1a2d20014172e4d44aa2c260ef0c authored over 6 years ago by Jonathan Chang <[email protected]>

simulate-pcr: migrate to brewsci/bio (#186)

8d52103073faefcd4249ca79d51029210b1d6f67 authored over 6 years ago by Shaun Jackman <[email protected]>

sdsl-lite: migrate to brewsci/bio (#185)

ff7fd4778de079eb7627cb4935c501e3b4f2a9dc authored over 6 years ago by Shaun Jackman <[email protected]>

humann2: migrate to brewsci/bio (#184)

e9f7564ecfc9157107b7d369d781423e11c76dc0 authored over 6 years ago by Shaun Jackman <[email protected]>

biomake: migrate to brewsci/bio (#183)

See https://github.com/brewsci/homebrew-bio/pull/328

957bcaad28dcd1ca169191b59c43417a182044c4 authored over 6 years ago by Jonathan Chang <[email protected]>

seq-gen: migrate to brewsci/bio (#181)

See https://github.com/brewsci/homebrew-bio/pull/315

432520d03582438b6bc34905649f2f6ebac56410 authored over 6 years ago by Jonathan Chang <[email protected]>

links-scaffolder: migrate to brewsci/bio (#176)

See https://github.com/brewsci/homebrew-bio/pull/290

1aceff1a4872d05ad41b76c5842898fb884545ce authored over 6 years ago by Shaun Jackman <[email protected]>

bcalm: migrate to brewsci/bio (#175)

See https://github.com/brewsci/homebrew-bio/pull/288

45959ea7b8fe7cd45420c25b0c52a93356172037 authored over 6 years ago by Shaun Jackman <[email protected]>

phyx: migrate to brewsci/bio (#171)

See https://github.com/brewsci/homebrew-bio/pull/282

c3e0991c8ef03598ade23b6bec05fce7dd64f471 authored over 6 years ago by Jonathan Chang <[email protected]>

sortmerna: migrate to brewsci/bio (#174)

1d21337c31ec7e8ebd324c578bccce7e54970235 authored over 6 years ago by Shaun Jackman <[email protected]>

Revert "Revert "phlawd: migrate (#138)""

This reverts commit 54055e3cd2c27490d1397fa62b9286ee5717be68.

cc54759690302b0a944772157df36aa3b8670a6b authored over 6 years ago by Jonathan Chang <[email protected]>

gmap-gsnap: migrate to brewsci/bio (#167)

See https://github.com/brewsci/homebrew-bio/pull/254

db3f78dce138686de108d7d31e8dd98b1ec2740e authored over 6 years ago by Jessica Ma <[email protected]>

blat: migrate to brewsci/bio (#159)

See https://github.com/brewsci/homebrew-bio/pull/238

0009cbf3e41e0214212d4c78c28a3bc9ccd57361 authored over 6 years ago by Jessica Ma <[email protected]>

Remove formula now in core (#165)

0824603492edf46daff4d029c5d30b2bdc1825e7 authored over 6 years ago by Torsten Seemann <[email protected]>

Fermi lite.migrate (#164)

* fasta: migrate

* fermi-lite: migrate

d9c2ce825f7dee3e6edc12695983ff1369f1b968 authored over 6 years ago by Torsten Seemann <[email protected]>

fasta: migrate (#163)

7967965e1980b799b8e716f6738adf6d751915df authored over 6 years ago by Torsten Seemann <[email protected]>

k8: migrate (#162)

d8917d737a96a1a3ac31a46377821f39d7589a23 authored over 6 years ago by Torsten Seemann <[email protected]>

idba: migrate (#158)

8786a60179b5d0598191ff23811d43371ba79527 authored over 6 years ago by Torsten Seemann <[email protected]>

cd-hit: migrate (#155)

db7efdce7461f388102c1b217158554bca329c15 authored over 6 years ago by Torsten Seemann <[email protected]>

andi: migrate (#157)

da8077269425af22cd5a4fd9a0a7a29123b5656f authored over 6 years ago by Torsten Seemann <[email protected]>

centrifuge: migrate (#156)

ebde00b165466021a051fd2e5a417b6cc267beea authored over 6 years ago by Torsten Seemann <[email protected]>

mrbayes: migrate to brewsci/bio (#150)

See https://github.com/brewsci/homebrew-bio/pull/231

6ecf834a87d418cd8809cb0526e4856b89ec0a0c authored over 6 years ago by Jonathan Chang <[email protected]>

beagle: migrate to brewsci/bio (#154)

See https://github.com/brewsci/homebrew-bio/pull/233

1020d339e2e0e2ffa5f2d578d7d45e2bc5c7d901 authored over 6 years ago by Jonathan Chang <[email protected]>

fastuniq: migrate (#153)

3761cab8966e9adeb29304b2f88d0b2c246e023b authored over 6 years ago by Torsten Seemann <[email protected]>

beast2: migrate (#107)

50b5e3e4cffe04da688aace92c5b8eb1a25b27fc authored over 6 years ago by Jonathan Chang <[email protected]>

hisat2: migrate to brewsci/bio (#151)

8a8870093db74a614589728d1b99ed2207ff6848 authored over 6 years ago by Shaun Jackman <[email protected]>

elph: migrate (#123)

27d9bb2e4a878491414b36fbab809a2302dd15fb authored over 6 years ago by Torsten Seemann <[email protected]>

prank: migrate (#149)

be615d0ad2057f3914a65c5d468acc55bd4b1eab authored over 6 years ago by Torsten Seemann <[email protected]>

megahit: migrate to bio (#146)

adbf4f60089fbbd272ae3f794467b6cb8f855d2e authored over 6 years ago by Torsten Seemann <[email protected]>

Snp sites.migrate from (#148)

* snp-sites: migrate

a147652e44a265d0922c2cc87802f10eb47023d1 authored over 6 years ago by Torsten Seemann <[email protected]>

fasttree: migrate to bio (#147)

6e84a677f654fd5d772504cbeeaa484983f37583 authored over 6 years ago by Torsten Seemann <[email protected]>

cfml: migrate (#145)

3cbbc6321331cc37ff1e6a7f5cc6b6263bffa755 authored over 6 years ago by Torsten Seemann <[email protected]>

mafft: migrated to CORE

5be962109d3f08190be31c9ddf4d2cb03156c2aa authored over 6 years ago by Torsten Seemann <[email protected]>

freebayes: migrate

eccf390cc0b4d6f9fd5fc3650e26968ec8622672 authored over 6 years ago by Torsten Seemann <[email protected]>

vcflib: migrate

2285b2fc8039750f33b36559495c0c1ced107ae1 authored over 6 years ago by Torsten Seemann <[email protected]>

nxtrim: migrate to brewsci/bio (#139)

See https://github.com/brewsci/homebrew-bio/pull/211

c6b2ab6a9766dfcd8af7ff2e8a3b1dec6bde020e authored almost 7 years ago by Shaun Jackman <[email protected]>

Remove :run from depends_on (#141)

Calling 'depends_on ... => :run' is deprecated.

8ab6befe1cbe4dbcbf3614fe83298c1bb78226ed authored almost 7 years ago by Shaun Jackman <[email protected]>

Revert "phlawd: migrate (#138)"

This reverts commit 65179c18ce701c060793a97706ef61ad41d73cc5.

54055e3cd2c27490d1397fa62b9286ee5717be68 authored almost 7 years ago by Jonathan Chang <[email protected]>

phlawd: migrate (#138)

https://github.com/brewsci/homebrew-bio/pull/205

65179c18ce701c060793a97706ef61ad41d73cc5 authored almost 7 years ago by Jonathan Chang <[email protected]>

bamm: migrate to brewsci/bio (#133)

See https://github.com/brewsci/homebrew-bio/pull/199

d07cd6a4921099371f5d5975735626db395a2f3e authored almost 7 years ago by Jonathan Chang <[email protected]>

astral: migrate to brewsci/bio (#132)

See https://github.com/brewsci/homebrew-bio/pull/198

6b0e52460dcadb09e54fdd739f4826183f16e3e6 authored almost 7 years ago by Jonathan Chang <[email protected]>

libpll: migrate (#131)

080baab433ea5bcab7d86ff9cdd168c1500f4175 authored almost 7 years ago by Jonathan Chang <[email protected]>

dida: migrate to brewsci/bio (#136)

See https://github.com/brewsci/homebrew-bio/pull/203

9cfabf8f444a82e5cbee98465aac830785171a7f authored almost 7 years ago by Jessica Ma <[email protected]>

biobloomtools: migrate to brewsci/bio (#134)

See https://github.com/brewsci/homebrew-bio/pull/201

cd45c1b706e7c79c404346ae47a3127e120b8df1 authored almost 7 years ago by Jessica Ma <[email protected]>

snpeff: migrate

bcc6a93b98385d753cac426760290c816101b749 authored almost 7 years ago by Torsten Seemann <[email protected]>

r8s: migrate (#128)

370eb6440597b60d9c141100ef71dbc3a042af9a authored almost 7 years ago by Jonathan Chang <[email protected]>

Merge pull request #127 from jonchang/exabayes

exabayes: migrate to brewsci/bio

89192c9d8f022ac737bc0a4070bcead25349c12f authored almost 7 years ago by Jonathan Chang <[email protected]>

tap_migrations.json: Fix a typo (#129)

homebrew/bio should be homebrew/core.

2fb7c9c036d7642dc47ca08f95b3668fc1a851cf authored almost 7 years ago by Shaun Jackman <[email protected]>

dwgsim: migrate

4582911b1a2e8e95148f881cd661c3ad4f90ca3e authored almost 7 years ago by Torsten Seemann <[email protected]>