veryfasttree 4.0.4 (new formula)

Co-authored-by: Carlo Cabrera <30379873+carlocab@users.noreply.github.com>

Formula/v/veryfasttree.rb

@@ -0,0 +1,89 @@
+class Veryfasttree < Formula
+ desc "Efficient phylogenetic tree inference for massive taxonomic datasets"
+ homepage "https://github.com/citiususc/veryfasttree"
+ url "https://github.com/citiususc/veryfasttree/archive/refs/tags/v4.0.4.tar.gz"
+ sha256 "27c779164f4fa0c75897a6e95b35f820a2a10e7c244b8923c575e0ea46f15f6b"
+ license "GPL-3.0-only"
+ head "https://github.com/citiususc/veryfasttree.git", branch: "master"
+
+ depends_on "boost" => :build
+ depends_on "cmake" => :build
+ depends_on "robin-map" => :build
+ depends_on "xxhash" => :build
+ depends_on "libomp"
+ uses_from_macos "bzip2"
+ uses_from_macos "zlib"
+
+ fails_with :gcc do
+ version "4" # fails with GCC 4.x and earlier
+ cause "Requires gcc >=5"
+ end
+
+ def install
+ system "cmake", "-S", ".", "-B", "build", "-DUSE_SHARED=ON", "-DUSE_NATIVE=OFF", *std_cmake_args
+ system "cmake", "--build", "build"
+ system "cmake", "--install", "build"
+ man1.install "man/VeryFastTree.1"
+ end
+
+ test do
+ (testpath/"test.fasta").write <<~EOS
+ >N3289
+ --RNRSCRRDNTNGQDLQAALAIFAAKVYVGVALQSVQVAAGIGKHPVYKHIPSKKYTGL
+ IIQELYLERLMAELADGLADAAPDVLLDIRGLMLALDAPAREKPIIL-LHLAASAGDALR
+ DKGQALRRELLPRLSGLGYAGLASGALTGDNATLMSARLIGLLVSATLLAL---------
+ -----------------
+ >N1763
+ ------ISKDTTEERFLEVDKLTFAPKSYAGTLQTKILSAVSVPAGTLYKDFPTTELALL
+ VTLEVYQATDTSGAQDGLAANARDILHVLVELFLALAGFAAQDPLHLLLPMAAALTSSLR
+ GRLRELRRELLAKGAAKVYTGLGAADATGDGVQLGAASLAMQLLGALLPCLRLDALLGSL
+ ASGLPEEKLASLAIFL-
+ >N2100
+ --RGRARPKQTTAESNLDATMGKFASQEYDGTMHRELGAASGVSLGTLYPDYPTWEMLIL
+ VTLESYLEPVVSALYAGLATDAPDILQR-LQLFLALLGFAMNHPGALLKSLAATLESELC
+ GKLKALTREVLEKLGASVFEGLPEPTLTGDEATPMSAALLMPLVQALLLCLLLQPLLAKH
+ SDDLPQIILAIYGIF--
+ >N774
+ --RGRRRTKTIVSEKDLSATMGRFAEQPYDGSLERNAATAASAPLNTMYGEFPTQDMFLL
+ MCLESYLIPTVLEADAE-ATEARDVLRRRLQLFLALLGFALNHPTQLLKMLATTLHKALR
+ GKIKDLQREVFARLTASAPAGLAAQFLTGDNATLMEAVLLMPFLAALLSCLILEPLDRKF
+ ADDFPAVILAIYAIF--
+ >N211
+ --KARGRTTIETGEKVLTGEMDRFAELQYDGSLQRDDTTGAAPPLGTLYGKLPTQDMFLL
+ FALESYLDPGTPELGQGLATKAPDGLRKRLHLFLGLLSFSLDHPVHLLKSLATT-HKAVR
+ GKVKDLQRDRFARLNASAPSGIAHPALTGDMATLMEAGLLMPLLAALLPILILAPLDKKY
+ AHDNHNDILAIYAIFLT
+ >N747
+ MGKARGITTAYAYSQVLIGRLGAHAALPYNGSLERKDVAALDAPTNKLYGQFPDGDSWLL
+ GALEAYIHTCPPELPQSLATQAPETIFTRLQPYLGLADFGLAHPGQLLKIEATKLQRAVR
+ GKFKELQKDAPAQLTANGITVVGQPNLTGDLGTLSEAVVLLQLVPSLLAAIIFKPIDKKY
+ GESAPVGILLPFSVW--
+ >N952
+ MGRGRARTTVEAGEKVLLGTMIRFAELPHDGSLQRNDSTALAAPLNTLYAKFPTQDMFLL
+ FALESYLHPSSPELGMGLATPAPDILRKRLALFLGLLSFSLEHPIQLLKSLATT-HKAVR
+ GPFKDLQKDVPAHLTATAPSGIAHPALTGDMATLMEAVLLMPLLAALLPVLVLKPLDKKF
+ ADDSPGDILAVYAIF--
+ >N3964
+ ------RTTVEDNDKVLNATMDRFADLPYDGSLQRDDTTAQTAPLGTLYGKFPTADMFLL
+ NALESYLDPKRPELGQGLATKAPDALRKKLQLFLGLLAFALSHPNRLLKSLATT-HKLVR
+ GKLKDQEREIFARLTASAPPAIAHPALTGDMATLMEAVLLMPLLAALLTVLPLEPLDKAY
+ EDDSPGDILAVYAVF--
+ >N3613
+ LGRGMARTTVEDLETVLNATMDRFAQLPYDGSLQRDDTTAASAPLGTLYGKSPTADMFLQ
+ FALESYLDPKRPELGQGLATKAPDALRKRLQLYLGLLSFALEHPTPLLQSLATTLHK-VR
+ GKLKNLQREVFARLTASAASGIAHPALTGDMATLMDAVLLMPLLAKLLTIIILEPLDKKY
+ SDNSPDDILAAYAAFLS
+ >N1689
+ MKLGRYRTVQTANEKYLETTAGRYADQNYAGTAQRGVQKANSVPLGTLYPDLPTRDMLLL
+ VSLESYLESITAGL-AGLATKAVTLFKVVLVLFLSVTGFALSHPGELFLSMAAVLQTEIR
+ GKLKNLTRELLQKLSASLTAGLAVPELTGDEASLGAGKILVPLLAALLVALLLSPLLGGF
+ SDDLPNMVLAIYAVTL-
+ >N3700
+ MKMGRPRTKQSTSQRYLDTAGARYDDQAYAGTLQRGLGNAKGVPLGTLYLDFPIRDMLLL
+ VTLESYLESIVAGLYA-GATKAPNLLQAVLILFLNVVGFALLHPGALLLTMAAVLHNELI
+ GKLKEFSRELLERLAASVITGLAVPELTGDEGTLAAGVILMALLAALLLYLLLDPLLSGF
+ SGDLPDSGLAVHA----
+ EOS
+ system bin/"VeryFastTree", "test.fasta"
+ end
+end