89 lines
1.9 KiB
Nix
89 lines
1.9 KiB
Nix
{ lib, stdenv
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, libpng
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, libuuid
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, zlib
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, bzip2
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, xz
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, openssl
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, curl
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, libmysqlclient
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, bash
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, fetchFromGitHub
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, which
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}:
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stdenv.mkDerivation rec {
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pname = "kent";
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version = "446";
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src = fetchFromGitHub {
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owner = "ucscGenomeBrowser";
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repo = pname;
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rev = "v${version}_base";
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hash = "sha256-d8gcoyMwINdHoD6xaNKt4rCKrKir99+i4KIzJ2YnxRw=";
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};
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buildInputs = [ libpng libuuid zlib bzip2 xz openssl curl libmysqlclient ];
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patchPhase = ''
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runHook prePatch
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substituteInPlace ./src/checkUmask.sh \
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--replace "/bin/bash" "${bash}/bin/bash"
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substituteInPlace ./src/hg/sqlEnvTest.sh \
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--replace "which mysql_config" "${which}/bin/which ${libmysqlclient}/bin/mysql_config"
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runHook postPatch
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'';
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buildPhase = ''
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runHook preBuild
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export MACHTYPE=$(uname -m)
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export CFLAGS="-fPIC"
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export MYSQLINC=$(mysql_config --include | sed -e 's/^-I//g')
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export MYSQLLIBS=$(mysql_config --libs)
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export HOME=$TMPDIR
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export DESTBINDIR=$HOME/bin
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mkdir -p $HOME/lib $HOME/bin/x86_64
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cd ./src
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chmod +x ./checkUmask.sh
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./checkUmask.sh
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make libs
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cd jkOwnLib
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make
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cp ../lib/x86_64/jkOwnLib.a $HOME/lib
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cp ../lib/x86_64/jkweb.a $HOME/lib
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cp -r ../inc $HOME/
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cd ../utils
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make
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runHook postBuild
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'';
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installPhase = ''
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runHook preInstall
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mkdir -p $out/bin $out/lib $out/inc
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cp $HOME/lib/jkOwnLib.a $out/lib
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cp $HOME/lib/jkweb.a $out/lib
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cp $HOME/bin/x86_64/* $out/bin
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cp -r $HOME/inc/* $out/inc/
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runHook postInstall
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'';
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meta = with lib; {
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description = "UCSC Genome Bioinformatics Group's suite of biological analysis tools, i.e. the kent utilities";
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homepage = "http://genome.ucsc.edu";
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changelog = "https://github.com/ucscGenomeBrowser/kent/releases/tag/v${version}_base";
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license = licenses.unfree;
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maintainers = with maintainers; [ scalavision ];
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platforms = platforms.linux;
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};
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}
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