69 lines
2 KiB
Nix
69 lines
2 KiB
Nix
args: with args;
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# NOTE: This package does not build on 64-bit systems. Because of some faulty
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# int->pointer arithmatic. The build scripts are abnormal - but it appears to
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# work.
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stdenv.mkDerivation {
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name = "arb-2007-Dec-07";
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src = fetchurl {
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url = http://download.arb-home.de/release/2007_12_07/arbsrc.tgz;
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sha256 = "04l7qj0wigg1h56a9d70hxhdr343v3dg5dhqrc7fahc1v4h8f1rd";
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};
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patches = [ ./makefile.patch ];
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buildInputs = [glew mesa libpng x11 libXpm lesstif lynx freeglut libtiff rxp sablotron libXaw perl jdk ];
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unpackPhase = ''
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tar xzf $src
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'';
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buildPhase = ''
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echo `make` # avoids error signal
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export ARBHOME=`pwd`
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export PATH=$ARBHOME/bin:$PATH
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make all
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'';
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installPhase = ''
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datadir=/nix/var/lib/arb
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ensureDir $out/lib
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# link out shared location
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ensureDir $datadir/lib/pts
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chmod a+rwx $datadir/lib/pts
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# cp -vau lib/pts $datadir/lib
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rm -vrf lib/pts
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ln -vs $datadir/lib/pts $out/lib/pts
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# link out shared location
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ensureDir $datadir/lib/nas
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cp -vau lib/nas $datadir/lib
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rm -vrf lib/nas
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ln -vs $datadir/lib/nas $out/lib/nas
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# bulk copy
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cp -vau * $out
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# replace arb script
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mv $out/bin/arb $out/bin/arb.orig
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cat > $out/bin/arb << ARB
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#!/bin/sh
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echo Starting Nix compiled arb from $out
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echo Shared databases are located in $datadir
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export ARBHOME=$out
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export LD_LIBRARY=$ARBHOME/lib
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$out/bin/arb_ntree $*
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ARB
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chmod +x $out/bin/arb
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'';
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meta = {
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description = "ARB software for sequence database handling and analysis";
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longDescription = ''The ARB software is a graphically oriented package comprising various tools for sequence database handling and data analysis. A central database of processed (aligned) sequences and any type of additional data linked to the respective sequence entries is structured according to phylogeny or other user defined criteria'';
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license = "non-free";
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pkgMaintainer = "Pjotr Prins";
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homepage = http://www.arb-home.de/;
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};
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}
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