binaries/src/compilebin.sh

   1 #!/bin/bash
   2
   3 echo ""
   4 echo "Compiling Clustalw..."
   5 cd clustalw
   6 chmod +x ./configure
   7 ./configure
   8 make clean
   9 make
  10 chmod +x src/clustalw2
  11 cd ..
  12
  13 echo "Compiling Clustal Omega..."
  14 cd clustalo
  15 chmod +x ./configure
  16 ./configure
  17 make clean
  18 make
  19 chmod +x src/clustalo
  20 cd ..
  21
  22 echo "Compiling Mafft..."
  23 cd mafft/core
  24 make clean
  25 make
  26 cd ../..
  27
  28 echo "Compiling Mafft dependency fasta34..."
  29 cd fasta34
  30 rm *.o
  31 make
  32 chmod +x fasta34
  33 cd ..
  34
  35
  36 echo "Compiling Muscle..."
  37 cd muscle
  38 rm -f *.o muscle
  39 make
  40 cd ..
  41
  42 echo "Compiling Probcons..."
  43 cd probcons
  44 make clean
  45 make
  46 chmod +x probcons
  47 cd ..
  48
  49 echo "Compiling T-Coffee..."
  50 cd tcoffee
  51 chmod +x install
  52 ./install clean
  53 ./install t_coffee -force
  54 chmod +x t_coffee_source/t_coffee
  55 export PATH=$PATH:$PWD/t_coffee_source
  56 cd ..
  57
  58 echo "Compiling DisEMBL..."
  59 cd disembl
  60 gcc -O3 disembl.c -o disembl
  61 echo "DONE"
  62 chmod +x disembl DisEMBL.py
  63
  64 echo "Compiling DisEMBL dependancy Tisean... "
  65 cd Tisean_3.0.1
  66 chmod +x ./configure
  67 ./configure
  68 make
  69 cp source_c/sav_gol ../
  70 cd ..
  71 echo "DONE"
  72 chmod +x sav_gol
  73 cd ..
  74
  75 echo "Setting up GlobPlot ..."
  76 cp disembl/sav_gol globplot/sav_gol
  77 cd globplot
  78 chmod +x GlobPlot.py
  79 echo "DONE"
  80 cd ..
  81
  82 echo "Compiling IUPred..."
  83 cd iupred
  84 make clean
  85 make
  86 echo "DONE"
  87 cd ..
  88
  89 echo "Compiling Vienna ..."
  90 cd ViennaRNA
  91 chmod +x ./configure
  92 ./configure
  93 make clean
  94 make
  95 echo "DONE"
  96 cd ..
  97
  98 echo "Compiling GLProbs ..."
  99 cd GLProbs-1.0
 100 make clean
 101 make
 102 echo "DONE"
 103 cd ..
 104
 105
 106 echo "Compiling MSAProbs-0.9.7 ..."
 107 cd MSAProbs-0.9.7/MSAProbs
 108 make clean
 109 make
 110 echo "DONE"
 111 cd ../..
 112