JWS-117 Compiled all tools with ./compilebin.sh and some were missing related files.

[jabaws.git] / binaries / src / compilebin.sh

diff --git a/binaries/src/compilebin.sh b/binaries/src/compilebin.sh
index 3cc20b2..b0e478b 100644 (file)
--- a/binaries/src/compilebin.sh
+++ b/binaries/src/compilebin.sh
@@ -10,16 +10,20 @@ make
 chmod +x src/clustalw2 
 cd ..
 
+echo "Compiling Clustal Omega..."
+cd clustalo
+chmod +x ./configure 
+./configure
+make clean
+make
+chmod +x src/clustalo
+cd ..
+
 echo "Compiling Mafft..."
 cd mafft/core
 make clean
 make
-chmod +x mafft 
 cd ../..
-cd mafft/binaries
-chmod +x *
-cd ../..
-
 
 echo "Compiling Mafft dependency fasta34..."
 cd fasta34
@@ -31,9 +35,8 @@ cd ..
 
 echo "Compiling Muscle..."
 cd muscle
-rm -f *.o
+rm -f *.o muscle
 make
-chmod +x muscle
 cd ..
 
 echo "Compiling Probcons..."
@@ -49,6 +52,7 @@ chmod +x install
 ./install clean
 ./install t_coffee -force
 chmod +x t_coffee_source/t_coffee
+export PATH=$PATH:$PWD/t_coffee_source
 cd ..
 
 echo "Compiling DisEMBL..."
@@ -59,6 +63,7 @@ chmod +x disembl DisEMBL.py
 
 echo "Compiling DisEMBL dependancy Tisean... "
 cd Tisean_3.0.1
+chmod +x ./configure
 ./configure
 make
 cp source_c/sav_gol ../
@@ -67,5 +72,41 @@ echo "DONE"
 chmod +x sav_gol
 cd ..
 
+echo "Setting up GlobPlot ..."
+cp disembl/sav_gol globplot/sav_gol
+cd globplot
+chmod +x GlobPlot.py
+echo "DONE"
+cd ..
+
+echo "Compiling IUPred..."
+cd iupred
+make clean
+make 
+echo "DONE"
+cd ..
 
+echo "Compiling Vienna ..."
+cd ViennaRNA
+chmod +x ./configure
+./configure
+make clean
+make
+echo "DONE"
+cd ..
+
+echo "Compiling GLProbs ..."
+cd GLProbs-1.0
+make clean
+make
+echo "DONE"
+cd ..
+
+
+echo "Compiling MSAProbs-0.9.7 ..."
+cd MSAProbs-0.9.7/MSAProbs
+make clean
+make
+echo "DONE"
+cd ../..