X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=binaries%2Fsrc%2Fcompilebin.sh;h=441cdb0bde270e98701578498b88ca6abe33ef1c;hb=9ff87a1fc3251a6fb836a8e0e0648293e6bb731b;hp=cd3b63a89468b1e2e1ac7b0ff961c277b86577d9;hpb=ecb4bc6237a7407063f45e3044353e73a3bd1829;p=jabaws.git

diff --git a/binaries/src/compilebin.sh b/binaries/src/compilebin.sh
index cd3b63a..441cdb0 100644
--- a/binaries/src/compilebin.sh
+++ b/binaries/src/compilebin.sh
@@ -10,16 +10,19 @@ make
 chmod +x src/clustalw2 
 cd ..
 
+echo "Compiling Clustal Omega..."
+cd clustalo
+make clean
+chmod +x ./configure 
+./configure
+make
+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 +34,8 @@ cd ..
 
 echo "Compiling Muscle..."
 cd muscle
-rm -f *.o
+rm -f *.o muscle
 make
-chmod +x muscle
 cd ..
 
 echo "Compiling Probcons..."
@@ -59,6 +61,7 @@ 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 ../
@@ -67,11 +70,17 @@ echo "DONE"
 chmod +x sav_gol
 cd ..
 
-# TODO copy sav_gol other from disembl
-echo "Compiling GlobPlot..."
+echo "Setting up GlobPlot ..."
+cp disembl/sav_gol globplot/sav_gol
 cd globplot
-echo "DONE"
-# TODO deal with the links
 chmod +x GlobPlot.py
+echo "DONE"
+cd ..
+
+echo "Compiling IUPred..."
+cd iupred
+make clean
+make 
+echo "DONE"
 cd ..