diff --git a/Makefile b/Makefile
index 6c5b4a1..5ac6182 100644
--- a/Makefile
+++ b/Makefile
@@ -25,7 +25,7 @@
 include version
 include make.config
 
-.PHONY: default clean veryclean archive configure 
+.PHONY: default clean veryclean archive 
 
 default: make.config
 	cd src && $(MAKE)
@@ -34,7 +34,6 @@ clean:
 	- bash -c "[[ -f lib/libezfio.a ]] && rm $$PWD/lib/*"
 	- bash -c "[[ -f Python/ezfio.py ]] && rm $$PWD/Python/*"
 	- bash -c "[[ -f Ocaml/ezfio.ml ]] && rm $$PWD/Ocaml/*"
-	- bash -c "[[ -f Bash/ezfio.sh ]] && rm $$PWD/Bash/*"
 	- $(MAKE) -C $$PWD/src veryclean
 
 archive: distclean
diff --git a/build.ninja b/build.ninja
index 719f5ba..bafb5d1 100644
--- a/build.ninja
+++ b/build.ninja
@@ -1,16 +1,16 @@
 include version
 
 rule build_generated_ninja
-   command = python $in ninja
+   command = python configure.py
    description = Creating generated.ninja
-   generator = 1
 
 rule run_ninja
-   command = bash -c 'source .make.config.sh ; exec bash -c "$$NINJA -f $in"'
+   command = bash -c 'source .make.config.sh ; $$NINJA -f $in'
    description = Building Fortran library
+   pool = console
 
 rule build_archive
-   command = git archive --format=tar HEAD > EZFIO.${version}.tar && mkdir -p EZFIO && cd EZFIO && tar -xvf ../EZFIO.${version}.tar && cd .. && rm EZFIO.${version}.tar && tar -zcvf EZFIO.${version}.tar.gz EZFIO && rm -rf EZFIO
+   command = git archive --format=tar HEAD > EZFIO.${VERSION}.tar && mkdir -p EZFIO && cd EZFIO && tar -xvf ../EZFIO.${VERSION}.tar && cd .. && rm EZFIO.${VERSION}.tar && tar -zcvf EZFIO.${VERSION}.tar.gz EZFIO && rm -rf EZFIO
    description = Building archive
 
 rule clean_all
@@ -18,9 +18,10 @@ rule clean_all
    description = Cleaning directory
 
 
-build make.config .make.config.sh generated.ninja: build_generated_ninja configure.py
+build make.config .make.config.sh generated.ninja impossible_target: build_generated_ninja
 
 build all: run_ninja generated.ninja
+
 default all
 
 build EZFIO.${VERSION}.tar.gz: build_archive 
diff --git a/configure.py b/configure.py
index 8069e58..86e8773 100755
--- a/configure.py
+++ b/configure.py
@@ -2,6 +2,20 @@
 
 import os,sys
 
+def write_if_different(filename,s):
+  try:
+    with open(filename, "r") as f:
+        ref = f.read()
+  except:
+    ref = ""
+
+  if ref == s:
+      return
+  else:
+      with open(filename, "w") as f:
+        f.write(s)
+    
+  
 with open("version",'r') as f:
     version = f.read().strip().rsplit('=')[1]
 
@@ -13,22 +27,37 @@ d_default = {
   "RANLIB" : 'ranlib',
   "AR" : 'ar',
   "NINJA" : 'ninja',
-  "CONFIG_FILES" : 
-     ' '.join([ os.path.join("config",x) for x in os.listdir('config') if x != '.empty'])
 }
 
+CONFIG_FILES=' '.join([ os.path.join("config",x) for x in os.listdir('config') if x != '.empty'])
+
 def create_make_config():
 
+    try:
+        d = read_make_config()
+    except:
+        d = {}
+
     fmt = { "make.config" :'{0}={1}\n' , 
-            ".make.config.sh": '{0}="{1}"\n' }
+            ".make.config.sh": 'export {0}="{1}"\n' }
+    
+    for var,default in d_default.iteritems():
+        if var not in d:
+            try:
+                cur = os.environ[var] 
+            except KeyError:
+                cur = default
+            d[var]=cur
+        
     for filename in fmt:
-        with open(filename,'w') as out:
-            for var,default in d_default.iteritems():
-                try:
-                    cur = os.environ[var] 
-                except KeyError:
-                    cur = default
-                out.write(fmt[filename].format(var,cur))
+        out = ""
+        for var,default in d_default.iteritems():
+            cur = d[var]
+            out += fmt[filename].format(var,cur)
+        write_if_different(filename,out)
+    
+    return d
+
 
 
 def read_make_config():
@@ -47,9 +76,7 @@ def read_make_config():
 
 def create_build_ninja():
     
-    create_make_config()
-
-    d = read_make_config()
+    d=create_make_config()
 
     d["irpf90_files"] = [ "src/{0}".format(x) for x in
         """
@@ -71,20 +98,13 @@ def create_build_ninja():
         
 
     template = """
-rule build_archive
-   command = git archive --format=tar HEAD > EZFIO.{VERSION}.tar && mkdir -p EZFIO && cd EZFIO && tar -xvf ../EZFIO.{VERSION}.tar && cd .. && rm EZFIO.{VERSION}.tar && tar -zcvf EZFIO.{VERSION}.tar.gz EZFIO && rm -rf EZFIO
-   description = Building archive
-
-rule build_make_config
-   command = python configure.py
-   description = Creating make.config
 
 rule compile_irpf90
-   command = cd src ; {IRPF90} --ninja
+   command = bash -c 'source .make.config.sh ; cd src ; {IRPF90} --ninja'
    description = Compiling IRPF90
 
 rule build_irpf90_a
-   command = {NINJA} -C src/IRPF90_temp
+   command = {NINJA} -C src/IRPF90_temp && touch $out
    description = Compiling Fortran files
 
 rule build_libezfio_a
@@ -103,9 +123,6 @@ rule build_ocaml
    command = cd src ; python create_ocaml.py
    description = Building Ocaml module
 
-
-build make.config: build_make_config | configure.py 
-
 build {irpf90_files}: compile_irpf90 | {irpf90_sources} {CONFIG_FILES}
 
 build src/IRPF90_temp/irpf90.a: build_irpf90_a | {irpf90_files}
@@ -119,9 +136,8 @@ build Python/ezfio.py: build_python | lib/libezfio.a
 build Ocaml/ezfio.ml: build_ocaml | lib/libezfio.a
 
 """
-
-    with open('generated.ninja','w') as f:
-        f.write(template.format(**d))
+    d["CONFIG_FILES"] = CONFIG_FILES
+    write_if_different('generated.ninja',template.format(**d))
 
 
 if __name__ == '__main__':
diff --git a/version b/version
index 0743293..f406e04 100644
--- a/version
+++ b/version
@@ -1 +1 @@
-VERSION=1.3.0
+VERSION=1.3.1