A patch to LSC to make it compatible with python virtual_env

gistfile1.diff

diff -ru tmp/LSC_0.2.2/bin/FASTA2fa.py LSC_0.2.2/bin/FASTA2fa.py
--- tmp/LSC_0.2.2/bin/FASTA2fa.py  2012-08-13 23:21:52.000000000 -0700
+++ LSC_0.2.2/bin/FASTA2fa.py  2013-03-25 13:58:15.000000000 -0700
@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 
 import sys
 import os
diff -ru tmp/LSC_0.2.2/bin/RemoveBothTails.py LSC_0.2.2/bin/RemoveBothTails.py
--- tmp/LSC_0.2.2/bin/RemoveBothTails.py	2012-08-13 23:21:52.000000000 -0700
+++ LSC_0.2.2/bin/RemoveBothTails.py	2013-03-25 13:58:15.000000000 -0700
@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 
 import sys
 import os
diff -ru tmp/LSC_0.2.2/bin/compressFASTA.py LSC_0.2.2/bin/compressFASTA.py
--- tmp/LSC_0.2.2/bin/compressFASTA.py	2012-08-13 23:21:52.000000000 -0700
+++ LSC_0.2.2/bin/compressFASTA.py	2013-03-25 13:58:15.000000000 -0700
@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 
 import sys
 import os
diff -ru tmp/LSC_0.2.2/bin/convertNAV.py LSC_0.2.2/bin/convertNAV.py
--- tmp/LSC_0.2.2/bin/convertNAV.py	2012-08-13 23:24:44.000000000 -0700
+++ LSC_0.2.2/bin/convertNAV.py	2013-03-25 13:58:15.000000000 -0700
@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 
 import sys
 import os
diff -ru tmp/LSC_0.2.2/bin/correct_nonredundant.py LSC_0.2.2/bin/correct_nonredundant.py
--- tmp/LSC_0.2.2/bin/correct_nonredundant.py	2012-08-13 23:24:28.000000000 -0700
+++ LSC_0.2.2/bin/correct_nonredundant.py	2013-03-25 13:58:15.000000000 -0700
@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 
 import sys
 import os
diff -ru tmp/LSC_0.2.2/bin/merge_mapping_file.py LSC_0.2.2/bin/merge_mapping_file.py
--- tmp/LSC_0.2.2/bin/merge_mapping_file.py	2012-08-13 23:24:02.000000000 -0700
+++ LSC_0.2.2/bin/merge_mapping_file.py	2013-03-25 13:58:15.000000000 -0700
@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 
 import sys
 import os
diff -ru tmp/LSC_0.2.2/bin/poolchr.py LSC_0.2.2/bin/poolchr.py
--- tmp/LSC_0.2.2/bin/poolchr.py	2012-08-13 23:21:52.000000000 -0700
+++ LSC_0.2.2/bin/poolchr.py	2013-03-25 13:58:15.000000000 -0700
@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 
 import sys
 import os
diff -ru tmp/LSC_0.2.2/bin/runLSC.py LSC_0.2.2/bin/runLSC.py
--- tmp/LSC_0.2.2/bin/runLSC.py	2013-02-06 17:07:55.000000000 -0800
+++ LSC_0.2.2/bin/runLSC.py	2013-03-25 14:03:58.000000000 -0700
@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 import sys
 import struct
 import os
@@ -15,8 +15,8 @@
     ls=pathfilename.split('/')
     filename=ls[-1]
     path='/'.join(ls[0:-1])+'/'
-	if path == "/":
-	    path = "./"
+    if path == "/":
+        path = "./"
     return path, filename
 
 def Readcfgfile(cfg_filename):
diff -ru tmp/LSC_0.2.2/bin/uniqseq2fasta.py LSC_0.2.2/bin/uniqseq2fasta.py
--- tmp/LSC_0.2.2/bin/uniqseq2fasta.py	2012-08-13 23:21:52.000000000 -0700
+++ LSC_0.2.2/bin/uniqseq2fasta.py	2013-03-25 13:58:15.000000000 -0700
@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 
 import sys
 import os
diff -ru tmp/LSC_0.2.2/bin/writetmp.py LSC_0.2.2/bin/writetmp.py
--- tmp/LSC_0.2.2/bin/writetmp.py	2012-08-13 23:23:40.000000000 -0700
+++ LSC_0.2.2/bin/writetmp.py	2013-03-25 13:58:15.000000000 -0700
@@ -1,4 +1,4 @@
-#!/usr/bin/python
+#!/usr/bin/env python
 import sys
 import datetime
 import string