Last fixes for new version 0.1.1b1

VERSION

-0.1.0b3
\ No newline at end of file
+0.1.1b1
\ No newline at end of file

python/orgasm/command/compact.py

@@ -8,7 +8,7 @@ import orgasm.samples
 
 from orgasm import getIndex, getSeeds
 from orgasm.tango import cutLowCoverage, cutSNPs,\
-    estimateDeadBrancheLength, coverageEstimate, estimateFragmentLength,\
+    estimateDeadBrancheLength, estimateFragmentLength,\
     genesincontig, scaffold, fillGaps, dumpGraph, restoreGraph
 
 import sys

python/orgasm/command/seeds.py

@@ -8,7 +8,7 @@ import orgasm.samples
 
 from orgasm import getIndex, getSeeds, getAdapters
 from orgasm.tango import matchtoseed, cutLowCoverage, cutSNPs,\
-    estimateDeadBrancheLength, coverageEstimate, estimateFragmentLength,\
+    estimateDeadBrancheLength, estimateFragmentLength,\
     genesincontig, scaffold, fillGaps, dumpGraph, restoreGraph
 
 from orgasm.assembler import Assembler,tango

python/orgasm/tango.py

@@ -400,7 +400,8 @@ def genesincontig(cg,index,matches):
         eg = [vread(i) for i in path]
         g = sum(i for i in eg if i > 0)
         if g > 0:
-            color="#00FF00"
+            g=max(min(math.ceil(math.log10(g)),4)*64-1,0)
+            color="#00%02X%02X" % (g,255-g)
         else:
             color="#0000FF"
         graphics = ea.get('graphics',{})

python/orgasm/version.py

 major = 0
 minor = '1'
-serial= '0b3'
+serial= '1b1'
 
 version = "%2d.%s.%s" % (major,minor,serial)