summary added in comparison

Former-commit-id: 9a267727234dc9026ce3a54f543e62d8f609945a
Former-commit-id: 556a34a214aea8824f34d4a2c117f09527d88146

detectors/cds/tools/compare/README.txt

@@ -0,0 +1,23 @@
+#
+# Compare CDS prediction to Reality
+#
+
+go_compare.sh reference predicted
+
+  reference: Gbk/Embl file
+  predicted: Gbk/Embl file
+
+  output on stdout 
+
+#
+# Summarize comparisons
+#
+  
+go_summarize.sh *.cmp
+
+  *.cmp comparison files (output of go_compare.sh)
+  
+  output :
+    compare.txt : space delimited format summary
+    compare.pdf : graphics summary
+    

detectors/cds/tools/compare/go_compare.sh

@@ -3,7 +3,7 @@
 # compare CDS annotation in reference file to predicted file
 # annotation file are in Genbank/Embl format
 #
-# usage: go_compare reference predicted
+# usage: go_compare.sh reference predicted
 #
 # output on stdout
 #

detectors/cds/tools/compare/go_summarize.sh

@@ -0,0 +1,24 @@
+#
+# summarize comparison
+#
+# run after go_compare.sh
+#
+# usage: go_summarize.sh *.cmp
+#
+#
+unsetenv ORG_SOURCED
+
+setenv ORG_HOME `dirname $0`/../../../..
+source $ORG_HOME/scripts/csh_init.sh
+
+NeedArg 1
+
+egrep '^#|^MATCH' $* | awk -f $LIB_DIR/summary.cmp.awk > compare.txt
+
+$LIB_DIR/summarize_cmp.r 
+
+
+
+exit 0
+
+