Changes between Initial Version and Version 1 of MussaPrototypeCommandline

Timestamp:

03/17/2006 02:26:28 PM (20 years ago)

Author:

king

Comment:

--

MussaPrototypeCommandline

@@ +1 @@
+== Mussa Prototype Commandline ==
+
+{{{
+Mussa is a command line run python script. The first argument determines the
+ run mode the user wants.
+
+prompt> mussa [run mode] [species number] [other args]
+
+The remaining arguments depend on the run mode:
+
+    * 'f' - full analysis, seqcomp, n-way comparisons, and displays
+      (does not save nway results, seqcomp analyses kept in datadir)
+
+prompt> mussa f [species number] [config file] [window size] [hard threshold]
+
+    * 's' - seqcomp batch mode only - runs all the seqcomp analyses
+
+prompt> mussa s [species number] [config file] [window size] [hard threshold]
+
+    * 'n' - n-way comparison only, saves results to file and does not display
+
+prompt> mussa n [species number] [datadir]
+
+    * 'v' - loads n-way comparison, displays results graphically
+      (must have used option 'n' previously)
+
+prompt> mussa v [species number] [datadir]
+
+    * 'nv' - does n-way comparison and displays
+      (does not save n-way comparisons, 'nv' must be used to view again)
+
+prompt> mussa nv [species number] [datadir]
+
+Future version will have GUI to manage what mode user wants (ie selection screen, 
+the subselections for specifics in terms of files to analyze, load/save, etc - 
+all the things specified by the command line args) 
+}}}