Change to wiki page

Bohyun · andreasprlic · commit 754da6c70335 · 2016-04-09T10:57:46.000-07:00
diff --git a/_wikis/BioJava:PhyloSOC07.md b/_wikis/BioJava:PhyloSOC07.md
@@ -257,8 +257,7 @@ Day 2: PHYLIP installation & learning how to use it - done
 
 Day 3: Practicing PHYLIP with MP/ML/Bootstrap methods - done
 
-Day 4: Developing the wrapper for PHYLIP MP method (1) - parser (still
-working as 30th. Jul.)
+Day 4: Developing the wrapper for PHYLIP MP method (1) - parser (done)
 
 Day 5: Developing the wrapper for PHYLIP MP method (2) - builing objects
 from the output (to be worked out)
@@ -281,20 +280,29 @@ from the output
 
 Day 5: Debugging
 
-1. aligning sequences
+**Part V : Phylogeny supporting method**
 
-2. define possible tree types
+*Week 12 Bootstrap method*
 
-3. for each tree, calculate
+------------------------------------------------------------------------
 
-`  L = multiply Pr(D|T) for every sites`  
-`  Pr(D|T) = (prob. for the tree from certain ancestral base)`
+*Week 11 Maxumum Likelihood Method*
 
-4. find a tree with maximum likelihood
+Day 1: Developing the wrapper for PHYLIP MP method (2) - execute()
+method <debugging>
 
-**Part V : Phylogeny supporting method**
+Day 2: Developing the wrapper for PHYLIP MP method (2) - execute()
+method <debugging>
 
-*Week 12 Bootstrap method*
+Day 3: Developing the wrapper for PHYLIP MP method (3) - builing objects
+from the output
+
+Day 4: Developing the wrapper for PHYLIP ML method (1) - parser
+
+Day 5: Developing the wrapper for PHYLIP ML method (2) - builing objects
+from the output
+
+Day 6: Debugging
 
 1. replicate alignments
 
diff --git a/_wikis/BioJava:PhyloSOC07.mediawiki b/_wikis/BioJava:PhyloSOC07.mediawiki
@@ -260,7 +260,7 @@ Day 2: PHYLIP installation & learning how to use it  - done
 
 Day 3: Practicing PHYLIP with MP/ML/Bootstrap methods - done
 
-Day 4: Developing the wrapper for PHYLIP MP method (1) - parser (still working as 30th. Jul.)
+Day 4: Developing the wrapper for PHYLIP MP method (1) - parser (done)
 
 Day 5: Developing the wrapper for PHYLIP MP method (2) - builing objects from the output (to be worked out)
 
@@ -281,20 +281,26 @@ Day 4: Developing the wrapper for PHYLIP ML method (2) - builing objects from th
 Day 5: Debugging
 
 
-1. aligning sequences
+'''Part V : Phylogeny supporting method'''
 
-2. define possible tree types
+''Week 12 Bootstrap method''
 
-3. for each tree, calculate 
-   L = multiply Pr(D|T) for every sites
-   Pr(D|T) = (prob. for the tree from certain ancestral base)
+----
 
-4. find a tree with maximum likelihood
+''Week 11  Maxumum Likelihood Method''
 
+Day 1: Developing the wrapper for PHYLIP MP method (2) - execute() method <debugging>
 
-'''Part V : Phylogeny supporting method'''
+Day 2: Developing the wrapper for PHYLIP MP method (2) - execute() method <debugging>
+
+Day 3: Developing the wrapper for PHYLIP MP method (3) - builing objects from the output
+
+Day 4: Developing the wrapper for PHYLIP ML method (1) - parser
+
+Day 5: Developing the wrapper for PHYLIP ML method (2) - builing objects from the output
+
+Day 6: Debugging
 
-''Week 12 Bootstrap method''
 
 1. replicate alignments
 
