Revised version submitted Nov 29

- Responded to JNeurosci reviews
- Now using doit to analyze, plot etc
- Many other improvements; see the diff

Author: tbekolay

.gitignore

@@ -1,19 +1,23 @@
 .DS_Store
+.doit.db
 /paper/auto
 *.aux
 *.bbl
 *.blg
 *.log
 *.out
+*.tdo
 /paper/jneurosci2013.pdf
-/paper/jneurosci2013.synctex.gz
+/paper/jneurosci2013-diff.pdf
 /paper/coverletter.pdf
-/paper/coverletter.synctex.gz
+/paper/rebuttal.pdf
 *.h5
 *.csv
+*.pkl
 *.pyc
 *.class
-*.svg
+/plots/*.svg
+/figures/*.svg
 *.nex
 *.mat
 *.eps

analyzed/README.md

@@ -0,0 +1,7 @@
+Analyzed data
+=============
+
+This directory contains the results of data analysis.
+These are cached to make the plotting process more iterative,
+and to make it possible to track when analyses
+need to be rerun.