Update README.txt name to .md

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README.md

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+# ORG.Annot - Organelle Annotator
+
+**version 1.0.0 - Sept 2015**
+
+## -1- Installation
+
+# First check if binaries have been already compiled for your port
+
+```bash
+scripts/check_port.sh
+```
+
+if it prints :
+
+```
+checking port compilation OK
+```
+
+then everything is fine
+
+if it prints :
+
+```
+port not yet compiled
+```
+
+then, you should first compile binaries for your port
+please consult: src/README.txt for details
+
+if it prints something like
+
+```
+XXX version A.B.C (should be >= X.Y.Z)
+please consider installing XXX from src/_unix_tools_
+```
+
+then, you should first compile some unix tools binaries for your port
+please consult: `src/README.txt` for details
+
+## -2- Distribution organisation
+
+
+- config    :  config file for (re)compiling tools
+- data      :  internal data files (e.g. ChloroDB)
+- detectors :  features specific detector scripts
+- ports     :  binaries for various ports
+- scripts   :  main scripts directory
+- src       :  sources for (re)compiling tools
+
+## -3- Usage
+
+
+> note: all scripts are located in scripts, so you may add
+>       this directory in your path
+>       e.g. using csh 
+>       set path = ($path <ROOTDIR>/scripts)
+
+@TODO : scripts description
+
+test