From 15cbec79c94edd8a34b8b4c9d9f86e063938c376 Mon Sep 17 00:00:00 2001
From: BenLangmead <ben.langmead@gmail.com>
Date: Thu, 20 Dec 2012 19:44:50 -0500
Subject: [PATCH] Removed defunct project files, added README and renamed
 COPYING to LICENSE to be more GitHub-friendly.

---
 .project           | 6 ++++++
 COPYING => LICENSE | 0
 NEWS               | 3 ++-
 README             | 8 ++++++++
 4 files changed, 16 insertions(+), 1 deletion(-)
 rename COPYING => LICENSE (100%)
 create mode 100644 README

diff --git a/.project b/.project
index 33447759..38d0a9b8 100644
--- a/.project
+++ b/.project
@@ -5,7 +5,13 @@
 	<projects>
 	</projects>
 	<buildSpec>
+		<buildCommand>
+			<name>com.aptana.ide.core.unifiedBuilder</name>
+			<arguments>
+			</arguments>
+		</buildCommand>
 	</buildSpec>
 	<natures>
+		<nature>com.aptana.projects.webnature</nature>
 	</natures>
 </projectDescription>
diff --git a/COPYING b/LICENSE
similarity index 100%
rename from COPYING
rename to LICENSE
diff --git a/NEWS b/NEWS
index 791b2315..e8a7e241 100644
--- a/NEWS
+++ b/NEWS
@@ -4,7 +4,7 @@ Bowtie 2 NEWS
 Bowtie 2 is now available for download from the project website,
 http://bowtie-bio.sf.net/bowtie2.  2.0.0-beta1 is the first version released to
 the public and 2.0.5 is the latest version.  Bowtie 2 is licensed under
-the GPLv3 license.  See `COPYING' file for details.
+the GPLv3 license.  See `LICENSE' file for details.
 
 Reporting Issues
 ================
@@ -25,6 +25,7 @@ Version 2.0.5 - December 19, 2012
      that invalid index files don't linger.
    * Tokenizer no longer has limit of 10,000 tokens, which was a problem for
      users trying to index a very large number of FASTA files.
+   * Renamed COPYING to LICENSE and created a README to be GitHub-friendly.
 
 Version 2.0.4 - December 17, 2012
    * Fixed issue whereby --un, --al, --un-conc and --al-conc options would
diff --git a/README b/README
new file mode 100644
index 00000000..37c370ad
--- /dev/null
+++ b/README
@@ -0,0 +1,8 @@
+Bowtie 2: http://bowtie-bio.sf.net/bowtie2
+
+ - See AUTHORS for information about who wrote Bowtie 2 and its various
+   components.
+ - See LICENSE for license information.
+ - See MANUAL for detailed information on how to use Bowtie 2.
+ - See NEWS for information about changes in this and previous versions
+   of Bowtie 2.