update amazon instructions

ngs-docs · May 7, 2015 · 59c3b49 · 59c3b49
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Showing 13 changed files with 49 additions and 19 deletions.
diff --git a/Makefile b/Makefile
@@ -41,7 +41,7 @@ help:
 	@echo "  doctest    to run all doctests embedded in the documentation (if enabled)"
 
 clean:
-	-rm -rf $(BUILDDIR)/*
+	-rm -rf html/
 
 html:
 	$(SPHINXBUILD) -b html $(ALLSPHINXOPTS) $(BUILDDIR)/html

diff --git a/amazon/enable-http.rst b/amazon/enable-http.rst
@@ -0,0 +1,26 @@
+Enabling HTTP (Web) access to your EC2 server
+=============================================
+
+By default, you are only allowed to SSH into your EC2 server - this
+is a security measure that prevents Evil Canadian Hackers from taking
+over your rental computer.
+
+For certain purposes - running a BLAST server, for example - you will need
+to enable HTTP. To do this, locate the security group/security settings
+for your Amazon instance:
+
+.. image:: images/ec2-security-1.png
+   :width: 80%
+
+Once there, click on "inbound" rules and "edit" them:
+
+.. image:: images/ec2-security-2.png
+   :width: 80%
+
+'Add rule', 'http', with default settings, and then click 'save'.
+
+.. image:: images/ec2-security-3.png
+   :width: 80%
+
+Voila - you will now be able to access your computer with HTTP as well as
+SSH!
diff --git a/amazon/images/ec2-security-1.png b/amazon/images/ec2-security-1.png
diff --git a/amazon/images/ec2-security-2.png b/amazon/images/ec2-security-2.png
diff --git a/amazon/images/ec2-security-3.png b/amazon/images/ec2-security-3.png
diff --git a/amazon/images/ec2-security.png b/amazon/images/ec2-security.png
diff --git a/amazon/images/ec2-terminate-2.png b/amazon/images/ec2-terminate-2.png
diff --git a/amazon/images/ec2-terminate.png b/amazon/images/ec2-terminate.png
diff --git a/amazon/images/win-putty-3.png b/amazon/images/win-putty-3.png
diff --git a/amazon/old.tar.gz b/amazon/old.tar.gz
diff --git a/amazon/security-rules.rst b/amazon/security-rules.rst
diff --git a/amazon/terminate-instance.rst b/amazon/terminate-instance.rst
@@ -0,0 +1,18 @@
+Terminating your instance
+=========================
+
+Be sure to terminate your instance(s) after transferring off any data
+that you want to keep!
+
+To terminate your instance, select the instance you want to terminate,
+and then go to the 'Actions' menu and select 'Instance actions', 'terminate':
+
+.. image:: images/ec2-terminate.png
+   :width: 80%
+
+Wait a minute or two to be sure that the instance state changes to
+"terminated":
+
+.. image:: images/ec2-terminate-2.png
+   :width: 80%
+
diff --git a/n-blast.rst b/n-blast.rst
@@ -2,7 +2,6 @@ BLASTing your assembled data
 ============================
 
 First, install a few prerequisites::
-
    
    sudo apt-get -y install lighttpd blast2 git-core zlib1g-dev
 
@@ -38,8 +37,10 @@ Now, copy in your newly created transcriptome::
    python index-db.py db/db.fa
 
 You can now access your BLAST server at http://<amazon machine
-name>/blastkit/.  Note that you will need to enable HTTP access on
-your Amazon firewall settings.
+name>/blastkit/.
+
+Note that you will need to enable HTTP access on
+your Amazon firewall settings; see :doc:`../amazon/enable-http`.
 
 If you want to use something that will get you results with the test
 data set, try BLASTing `zebrafish lethal giant larvae homolog