ngs_server 0.5 → 0.6

data/README.md

@@ -9,19 +9,19 @@
 2. run "gem install ngs_server" in the terminal
 
 ## usage
-      // in terminal
+      # in terminal
       ngs_server --help
       
-      // add data directories to be served
+      # add data directories to be served
       ngs_server add path-to-dir
       
-      // start server
+      # start server
       ngs_server start
       ngs_server start --port 3000
-      // daemonize
+      # daemonize
       ngs_server start -d
       
-      // stop server if daemonized
+      # stop server if daemonized
       ngs_server stop
       
 
@@ -40,3 +40,24 @@ see available data sources
 invoke file: genotypes.vcf.gz with coordinates 1073361 to 1238825 on chromosome 1
 
 * http://0.0.0.0:4569/json/vcf/genotypes.vcf.gz?segment=1&min=1073361&max=1238825
+
+
+## Example
+    # create data directory
+    mkdir example-data && cd example-data
+    
+    # download bam file and index
+    wget http://bioinformatics.bc.edu/marthlab/download/small.bam
+    wget http://bioinformatics.bc.edu/marthlab/download/small.bam.bai
+    
+    # add data directory to ngs_server to be served
+    cd ../
+    ngs_server add example-data/
+    
+    # start server
+    ngs_server start -p 4569
+    
+    # paste following url in browser
+    # to download region of bam as json in web browser
+    # http://0.0.0.0:4569/json/bam/example-data/small.bam?min=14596532&max=14699000&segment=22
+    

data/lib/ngs_server/version.rb

@@ -1,3 +1,3 @@
 module NgsServer
-  VERSION = "0.5"
+  VERSION = "0.6"
 end

data/lib/ngs_server.rb

@@ -7,6 +7,7 @@ require 'json'
 
 class MyNgsServer < Sinatra::Base
 
+  use Rack::Deflater
   set :server, 'thin'
 
   gempath = File.join(File.dirname(__FILE__), "../")

metadata

@@ -2,7 +2,7 @@
 name: ngs_server
 version: !ruby/object:Gem::Version 
   prerelease: 
-  version: "0.5"
+  version: "0.6"
 platform: ruby
 authors: 
 - Chase Miller
@@ -10,7 +10,7 @@ autorequire:
 bindir: bin
 cert_chain: []
 
-date: 2011-12-28 00:00:00 -05:00
+date: 2012-01-12 00:00:00 -05:00
 default_executable: 
 dependencies: 
 - !ruby/object:Gem::Dependency