ngs_server 0.3 → 0.4

data/ext/bamtools/src/toolkit/bamtools_convert.cpp

@@ -406,7 +406,7 @@ void ConvertTool::ConvertToolPrivate::PrintJson(const BamAlignment& a) {
     }
     
     // write alignment's source BAM file
-    m_out << "\"filename\":" << a.Filename << ",";
+    m_out << "\"filename\":\"" << a.Filename << "\",";
 
     // write tag data
     const char* tagData = a.TagData.c_str();
@@ -487,7 +487,7 @@ void ConvertTool::ConvertToolPrivate::PrintJson(const BamAlignment& a) {
         m_out << "}";
     }
 
-    m_out << "}" << endl;
+    m_out << "}," << endl;
 }
 
 // print BamAlignment in SAM format

data/lib/ngs_server/version.rb

@@ -1,3 +1,3 @@
 module NgsServer
-  VERSION = "0.3"
+  VERSION = "0.4"
 end

data/lib/ngs_server.rb

@@ -1,6 +1,7 @@
 require 'rubygems'
 require 'sinatra'
 require 'sinatra/base'
+require 'json'
 
 
 class MyNgsServer < Sinatra::Base
@@ -44,8 +45,8 @@ class MyNgsServer < Sinatra::Base
     response['Access-Control-Allow-Origin'] = '*';
 
     # invoke with eg: base_url/json/vcf/file=ALL.2of4intersection.20100804.sites.vcf.gz?min=6992179&max=6992190&segment=1
-    list = `find -L #{datapath} -name '*#{params['extension']}' | awk -F#{datapath}/ '{print $2}'`
-    list
+    list  = `find -L #{datapath} -name '*#{params['extension']}' | awk -F#{datapath}/ '{print $2}'`
+    list.split("\n").to_json
 
   end
 

metadata

@@ -2,7 +2,7 @@
 name: ngs_server
 version: !ruby/object:Gem::Version 
   prerelease: 
-  version: "0.3"
+  version: "0.4"
 platform: ruby
 authors: 
 - Chase Miller
@@ -10,7 +10,7 @@ autorequire:
 bindir: bin
 cert_chain: []
 
-date: 2011-12-19 00:00:00 -05:00
+date: 2011-12-20 00:00:00 -05:00
 default_executable: 
 dependencies: 
 - !ruby/object:Gem::Dependency