ms-msrun 0.3.2 → 0.3.3

data/History

@@ -1,3 +1,6 @@
+== 0.3.3 / 2011-01-27
+* bug fixes on plms1
+
 == 0.3.1 / 2011-01-26
 * (since 0.1.1): added support for mzML and parsing zlib compressed spectra
 * added read/write for the .plms1 filetype, an ad hoc binary filetype for ms1 data

data/VERSION

@@ -1 +1 @@
-0.3.2
+0.3.3

data/lib/ms/msrun/plms1.rb

@@ -14,7 +14,7 @@ module Ms
 
       unless scans
         scans = []
-        ms.each(:ms_level => 1, :precursor => false) do |scan|
+        self.each(:ms_level => 1, :precursor => false) do |scan|
           scans << scan
         end
       end
@@ -31,7 +31,7 @@ module Ms
       end
       plms1 = Plms1.new
       plms1.times = times
-      plms1.scan_numbers = times
+      plms1.scan_numbers = scan_numbers
       plms1.spectra = spectra
       plms1
     end

data/spec/ms/msrun/plms1_spec.rb

@@ -38,4 +38,17 @@ describe 'plms1 - Prince Lab MS 1 specification' do
     end
   end
 
+  it 'converts an Ms::Msrun object into a plms1 object' do
+    plms1_obj = Ms::Msrun.open(TESTFILES + '/opd1/000.v2.1.mzXML') do |ms|
+      ms.to_plms1
+    end
+    ok plms1_obj.is_a?(Ms::Msrun::Plms1)
+    plms1_obj.scan_numbers.enums [1, 5, 9, 13, 17]
+    plms1_obj.times.enums [0.44, 5.15, 10.69, 16.4, 22.37]
+    # below is just frozen, not checked for accuracy but it does look
+    # reasonable
+    plms1_obj.spectra.first.first[0,4].enums [300.50518798828125, 301.43011474609375, 302.09600830078125, 302.87347412109375]
+    plms1_obj.spectra.last.last[0,4].enums [7.0, 77503.0, 109867.0, 155067.0]
+  end
+
 end

metadata

@@ -5,8 +5,8 @@ version: !ruby/object:Gem::Version
   segments: 
   - 0
   - 3
-  - 2
-  version: 0.3.2
+  - 3
+  version: 0.3.3
 platform: ruby
 authors: 
 - John T. Prince
@@ -14,7 +14,7 @@ autorequire:
 bindir: bin
 cert_chain: []
 
-date: 2011-01-26 00:00:00 -07:00
+date: 2011-01-27 00:00:00 -07:00
 default_executable: 
 dependencies: 
 - !ruby/object:Gem::Dependency