MacCoss Lab Software: MacCoss Lab Software site









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    <title>MacCoss Lab Software: MacCoss Lab Software site</title>
    <link>https://skyline.ms</link>
    <description>MacCoss Lab Software: MacCoss Lab Software site</description>

    <item>
        <title>adding lanthanide element as modification</title>
        <link>https://skyline.ms/announcements/home/software/Topograph/support/thread.view?rowId=38019&amp;_print=1</link>
        <description>Dear support team

I tried to edit a new modification using two lanthanide elements, but i was noticed that &quot;only H O N C S P Se Li F Na S Cl K Ca Fe Ni Cu Zn Br Mo Ag I Au Hg B As Cd Cr Co Mn Mg Si are compatible&quot;. I wonder if you can please add lanthanide elements as compatible elements in the list, for our team think lanthanide elements are very useful tags in quantitative proteomics.

I&#039;d be grateful for any help.

Thanks,

Lv yayao</description>
        <pubDate>Tue Nov 06 09:10:03 PST 2018</pubDate>
    </item>
    <item>
        <title>MSe Data from Waters PLGS software</title>
        <link>https://skyline.ms/announcements/home/software/Topograph/support/thread.view?rowId=21118&amp;_print=1</link>
        <description>We are trying to determine % incorporation of 15N from MS^E data that has been processed using PLGS 3.0.2.  Topograph recognizes the search results (*_final_fragment.csv) but it is having a problem using the mzML files exported from the PLGS software.  I was wondering if anyone else has reported a problem like this.  What version of mzML and mzXML does Topograph recognize?  Do you have any suggestions to remedy this problem?

The error message is below:

4/30/2015 2:33:25 PM	Exception trying to open E:&#92;2015_Cyano_peptide_DB&#92;Ion_Accounting&#92;150423_Cyano_Pep_UHM100_15N_C_IA_final_fragment.mzML	System.Exception: [ChromatogramList_mzML::chromatogram()] Index out of bounds.
   at pwiz.CLI.msdata.ChromatogramList.chromatogram(Int32 index, Boolean getBinaryData)
   at pwiz.ProteowizardWrapper.MsDataFileImpl.GetScanTimes()
   at pwiz.Topograph.Model.MsDataFileData.Init(MsDataFileImpl msDataFileImpl) in C:&#92;Users&#92;nicksh&#92;svn&#92;topograph_1_1&#92;pwiz&#92;pwiz_tools&#92;Topograph&#92;TopographLib&#92;Model&#92;MsDataFileData.cs:line 51
   at pwiz.Topograph.MsData.MsDataFileUtil.TryInitMsDataFile(Workspace workspace, MsDataFile msDataFile, String&amp; message) in C:&#92;Users&#92;nicksh&#92;svn&#92;topograph_1_1&#92;pwiz&#92;pwiz_tools&#92;Topograph&#92;TopographLib&#92;MsData&#92;MsDataFiles.cs:line 101
Exception caught at:
   at pwiz.Topograph.MsData.MsDataFileUtil.TryInitMsDataFile(Workspace workspace, MsDataFile msDataFile, String&amp; message)
   at pwiz.Topograph.ui.Forms.TurnoverForm.EnsureMsDataFile(MsDataFile msDataFile, Boolean alwaysPrompt)
   at pwiz.Topograph.ui.Forms.TurnoverForm.EnsureMsDataFile(MsDataFile msDataFile)
   at System.RuntimeMethodHandle.InvokeMethod(Object target, Object[] arguments, Signature sig, Boolean constructor)
   at System.Reflection.RuntimeMethodInfo.UnsafeInvokeInternal(Object obj, Object[] parameters, Object[] arguments)
   at System.Delegate.DynamicInvokeImpl(Object[] args)
   at System.Windows.Forms.Control.InvokeMarshaledCallbackDo(ThreadMethodEntry tme)
   at System.Windows.Forms.Control.InvokeMarshaledCallbackHelper(Object obj)
   at System.Threading.ExecutionContext.RunInternal(ExecutionContext executionContext, ContextCallback callback, Object state, Boolean preserveSyncCtx)
   at System.Threading.ExecutionContext.Run(ExecutionContext executionContext, ContextCallback callback, Object state, Boolean preserveSyncCtx)
   at System.Threading.ExecutionContext.Run(ExecutionContext executionContext, ContextCallback callback, Object state)
   at System.Windows.Forms.Control.InvokeMarshaledCallback(ThreadMethodEntry tme)
   at System.Windows.Forms.Control.InvokeMarshaledCallbacks()
   at System.Windows.Forms.Control.WndProc(Message&amp; m)
   at System.Windows.Forms.ScrollableControl.WndProc(Message&amp; m)
   at System.Windows.Forms.Form.WndProc(Message&amp; m)
   at System.Windows.Forms.Control.ControlNativeWindow.OnMessage(Message&amp; m)
   at System.Windows.Forms.Control.ControlNativeWindow.WndProc(Message&amp; m)
   at System.Windows.Forms.NativeWindow.Callback(IntPtr hWnd, Int32 msg, IntPtr wparam, IntPtr lparam)
   at System.Windows.Forms.UnsafeNativeMethods.DispatchMessageW(MSG&amp; msg)
   at System.Windows.Forms.Application.ComponentManager.System.Windows.Forms.UnsafeNativeMethods.IMsoComponentManager.FPushMessageLoop(IntPtr dwComponentID, Int32 reason, Int32 pvLoopData)
   at System.Windows.Forms.Application.ThreadContext.RunMessageLoopInner(Int32 reason, ApplicationContext context)
   at System.Windows.Forms.Application.ThreadContext.RunMessageLoop(Int32 reason, ApplicationContext context)
   at System.Windows.Forms.Application.Run(Form mainForm)
   at pwiz.Topograph.ui.Program.Main()</description>
        <pubDate>Thu Apr 30 12:07:03 PDT 2015</pubDate>
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