Proteus-getting started
The system is described at:
http://proteus.achs.virginia.edu/proteus/
Option 1 is for Proteus administrators.
Option 2 is to see data and submit samples
Option 3 is for directions.
To start, you will need an account which can be requested at:
http://128.143.19.247:8080/lablink/Login.do
If you have already received data through Proteus (or submitted samples in the last three months), then use the login information already provided or contact the lab to determine your login.
The system is described in the directions at:(option 3 on main page)
http://proteus.achs.virginia.edu/proteus/Help/Manuals/Proteus_Directions.pdf
To submit sample data, after logging on to Proteus (option 2 from main screen), you can fill out a form for an individual sample, or fill out a spreadsheet which you upload. The spreadsheet is Microsoft Excel (.xls) format. If there are error messages, sample information will not transfer into the Proteus system.
If you have problems or questions, please contact the Keck MS Lab staff.
Copying data from pdf files to other programs.
MALDI data is supplied as pdf files.
Text-Short sections:
In Acrobat Reader, point and click to select text. If that does not seem to work, go to Tools-Select & Zoom-Select Tool (Acrobat Reader version 8). In earlier versions, it may be a Text Tool.
Insert into document
The text will probably have the same formatting as the original text.
To have default formatting for text in Microsoft Word, use Edit-Paste Special-unformatted text (if this is a common operation, you can find or write to macro which can be assigned to a shortcut key).
Big blocks of text
In Adobe Acrobat reader 8, use File-save as text. Previous versions may be different.
The file will have extension .txt, no formatting. Each line with have a paragraph marker at the end.
To do a mass remove of paragraph markers, in Microsoft Word, use Find and replace command (Ctrl-h). For find what, enter ^p ( caret p as shown, not Ctrl-P)
For replace with, try nothing. If words are run together, undo change, and for replace with, press space bar once.
For these operations, I find it helpful to show formatting marks (In Word, Tools-Options, View tab, and select all formatting marks.)
Pictures
The snapshot tool will copy selected parts of a pdf file, including a mix of text and pictures. In Acrobat Reader 8, go to Tools-Select &Zoom-Snapshot Tool. What is pasted is an image, so the text cannot be easily edited, or perhaps not edited at all.
Adobe describe methods for selecting an image only with the select tool and copying it. With the files produced from the MALDI software, currently these methods are unsatisfactory, giving rotated, distorted images which may only show in some programs.
PDF Creation programs such as Adobe Acrobat (not reader) can save pdf files in different formats, such as tiff and other image file formats. For information about purchasing a license for Adobe Acrobat through Research Computing Services, see:
https://www.web.virginia.edu/rescomp/SoftwareInfo.asp?ID=23
Free pdf creation programs can be found on the web and may suffice for simple use.