Software:RemoteConvert

From SPCTools

(Difference between revisions)
Jump to: navigation, search
Revision as of 17:26, 4 March 2009
Zsun (Talk | contribs)

← Previous diff
Current revision
Zsun (Talk | contribs)
(Requirements)
Line 1: Line 1:
-<html xmlns:v="urn:schemas-microsoft-com:vml"+'''RemoteConvert'''
-xmlns:o="urn:schemas-microsoft-com:office:office"+
-xmlns:w="urn:schemas-microsoft-com:office:word"+
-xmlns="http://www.w3.org/TR/REC-html40">+
-<head>+==Description==
-<meta http-equiv=Content-Type content="text/html; charset=windows-1252">+
-<meta name=ProgId content=Word.Document>+
-<meta name=Generator content="Microsoft Word 11">+
-<meta name=Originator content="Microsoft Word 11">+
-<link rel=File-List href="Software_files/filelist.xml">+
-<title>Software:RemoteConvert</title>+
-<!--[if gte mso 9]><xml>+
- <o:DocumentProperties>+
- <o:Author>zsun</o:Author>+
- <o:Template>Normal</o:Template>+
- <o:LastAuthor>zsun</o:LastAuthor>+
- <o:Revision>32</o:Revision>+
- <o:TotalTime>159</o:TotalTime>+
- <o:Created>2009-02-27T20:25:00Z</o:Created>+
- <o:LastSaved>2009-03-04T17:02:00Z</o:LastSaved>+
- <o:Pages>1</o:Pages>+
- <o:Words>734</o:Words>+
- <o:Characters>4188</o:Characters>+
- <o:Company>ISB</o:Company>+
- <o:Lines>34</o:Lines>+
- <o:Paragraphs>9</o:Paragraphs>+
- <o:CharactersWithSpaces>4913</o:CharactersWithSpaces>+
- <o:Version>11.9999</o:Version>+
- </o:DocumentProperties>+
-</xml><![endif]--><!--[if gte mso 9]><xml>+
- <w:WordDocument>+
- <w:SpellingState>Clean</w:SpellingState>+
- <w:GrammarState>Clean</w:GrammarState>+
- <w:PunctuationKerning/>+
- <w:ValidateAgainstSchemas/>+
- <w:SaveIfXMLInvalid>false</w:SaveIfXMLInvalid>+
- <w:IgnoreMixedContent>false</w:IgnoreMixedContent>+
- <w:AlwaysShowPlaceholderText>false</w:AlwaysShowPlaceholderText>+
- <w:Compatibility>+
- <w:BreakWrappedTables/>+
- <w:SnapToGridInCell/>+
- <w:WrapTextWithPunct/>+
- <w:UseAsianBreakRules/>+
- <w:DontGrowAutofit/>+
- </w:Compatibility>+
- <w:BrowserLevel>MicrosoftInternetExplorer4</w:BrowserLevel>+
- </w:WordDocument>+
-</xml><![endif]--><!--[if gte mso 9]><xml>+
- <w:LatentStyles DefLockedState="false" LatentStyleCount="156">+
- </w:LatentStyles>+
-</xml><![endif]-->+
-<style>+
-<!--+
- /* Font Definitions */+
- @font-face+
- {font-family:Wingdings;+
- panose-1:5 0 0 0 0 0 0 0 0 0;+
- mso-font-charset:2;+
- mso-generic-font-family:auto;+
- mso-font-pitch:variable;+
- mso-font-signature:0 268435456 0 0 -2147483648 0;}+
- /* Style Definitions */+
- p.MsoNormal, li.MsoNormal, div.MsoNormal+
- {mso-style-parent:"";+
- margin:0in;+
- margin-bottom:.0001pt;+
- line-height:normal;+
- mso-pagination:widow-orphan;+
- font-size:12.0pt;+
- font-family:"Times New Roman";+
- mso-fareast-font-family:"Times New Roman";}+
-h1+
- {margin:0in;+
- margin-bottom:.0001pt;+
- line-height:normal;+
- mso-pagination:widow-orphan;+
- mso-outline-level:1;+
- border:none;+
- mso-border-bottom-alt:solid #AAAAAA .75pt;+
- padding:0in;+
- mso-padding-alt:0in 0in 2.0pt 0in;+
- font-size:22.5pt;+
- font-family:"Times New Roman";+
- color:black;+
- font-weight:normal;}+
-a:link, span.MsoHyperlink+
- {color:#002BB8;+
- mso-text-animation:none;+
- text-decoration:none;+
- text-underline:none;+
- text-decoration:none;+
- text-line-through:none;}+
-a:visited, span.MsoHyperlinkFollowed+
- {color:purple;+
- text-decoration:underline;+
- text-underline:single;}+
-p+
- {margin-top:4.8pt;+
- margin-right:0in;+
- margin-bottom:6.0pt;+
- margin-left:0in;+
- line-height:18.0pt;+
- mso-pagination:widow-orphan;+
- font-size:12.0pt;+
- font-family:"Times New Roman";+
- mso-fareast-font-family:"Times New Roman";}+
-pre+
- {margin:0in;+
- margin-bottom:.0001pt;+
- line-height:13.2pt;+
- mso-pagination:widow-orphan;+
- tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
- background:#F9F9F9;+
- border:none;+
- mso-border-alt:dashed #2F6FAB .75pt;+
- padding:0in;+
- mso-padding-alt:12.0pt 12.0pt 12.0pt 12.0pt;+
- font-size:10.0pt;+
- font-family:"Courier New";+
- mso-fareast-font-family:"Times New Roman";+
- color:black;}+
-span.toctoggle3+
- {mso-style-name:toctoggle3;+
- mso-ansi-font-size:11.5pt;+
- mso-bidi-font-size:11.5pt;}+
-span.tocnumber+
- {mso-style-name:tocnumber;}+
-span.toctext+
- {mso-style-name:toctext;}+
-span.SpellE+
- {mso-style-name:"";+
- mso-spl-e:yes;}+
-span.GramE+
- {mso-style-name:"";+
- mso-gram-e:yes;}+
-@page Section1+
- {size:8.5in 11.0in;+
- margin:1.0in 1.25in 1.0in 1.25in;+
- mso-header-margin:.5in;+
- mso-footer-margin:.5in;+
- mso-paper-source:0;}+
-div.Section1+
- {page:Section1;}+
- /* List Definitions */+
- @list l0+
- {mso-list-id:1977182415;+
- mso-list-template-ids:1170766500;}+
-@list l0:level1+
- {mso-level-number-format:image;+
- list-style-image:url("PicExportError");+
- mso-level-text:\F0A7;+
- mso-level-tab-stop:.5in;+
- mso-level-number-position:left;+
- text-indent:-.25in;+
- mso-ansi-font-size:10.0pt;+
- font-family:Wingdings;}+
-@list l0:level2+
- {mso-level-tab-stop:1.0in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l0:level3+
- {mso-level-tab-stop:1.5in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l0:level4+
- {mso-level-tab-stop:2.0in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l0:level5+
- {mso-level-tab-stop:2.5in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l0:level6+
- {mso-level-tab-stop:3.0in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l0:level7+
- {mso-level-tab-stop:3.5in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l0:level8+
- {mso-level-tab-stop:4.0in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l0:level9+
- {mso-level-tab-stop:4.5in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l1+
- {mso-list-id:2032416815;+
- mso-list-template-ids:1170766500;}+
-@list l1:level1+
- {mso-level-number-format:image;+
- list-style-image:url("PicExportError");+
- mso-level-text:\F0A7;+
- mso-level-tab-stop:.5in;+
- mso-level-number-position:left;+
- text-indent:-.25in;+
- mso-ansi-font-size:10.0pt;+
- font-family:Wingdings;}+
-@list l1:level2+
- {mso-level-tab-stop:1.0in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l1:level3+
- {mso-level-tab-stop:1.5in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l1:level4+
- {mso-level-tab-stop:2.0in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l1:level5+
- {mso-level-tab-stop:2.5in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l1:level6+
- {mso-level-tab-stop:3.0in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l1:level7+
- {mso-level-tab-stop:3.5in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l1:level8+
- {mso-level-tab-stop:4.0in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-@list l1:level9+
- {mso-level-tab-stop:4.5in;+
- mso-level-number-position:left;+
- text-indent:-.25in;}+
-ol+
- {margin-bottom:0in;}+
-ul+
- {margin-bottom:0in;}+
--->+
-</style>+
-<!--[if gte mso 10]>+
-<style>+
- /* Style Definitions */+
- table.MsoNormalTable+
- {mso-style-name:"Table Normal";+
- mso-tstyle-rowband-size:0;+
- mso-tstyle-colband-size:0;+
- mso-style-noshow:yes;+
- mso-style-parent:"";+
- mso-padding-alt:0in 5.4pt 0in 5.4pt;+
- mso-para-margin:0in;+
- mso-para-margin-bottom:.0001pt;+
- mso-pagination:widow-orphan;+
- font-size:10.0pt;+
- font-family:"Times New Roman";+
- mso-ansi-language:#0400;+
- mso-fareast-language:#0400;+
- mso-bidi-language:#0400;}+
-table.MsoTableGrid+
- {mso-style-name:"Table Grid";+
- mso-tstyle-rowband-size:0;+
- mso-tstyle-colband-size:0;+
- border:solid windowtext 1.0pt;+
- mso-border-alt:solid windowtext .5pt;+
- mso-padding-alt:0in 5.4pt 0in 5.4pt;+
- mso-border-insideh:.5pt solid windowtext;+
- mso-border-insidev:.5pt solid windowtext;+
- mso-para-margin:0in;+
- mso-para-margin-bottom:.0001pt;+
- mso-pagination:widow-orphan;+
- font-size:10.0pt;+
- font-family:"Times New Roman";+
- mso-ansi-language:#0400;+
- mso-fareast-language:#0400;+
- mso-bidi-language:#0400;}+
-</style>+
-<![endif]-->+
-</head>+
-<body lang=EN-US link="#002BB8" vlink=purple style='tab-interval:.5in'>+Because several conversion programs depend on Windows-only vendor libraries from different manufacture, this software will enable you converting your raw files in you local machine without logging in to remote window machine.
-<div class=Section1>+==Requirements==
 +The following is a list of software need to be installed on window machine before you can convert each type of the raw file.
-<div style='mso-element:para-border-div;border:none;border-bottom:solid #AAAAAA 1.0pt;+{| class="wikitable" style="text-align:center;" border="2" cellpadding="2"
-mso-border-bottom-alt:solid #AAAAAA .75pt;padding:0in 0in 2.0pt 0in;background:+|-
-white'>+! Raw file type !! Raw-to-mzXML/mzML converter !! Required Software
 +|-
 +| .RAW file || [http://tools.proteomecenter.org/wiki/index.php?title=Software:ReAdW ReAdw] || Thermo's XCalibur software
 +|-
 +| raw dir || [http://tools.proteomecenter.org/wiki/index.php?title=Software:massWolf massWolf] || Waters' MassLynx software
 +|-
 +| .wiff || [http://tools.proteomecenter.org/wiki/index.php?title=Software:mzWiff mzWiff] || Analyst software
 +|-
 +|-
 +| .wiff || mzML_Exporter || /
 +|-
 +|-
 +| .baf .yep || [http://tools.proteomecenter.org/wiki/index.php?title=Software:CompassXport CompassXport] || CompassXport, produced by Bruker
 +|-
 +|}
-<h1 style='margin-bottom:1.2pt;line-height:18.0pt;background:white'><b+==How to use it==
-style='mso-bidi-font-weight:normal'><span lang=EN style='font-size:11.0pt;+Suppose the remote window machine is named R machine. The local linux machine is named L machine.
-font-family:Arial;mso-ansi-language:EN'>Software: <span class=SpellE>RemoteConvert</span><o:p></o:p></span></b></h1>+
-</div>+'''On R machine:'''
-<p class=MsoNormal style='margin-bottom:.05in;line-height:18.0pt;mso-outline-level:+mkdir C:\convert
-4;background:white'><b><span lang=EN style='font-size:11.0pt;font-family:Arial;+Download converter executable and save into C:\convert
-color:black;display:none;mso-hide:all;mso-ansi-language:EN'>From SPCTools<o:p></o:p></span></b></p>+
-<p class=MsoNormal style='line-height:18.0pt;background:white'><span lang=EN+Download RemoteConvertServer.pl and lib dir, and save into C:\convert
-style='font-size:11.0pt;font-family:Arial;color:black;display:none;mso-hide:+
-all;mso-ansi-language:EN'>Jump to: <a+
-href="http://tools.proteomecenter.org/wiki/index.php?title=Software:ReAdW#column-one#column-one"><span+
-style='color:black'>navigation</span></a>, <a+
-href="http://tools.proteomecenter.org/wiki/index.php?title=Software:ReAdW#searchInput#searchInput"><span+
-style='color:black'>search</span></a><o:p></o:p></span></p>+
-<!-- start content -->+Download 7-zip, unzip and save it into C:\convert\7-zip
-<p class=MsoNormal style='line-height:18.0pt;background:white'><span lang=EN+cd C:\convert
-style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>Convert+
-the raw file remotely. <a name=Description></a><o:p></o:p></span></p>+
-<p class=MsoNormal style='line-height:18.0pt;background:white'><span lang=EN+perl RemoteConvertServer.pl
-style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'><o:p>&nbsp;</o:p></span></p>+
-<div style='mso-element:para-border-div;border:none;border-bottom:solid #AAAAAA 6.0pt;+'''On L machine:'''
-padding:0in 0in 2.0pt 0in;background:white'>+
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+Download remoteconvert.pl and save into some dir.
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 2.0pt 0in'><b style='mso-bidi-font-weight:+
-normal'><span lang=EN style='font-size:11.0pt;font-family:Arial;color:black;+
-mso-ansi-language:EN'>Description<o:p></o:p></span></b></p>+
-</div>+./ remoteconvert.pl : show some examples command to run the software.
-<p style='background:white'><a name="Current_Version"></a><a name=Requirements></a><span+./ remoteconvert.pl –showoptions: show all options available for each converter
-lang=EN style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:+
-EN'>Because several conversion programs depend on Windows-only vendor libraries+
-from different manufacture, this software will enable you converting your raw+
-files in you local machine without logging in to remote window machine.<o:p></o:p></span></p>+
-<p style='background:white'><span lang=EN style='font-size:11.0pt;font-family:+==Install RemoteConvert as a service==
-Arial;color:black;mso-ansi-language:EN'><o:p>&nbsp;</o:p></span></p>+
-<div style='mso-element:para-border-div;border:none;border-bottom:solid #AAAAAA 6.0pt;+The service will stop if the user session is time out or the window machine is restarted. I complied the perl code into a executable using triall version of perl2exe, and installed it as service on a window 2000 and a window server 2003 sucessfully, thus the service will keep running without user log in and restart by itself after the computer restarts.
-padding:0in 0in 0in 0in;background:white'>+
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+== Instructions on installing user defined service: ==
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><b style='mso-bidi-font-weight:+
-normal'><span lang=EN style='font-size:11.0pt;font-family:Arial;color:black;+
-mso-ansi-language:EN'>Requirements<o:p></o:p></span></b></p>+
-</div>+ 1.Use perl2exe or other software to convert the perl program
 + (server side) to executable. Save your perl executable into
 + C:\convert
 + 2.Download and install resource kit tool from Microsoft
 + website.
 + Window server 2003:[http://www.microsoft.com/downloads/details.aspx?FamilyID=9D467A69-57FF-4AE7-96EE-B18C4790CFFD&displaylang=en]
 + Window 2000:[http://www.microsoft.com/downloads/details.aspx?displaylang=en&FamilyID=3e89879d-6c0b-4f92-96c4-1016c187d429]
 + Alternatively if you can get INSTSRV.EXE and SRVANY.EXE
 + somewhere, you don’t need to install the whole resource kit.
 + Suppose these two executable are located in “C:\reskit”
 + 3.At a MS-DOS command prompt(running CMD.EXE), type the
 + following command:
 + C:\reskit\INSTSRV.EXE RemoteConvert C:\reskit\SRVANY.EXE
 + 4.Run Registry Editor (start|run|regedit) and locate the
 + following subkey:
 + HKEY_LOCAL_MACHINE\SYSTEM\CurrentControlSet\Services\RemoteConvert
 + a. From the Edit menu, click New Key. Type the following
 + and click OK:
 + Key Name: Parameters
 + Class : <leave blank>
 + b. Select the Parameters key.
 + From the Edit menu, click New Value. Type the following
 + and click OK:
 + Value Name: Application
 + Data Type: REG_SZ
 + String: C:\convert\RemoteConvertServer.exe
 + c. Select the Parameters key
 + From the Edit menu, click New Value. Type the following
 + and click OK:
 + Value Name: AppDirectory
 + Data Type: REG_SZ
 + String: C:\convert
 + d. Close Registry Editor.
 + 5: start the service
 + control panel -> administrative tool -> component service
 + Find the "RemoteConvert"
 + Click it
 + on popup window, click start
-<p style='background:white'><span lang=EN style='font-size:11.0pt;font-family: 
-Arial;color:black;mso-ansi-language:EN'>The following is a list of software 
-need to be installed in window machine before you can convert each type of the 
-raw file.<o:p></o:p></span></p> 
-<table class=MsoTableGrid border=1 cellspacing=0 cellpadding=0 align=left 
- style='border-collapse:collapse;border:none;mso-border-alt:solid windowtext .5pt; 
- mso-table-overlap:never;mso-yfti-tbllook:480;mso-table-lspace:9.0pt; 
- margin-left:6.75pt;mso-table-rspace:9.0pt;margin-right:6.75pt;mso-table-anchor-vertical: 
- paragraph;mso-table-anchor-horizontal:column;mso-table-left:left;mso-table-top: 
- .05pt;mso-padding-alt:0in 5.4pt 0in 5.4pt;mso-border-insideh:.5pt solid windowtext; 
- mso-border-insidev:.5pt solid windowtext'> 
- <tr style='mso-yfti-irow:0;mso-yfti-firstrow:yes'> 
- <td width=119 valign=top style='width:89.6pt;border:solid windowtext 1.0pt; 
- mso-border-alt:solid windowtext .5pt;padding:0in 5.4pt 0in 5.4pt'> 
- <p style='mso-element:frame;mso-element-frame-hspace:9.0pt;mso-element-wrap:+'''This software is included in the current [[Software:TPP|TPP]] distribution.'''
- around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN+
- style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>Raw+
- file type<o:p></o:p></span></p>+
- </td>+
- <td width=240 valign=top style='width:2.5in;border:solid windowtext 1.0pt;+
- border-left:none;mso-border-left-alt:solid windowtext .5pt;mso-border-alt:+
- solid windowtext .5pt;padding:0in 5.4pt 0in 5.4pt'>+
- <p style='mso-element:frame;mso-element-frame-hspace:9.0pt;mso-element-wrap:+
- around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN+
- style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>Raw-to-<span+
- class=SpellE>mzXML/mzML</span> converter<o:p></o:p></span></p>+
- </td>+
- <td width=276 valign=top style='width:207.0pt;border:solid windowtext 1.0pt;+
- border-left:none;mso-border-left-alt:solid windowtext .5pt;mso-border-alt:+
- solid windowtext .5pt;padding:0in 5.4pt 0in 5.4pt'>+
- <p style='mso-element:frame;mso-element-frame-hspace:9.0pt;mso-element-wrap: 
- around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal: 
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN 
- style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>Software<o:p></o:p></span></p> 
- </td> 
- </tr> 
- <tr style='mso-yfti-irow:1'> 
- <td width=119 valign=top style='width:89.6pt;border:solid windowtext 1.0pt; 
- border-top:none;mso-border-top-alt:solid windowtext .5pt;mso-border-alt:solid windowtext .5pt; 
- padding:0in 5.4pt 0in 5.4pt'> 
- <p style='mso-element:frame;mso-element-frame-hspace:9.0pt;mso-element-wrap: 
- around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal: 
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN 
- style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>.RAW 
- file<o:p></o:p></span></p> 
- </td> 
- <td width=240 valign=top style='width:2.5in;border-top:none;border-left:none; 
- border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt; 
- mso-border-top-alt:solid windowtext .5pt;mso-border-left-alt:solid windowtext .5pt; 
- mso-border-alt:solid windowtext .5pt;padding:0in 5.4pt 0in 5.4pt'> 
- <p style='mso-element:frame;mso-element-frame-hspace:9.0pt;mso-element-wrap:+Additional methods for obtaining the software are:
- around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+*Download from SourceForge Sashimi project file release: []
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN+*Browse sourcecode from on Sashimi project SVN[].
- style='font-size:11.0pt;font-family:Arial;color:navy;mso-ansi-language:EN'><a+
- href="http://sourceforge.net/project/showfiles.php?group_id=69281&amp;package_id=68160"><span+
- class=SpellE><span style='color:navy'>ReAdw</span></span></a><o:p></o:p></span></p>+
- </td>+
- <td width=276 valign=top style='width:207.0pt;border-top:none;border-left:+
- none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;+
- mso-border-top-alt:solid windowtext .5pt;mso-border-left-alt:solid windowtext .5pt;+
- mso-border-alt:solid windowtext .5pt;padding:0in 5.4pt 0in 5.4pt'>+
- <p style='background:white;mso-element:frame;mso-element-frame-hspace:9.0pt;+
- mso-element-wrap:around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span class=SpellE><span+
- lang=EN style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:+
- EN;mso-bidi-font-weight:bold'>Thermo's</span></span><span lang=EN+
- style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN;+
- mso-bidi-font-weight:bold'> <span class=SpellE>XCalibur</span> software</span><span+
- lang=EN style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:+
- EN'><o:p></o:p></span></p>+
- </td>+
- </tr>+
- +
- <tr style='mso-yfti-irow:2'>+
- <td width=119 valign=top style='width:89.6pt;border:solid windowtext 1.0pt;+
- border-top:none;mso-border-top-alt:solid windowtext .5pt;mso-border-alt:solid windowtext .5pt;+
- padding:0in 5.4pt 0in 5.4pt'>+
- <p style='mso-element:frame;mso-element-frame-hspace:9.0pt;mso-element-wrap:+
- around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN+
- style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>raw+
- dir<o:p></o:p></span></p>+
- </td>+
- <td width=240 valign=top style='width:2.5in;border-top:none;border-left:none;+
- border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;+
- mso-border-top-alt:solid windowtext .5pt;mso-border-left-alt:solid windowtext .5pt;+
- mso-border-alt:solid windowtext .5pt;padding:0in 5.4pt 0in 5.4pt'>+
- <p style='mso-element:frame;mso-element-frame-hspace:9.0pt;mso-element-wrap:+
- around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN+
- style='font-size:11.0pt;font-family:Arial;color:navy;mso-ansi-language:EN'><a+
- href="http://sashimi.svn.sourceforge.net/viewvc/sashimi/tags/release_3-5-1/trans_proteomic_pipeline/src/mzXML/converters/massWolf/"><span+
- class=SpellE><span style='color:navy'>massWolf</span></span></a><o:p></o:p></span></p>+
- </td>+
- <td width=276 valign=top style='width:207.0pt;border-top:none;border-left:+
- none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;+
- mso-border-top-alt:solid windowtext .5pt;mso-border-left-alt:solid windowtext .5pt;+
- mso-border-alt:solid windowtext .5pt;padding:0in 5.4pt 0in 5.4pt'>+
- +
- <p style='background:white;mso-element:frame;mso-element-frame-hspace:9.0pt;+
- mso-element-wrap:around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN+
- style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>Waters'+
- <span class=SpellE>MassLynx</span> software<b><o:p></o:p></b></span></p>+
- </td>+
- </tr>+
- <tr style='mso-yfti-irow:3'>+
- <td width=119 valign=top style='width:89.6pt;border:solid windowtext 1.0pt;+
- border-top:none;mso-border-top-alt:solid windowtext .5pt;mso-border-alt:solid windowtext .5pt;+
- padding:0in 5.4pt 0in 5.4pt'>+
- <p style='mso-element:frame;mso-element-frame-hspace:9.0pt;mso-element-wrap:+
- around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN+
- style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>.<span+
- class=SpellE>Wiff</span> file<o:p></o:p></span></p>+
- +
- </td>+
- <td width=240 valign=top style='width:2.5in;border-top:none;border-left:none;+
- border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;+
- mso-border-top-alt:solid windowtext .5pt;mso-border-left-alt:solid windowtext .5pt;+
- mso-border-alt:solid windowtext .5pt;padding:0in 5.4pt 0in 5.4pt'>+
- <p style='mso-element:frame;mso-element-frame-hspace:9.0pt;mso-element-wrap:+
- around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN+
- style='font-size:11.0pt;font-family:Arial;color:navy;mso-ansi-language:EN'><a+
- href="http://sourceforge.net/project/showfiles.php?group_id=69281&amp;package_id=265963"><span+
- class=SpellE><span style='color:navy'>mzWiff</span></span></a><o:p></o:p></span></p>+
- </td>+
- <td width=276 valign=top style='width:207.0pt;border-top:none;border-left:+
- none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;+
- mso-border-top-alt:solid windowtext .5pt;mso-border-left-alt:solid windowtext .5pt;+
- mso-border-alt:solid windowtext .5pt;padding:0in 5.4pt 0in 5.4pt'>+
- <p style='background:white;mso-element:frame;mso-element-frame-hspace:9.0pt;+
- mso-element-wrap:around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN+
- style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>Analyst+
- software<o:p></o:p></span></p>+
- </td>+
- </tr>+
- +
- <tr style='mso-yfti-irow:4'>+
- <td width=119 valign=top style='width:89.6pt;border:solid windowtext 1.0pt;+
- border-top:none;mso-border-top-alt:solid windowtext .5pt;mso-border-alt:solid windowtext .5pt;+
- padding:0in 5.4pt 0in 5.4pt'>+
- <p style='mso-element:frame;mso-element-frame-hspace:9.0pt;mso-element-wrap:+
- around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN+
- style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>.<span+
- class=SpellE>Wiff</span> file<o:p></o:p></span></p>+
- </td>+
- <td width=240 valign=top style='width:2.5in;border-top:none;border-left:none;+
- border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;+
- mso-border-top-alt:solid windowtext .5pt;mso-border-left-alt:solid windowtext .5pt;+
- mso-border-alt:solid windowtext .5pt;padding:0in 5.4pt 0in 5.4pt'>+
- <p style='mso-element:frame;mso-element-frame-hspace:9.0pt;mso-element-wrap:+
- around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span class=SpellE><span+
- lang=EN style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:+
- EN'>ML_Exporter</span></span><span lang=EN style='font-size:11.0pt;+
- font-family:Arial;color:black;mso-ansi-language:EN'><o:p></o:p></span></p>+
- +
- </td>+
- <td width=276 valign=top style='width:207.0pt;border-top:none;border-left:+
- none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;+
- mso-border-top-alt:solid windowtext .5pt;mso-border-left-alt:solid windowtext .5pt;+
- mso-border-alt:solid windowtext .5pt;padding:0in 5.4pt 0in 5.4pt'>+
- <p style='background:white;mso-element:frame;mso-element-frame-hspace:9.0pt;+
- mso-element-wrap:around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN+
- style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'><o:p>&nbsp;</o:p></span></p>+
- </td>+
- </tr>+
- <tr style='mso-yfti-irow:5;mso-yfti-lastrow:yes'>+
- <td width=119 valign=top style='width:89.6pt;border:solid windowtext 1.0pt;+
- border-top:none;mso-border-top-alt:solid windowtext .5pt;mso-border-alt:solid windowtext .5pt;+
- padding:0in 5.4pt 0in 5.4pt'>+
- <p style='mso-element:frame;mso-element-frame-hspace:9.0pt;mso-element-wrap:+
- around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span lang=EN+
- style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>.<span+
- class=SpellE>baf</span> file<o:p></o:p></span></p>+
- +
- </td>+
- <td width=240 valign=top style='width:2.5in;border-top:none;border-left:none;+
- border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;+
- mso-border-top-alt:solid windowtext .5pt;mso-border-left-alt:solid windowtext .5pt;+
- mso-border-alt:solid windowtext .5pt;padding:0in 5.4pt 0in 5.4pt'>+
- <p style='mso-element:frame;mso-element-frame-hspace:9.0pt;mso-element-wrap:+
- around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span class=SpellE><span+
- lang=EN style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:+
- EN'>CompassXport</span></span><span lang=EN style='font-size:11.0pt;+
- font-family:Arial;color:black;mso-ansi-language:EN'><o:p></o:p></span></p>+
- </td>+
- <td width=276 valign=top style='width:207.0pt;border-top:none;border-left:+
- none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;+
- mso-border-top-alt:solid windowtext .5pt;mso-border-left-alt:solid windowtext .5pt;+
- mso-border-alt:solid windowtext .5pt;padding:0in 5.4pt 0in 5.4pt'>+
- <p style='background:white;mso-element:frame;mso-element-frame-hspace:9.0pt;+
- mso-element-wrap:around;mso-element-anchor-vertical:paragraph;mso-element-anchor-horizontal:+
- column;mso-element-top:.05pt;mso-height-rule:exactly'><span class=SpellE><span+
- lang=EN style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:+
- EN'>CompassXport</span></span><span lang=EN style='font-size:11.0pt;+
- font-family:Arial;color:black;mso-ansi-language:EN'>, produced by <span+
- class=SpellE>Bruker</span><o:p></o:p></span></p>+
- </td>+
- +
- </tr>+
-</table>+
- +
-<p style='background:white'><span lang=EN style='font-size:11.0pt;font-family:+
-Arial;color:black;mso-ansi-language:EN'><br clear=all style='mso-special-character:+
-line-break'>+
-<o:p></o:p></span></p>+
- +
-<div style='mso-element:para-border-div;border:none;border-bottom:solid #AAAAAA 6.0pt;+
-padding:0in 0in 0in 0in;background:white'>+
- +
-<p class=MsoNormal style='mso-outline-level:3;background:white;border:none;+
-mso-border-bottom-alt:solid #AAAAAA 6.0pt;padding:0in;mso-padding-alt:0in 0in 0in 0in'><b+
-style='mso-bidi-font-weight:normal'><span lang=EN style='font-size:11.0pt;+
-font-family:Arial;color:black;mso-ansi-language:EN'>How to use it:<o:p></o:p></span></b></p>+
- +
-</div>+
- +
-<p style='margin:0in;margin-bottom:.0001pt;line-height:normal;background:white'><span+
-lang=EN style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:+
-EN'><o:p>&nbsp;</o:p></span></p>+
- +
-<div style='mso-element:para-border-div;border:none;border-bottom:solid #AAAAAA 6.0pt;+
-padding:0in 0in 0in 0in;background:white'>+
- +
-<p class=MsoNormal style='mso-outline-level:3;background:white;border:none;+
-mso-border-bottom-alt:solid #AAAAAA 6.0pt;padding:0in;mso-padding-alt:0in 0in 0in 0in'><span+
-lang=EN style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:+
-EN'>Suppose the remote window machine is named </span><span lang=EN+
-style='font-size:11.0pt;font-family:Arial;color:navy;mso-ansi-language:EN'>R+
-machine</span><span lang=EN style='font-size:11.0pt;font-family:Arial;+
-color:black;mso-ansi-language:EN'>. The local <span class=SpellE>linux</span>+
-machine is named </span><span lang=EN style='font-size:11.0pt;font-family:Arial;+
-color:navy;mso-ansi-language:EN'>L machine</span><span lang=EN+
-style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>.<b+
-style='mso-bidi-font-weight:normal'><o:p></o:p></b></span></p>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;mso-outline-level:3;background:+
-white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;padding:0in;+
-mso-padding-alt:0in 0in 0in 0in'><b style='mso-bidi-font-weight:normal'><i+
-style='mso-bidi-font-style:normal'><span lang=EN style='font-size:11.0pt;+
-font-family:Arial;color:navy;mso-ansi-language:EN'>On R machine:<o:p></o:p></span></i></b></p>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><span class=SpellE><span+
-class=GramE><span lang=EN style='font-size:11.0pt;font-family:Arial;color:black;+
-mso-ansi-language:EN'>mkdir</span></span></span><span lang=EN style='font-size:+
-11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'> C:\convert<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><span lang=EN style='font-size:+
-11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>Download converter+
-executable and save into C:\convert<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><span lang=EN style='font-size:+
-11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>Download+
-RemoteConvertServer.pl and lib dir, and save into C:\convert<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><span lang=EN style='font-size:+
-11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>Download 7-zip,+
-unzip and save it into C:\convert\7-zip<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><span class=SpellE><span+
-class=GramE><span lang=EN style='font-size:11.0pt;font-family:Arial;color:black;+
-mso-ansi-language:EN'>cd</span></span></span><span lang=EN style='font-size:+
-11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'> C:\convert<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><span class=SpellE><span+
-class=GramE><span lang=EN style='font-size:11.0pt;font-family:Arial;color:black;+
-mso-ansi-language:EN'>perl</span></span></span><span lang=EN style='font-size:+
-11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>+
- +
-RemoteConvertServer.pl <o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><b style='mso-bidi-font-weight:+
-normal'><i style='mso-bidi-font-style:normal'><span lang=EN style='font-size:+
-11.0pt;font-family:Arial;color:navy;mso-ansi-language:EN'>On L machine:<o:p></o:p></span></i></b></p>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;tab-stops:473.25pt;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><span lang=EN style='font-size:+
-11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>Download+
-remoteconvert.pl and save into some dir.<span style='mso-tab-count:1'> </span><o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><span class=GramE><span lang=EN+
-style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>./</span></span><span+
-lang=EN style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:+
-EN'> remoteconvert.pl : show some examples command to run the software.<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><span class=GramE><span lang=EN+
-style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>./</span></span><span+
-lang=EN style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:+
-EN'> remoteconvert.pl –<span class=SpellE>showoptions</span>: show all options+
-available for each converter<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><span lang=EN style='font-size:+
-11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'><o:p>&nbsp;</o:p></span></p>+
- +
-<p class=MsoNormal style='mso-outline-level:3;background:white;border:none;+
-mso-border-bottom-alt:solid #AAAAAA 6.0pt;padding:0in;mso-padding-alt:0in 0in 0in 0in'><b+
-style='mso-bidi-font-weight:normal'><span lang=EN style='font-size:11.0pt;+
-font-family:Arial;color:black;mso-ansi-language:EN'>Install <span class=SpellE>RemoteConvert</span>+
-as service:<o:p></o:p></span></b></p>+
- +
-</div>+
- +
-<p style='margin:0in;margin-bottom:.0001pt;line-height:normal;background:white'><span+
-lang=EN style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:+
-EN'><o:p>&nbsp;</o:p></span></p>+
- +
-<div style='mso-element:para-border-div;border:none;border-bottom:solid #AAAAAA 6.0pt;+
-padding:0in 0in 0in 0in;background:white'>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><span lang=EN style='font-size:+
-11.0pt;font-family:Arial;color:black;mso-ansi-language:EN'>The service will+
-stop if the user session is time out or the window machine is restarted.<span+
-style='mso-spacerun:yes'> </span>I complied the <span class=SpellE>perl</span>+
- +
-code into a executable using <span class=SpellE>triall</span> version of perl2exe,+
-and installed it as service on a window 2000 and a window server 2003 <span+
-class=SpellE>sucessfully</span>, thus the service will keep running without+
-user log in and restart by itself after the computer restarts. <b+
-style='mso-bidi-font-weight:normal'><o:p></o:p></b></span></p>+
- +
-</div>+
- +
-<div style='mso-element:para-border-div;border:none;border-bottom:solid #AAAAAA 6.0pt;+
-padding:0in 0in 0in 0in;background:white;margin-left:9.0pt;margin-right:0in'>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 0in 0in'><b style='mso-bidi-font-weight:+
-normal'><span lang=EN style='font-size:11.0pt;font-family:Arial;color:black;+
-mso-ansi-language:EN'>Instructions on install user defined service:<o:p></o:p></span></b></p>+
- +
-</div>+
- +
-<p class=MsoNormal style='margin-left:9.0pt;line-height:150%;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><span lang=EN style='font-size:10.0pt;line-height:150%;+
-font-family:Arial;color:black;mso-ansi-language:EN'>Use perl2exe or other+
-software to convert the <span class=SpellE>perl</span> program (server side) to+
-<span class=SpellE>exectuable</span>. <o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='line-height:150%;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><span lang=EN style='font-size:10.0pt;line-height:150%;+
-font-family:Arial;color:black;mso-ansi-language:EN'><span+
-style='mso-spacerun:yes'> </span>Suppose your <span class=SpellE>perl</span>+
-executable is located in C:\convert<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-left:45.0pt;text-indent:-.25in;line-height:+
-150%;mso-list:l0 level2 lfo2;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><![if !supportLists]><span style='font-size:10.0pt;+
-line-height:150%;font-family:Arial;mso-fareast-font-family:Arial'><span+
-style='mso-list:Ignore'>1.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;+
- +
-</span></span></span><![endif]><span style='font-size:10.0pt;line-height:150%;+
-font-family:Arial'>Download and install resource kit tool from Microsoft+
-website according to which version of window machine you have.<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-left:45.0pt;line-height:150%;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><span style='font-size:10.0pt;line-height:150%;font-family:+
-Arial'>Window server 2003:<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-left:27.0pt;line-height:150%;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><span style='font-size:10.0pt;line-height:150%;font-family:+
-Arial'><span style='mso-spacerun:yes'> </span><a+
-href="http://www.microsoft.com/downloads/details.aspx?FamilyID=9D467A69-57FF-4AE7-96EE-B18C4790CFFD&amp;displaylang=en">http://www.microsoft.com/downloads/details.aspx?FamilyID=9D467A69-57FF-4AE7-96EE-B18C4790CFFD&amp;displaylang=en</a><o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-left:27.0pt;line-height:150%;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><span style='font-size:10.0pt;line-height:150%;font-family:+
-Arial'><span style='mso-spacerun:yes'> </span>Window 2000:<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-left:27.0pt;line-height:150%;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><span style='font-size:10.0pt;line-height:150%;font-family:+
-Arial'><span style='mso-spacerun:yes'> </span><a+
-href="http://www.microsoft.com/downloads/details.aspx?displaylang=en&amp;FamilyID=3e89879d-6c0b-4f92-96c4-1016c187d429">http://www.microsoft.com/downloads/details.aspx?displaylang=en&amp;FamilyID=3e89879d-6c0b-4f92-96c4-1016c187d429</a><o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-left:27.0pt;line-height:150%;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><span style='font-size:10.0pt;line-height:150%;font-family:+
-Arial'><span style='mso-spacerun:yes'> </span>Alternatively if you can get+
-INSTSRV.EXE and SRVANY.EXE somewhere, you don’t need to install the whole+
-resource kit.<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-left:27.0pt;line-height:150%;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><span style='font-size:10.0pt;line-height:150%;font-family:+
-Arial'>Suppose these two executable is located in “C:\reskit”<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-left:45.0pt;text-indent:-.25in;line-height:+
-150%;mso-list:l0 level2 lfo2;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><![if !supportLists]><span lang=EN style='font-size:10.0pt;+
-line-height:150%;font-family:Arial;mso-fareast-font-family:Arial;color:black;+
-mso-ansi-language:EN'><span style='mso-list:Ignore'>2.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;+
-</span></span></span><![endif]><span style='font-size:10.0pt;line-height:150%;+
-font-family:Arial'>At a MS-DOS command prompt(running CMD.EXE), type the+
-following command:<br>+
-<i>C:\reskit</i>\INSTSRV.EXE <span class=SpellE><i>RemoteConvert</i></span><i> </i>C:\reskit\SRVANY.EXE</span><span+
-lang=EN style='font-size:10.0pt;line-height:150%;font-family:Arial;color:black;+
-mso-ansi-language:EN'><o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-left:45.0pt;text-indent:-.25in;line-height:+
-150%;mso-list:l0 level2 lfo2;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><![if !supportLists]><span lang=EN style='font-size:10.0pt;+
-line-height:150%;font-family:Arial;mso-fareast-font-family:Arial;color:black;+
-mso-ansi-language:EN'><span style='mso-list:Ignore'>3.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;+
-</span></span></span><![endif]><span style='font-size:10.0pt;line-height:150%;+
-font-family:Arial'>Run Registry Editor (<span class=SpellE><b>start|run|regedit</b></span><b>)+
-</b>and locate the following <span class=SpellE>subkey</span>:<br>+
-<span style='mso-spacerun:yes'> +
-</span>HKEY_LOCAL_MACHINE\SYSTEM\CurrentControlSet\Services\RemoteConvert </span><span+
-lang=EN style='font-size:10.0pt;line-height:150%;font-family:Arial;color:black;+
-mso-ansi-language:EN'><o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='line-height:150%;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><span lang=EN style='font-size:10.0pt;line-height:150%;+
-font-family:Arial;color:black;mso-ansi-language:EN'><span+
-style='mso-spacerun:yes'> </span><span+
-style='mso-spacerun:yes'> </span>a.</span><span style='font-size:10.0pt;+
-line-height:150%;font-family:Arial'> From the Edit menu, click New Key. Type+
-the following and click OK:<br>+
- +
-<span style='mso-spacerun:yes'> </span>Key Name: Parameters<br>+
-<span style='mso-spacerun:yes'> </span>Class : &lt;leave+
-blank&gt; </span><span lang=EN style='font-size:10.0pt;line-height:150%;+
-font-family:Arial;color:black;mso-ansi-language:EN'><o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-left:22.5pt;line-height:150%'><span+
-style='font-size:10.0pt;line-height:150%;font-family:Arial'><span+
-style='mso-spacerun:yes'> </span>b. Select the Parameters key. <o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='line-height:150%'><span style='font-size:10.0pt;+
-line-height:150%;font-family:Arial'><span+
-style='mso-spacerun:yes'> </span>From the Edit menu, click New+
-Value. Type the following and click OK:<br>+
-<span style='mso-spacerun:yes'> </span>Value Name: Application<br>+
- +
-<span style='mso-spacerun:yes'> </span>Data Type: REG_SZ<br>+
-<span style='mso-spacerun:yes'> </span>String:+
-C:\convert\RemoteConvertServer.exe<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-left:22.5pt;line-height:150%'><span+
-style='font-size:10.0pt;line-height:150%;font-family:Arial'><span+
-style='mso-spacerun:yes'> </span>b. Select the Parameters key<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-left:22.5pt;line-height:150%'><span+
-style='font-size:10.0pt;line-height:150%;font-family:Arial'><span+
-style='mso-spacerun:yes'> </span>From the Edit menu, click New Value.+
-Type the following and click OK:<br>+
-<span style='mso-spacerun:yes'> </span>Value Name: <span class=SpellE>AppDirectory</span><br>+
- +
-<span style='mso-spacerun:yes'> </span>Data Type: REG_SZ<br>+
-<span style='mso-spacerun:yes'> </span>String: C:\convert<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-left:.5in;line-height:150%'><span+
-style='font-size:10.0pt;line-height:150%;font-family:Arial'><span+
-style='mso-spacerun:yes'> </span>d. Close Registry Editor.<br>+
-4: start the service<br>+
-<span style='mso-spacerun:yes'> </span>control panel -&gt; administrative tool+
--&gt; component service<o:p></o:p></span></p>+
- +
-<div style='mso-element:para-border-div;border:none;border-bottom:solid #AAAAAA 6.0pt;+
-padding:0in 0in 2.0pt 0in;background:white'>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 2.0pt 0in'><span style='font-size:10.0pt;+
-font-family:Arial'>&nbsp;&nbsp;<span style='mso-spacerun:yes'> +
-</span>Find the &quot;<span class=SpellE>RemoteConvert</span>&quot; <br>+
-&nbsp;&nbsp;<span style='mso-spacerun:yes'> </span>Click it<br>+
-&nbsp;&nbsp;<span style='mso-spacerun:yes'> </span>on popup window,+
-click start<br style='mso-special-character:line-break'>+
-<![if !supportLineBreakNewLine]><br style='mso-special-character:line-break'>+
-<![endif]><o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='margin-bottom:.1in;line-height:18.0pt;mso-outline-level:+
-3;background:white;border:none;mso-border-bottom-alt:solid #AAAAAA 6.0pt;+
-padding:0in;mso-padding-alt:0in 0in 2.0pt 0in'><b style='mso-bidi-font-weight:+
-normal'><span lang=EN style='font-size:11.0pt;font-family:Arial;color:black;+
-mso-ansi-language:EN'>Getting the software:<o:p></o:p></span></b></p>+
- +
-</div>+
- +
-<p style='background:white'><b><span lang=EN style='font-size:11.0pt;+
-font-family:Arial;color:black;mso-ansi-language:EN'>This software is included+
-in the current <a+
-href="http://tools.proteomecenter.org/wiki/index.php?title=Software:TPP"+
-title="Software:TPP"><span style='color:black'>TPP</span></a> distribution.</span></b><span+
-lang=EN style='font-size:11.0pt;font-family:Arial;color:black;mso-ansi-language:+
-EN'> <o:p></o:p></span></p>+
- +
-<p style='background:white'><span lang=EN style='font-size:11.0pt;font-family:+
-Arial;color:black;mso-ansi-language:EN'>Additional methods for obtaining the+
-software are: <o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='mso-margin-top-alt:auto;margin-bottom:1.2pt;+
-margin-left:.25in;text-indent:-.25in;line-height:18.0pt;mso-list:l0 level1 lfo2;+
-tab-stops:list .5in;background:white'><![if !supportLists]><span lang=EN+
-style='font-size:10.0pt;mso-bidi-font-size:11.0pt;font-family:Wingdings;+
-mso-fareast-font-family:Wingdings;mso-bidi-font-family:Wingdings;color:black;+
-mso-ansi-language:EN'><span style='mso-list:Ignore'><img width=12 height=12+
-src=PicExportError alt="*"><span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;+
-</span></span></span><![endif]><span lang=EN style='font-size:11.0pt;+
-font-family:Arial;color:black;mso-ansi-language:EN'>Download from <span+
-class=SpellE>SourceForge</span> Sashimi project file release: [1] <o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='mso-margin-top-alt:auto;margin-bottom:1.2pt;+
-margin-left:.25in;text-indent:-.25in;line-height:18.0pt;mso-list:l0 level1 lfo2;+
-tab-stops:list .5in;background:white'><![if !supportLists]><span lang=EN+
-style='font-size:10.0pt;mso-bidi-font-size:11.0pt;font-family:Wingdings;+
-mso-fareast-font-family:Wingdings;mso-bidi-font-family:Wingdings;color:black;+
-mso-ansi-language:EN'><span style='mso-list:Ignore'><img width=12 height=12+
-src=PicExportError alt="*"><span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;+
-</span></span></span><![endif]><span lang=EN style='font-size:11.0pt;+
-font-family:Arial;color:black;mso-ansi-language:EN'>Browse <span class=SpellE>sourcecode</span>+
-from on Sashimi project <span class=GramE>SVN[</span>2]. <o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='line-height:18.0pt;background:white'><a+
-name=Troubleshooting></a><span lang=EN style='font-size:11.0pt;font-family:+
-Arial;color:black;mso-ansi-language:EN'><o:p>&nbsp;</o:p></span></p>+
- +
-<p class=MsoNormal style='line-height:150%;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><span style='font-size:10.0pt;line-height:150%;font-family:+
-Arial'>&nbsp;<o:p></o:p></span></p>+
- +
-<p class=MsoNormal style='line-height:150%;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt;+
-background:white'><span lang=EN style='font-size:10.0pt;line-height:150%;+
-font-family:Arial;color:black;display:none;mso-hide:all;mso-ansi-language:EN'>Retrieved+
-from &quot;<a+
-href="http://tools.proteomecenter.org/wiki/index.php?title=Software:ReAdW">http://tools.proteomecenter.org/wiki/index.php?title=Software:ReAdW</a>&quot;<o:p></o:p></span></p>+
- +
-<!-- end content -->+
- +
-<p class=MsoNormal style='line-height:150%;tab-stops:45.8pt 91.6pt 137.4pt 183.2pt 229.0pt 274.8pt 320.6pt 366.4pt 412.2pt 458.0pt 503.8pt 549.6pt 595.4pt 641.2pt 687.0pt 732.8pt'><span+
-style='font-size:10.0pt;line-height:150%;font-family:Arial'><o:p>&nbsp;</o:p></span></p>+
- +
-</div>+
- +
-</body>+
- +
-</html>+

Current revision

RemoteConvert

Contents

Description

Because several conversion programs depend on Windows-only vendor libraries from different manufacture, this software will enable you converting your raw files in you local machine without logging in to remote window machine.

Requirements

The following is a list of software need to be installed on window machine before you can convert each type of the raw file.

Raw file type Raw-to-mzXML/mzML converter Required Software
.RAW file ReAdw Thermo's XCalibur software
raw dir massWolf Waters' MassLynx software
.wiff mzWiff Analyst software
.wiff mzML_Exporter /
.baf .yep CompassXport CompassXport, produced by Bruker

How to use it

Suppose the remote window machine is named R machine. The local linux machine is named L machine.

On R machine:

mkdir C:\convert Download converter executable and save into C:\convert

Download RemoteConvertServer.pl and lib dir, and save into C:\convert

Download 7-zip, unzip and save it into C:\convert\7-zip

cd C:\convert

perl RemoteConvertServer.pl

On L machine:

Download remoteconvert.pl and save into some dir.

./ remoteconvert.pl : show some examples command to run the software.

./ remoteconvert.pl –showoptions: show all options available for each converter

Install RemoteConvert as a service

The service will stop if the user session is time out or the window machine is restarted. I complied the perl code into a executable using triall version of perl2exe, and installed it as service on a window 2000 and a window server 2003 sucessfully, thus the service will keep running without user log in and restart by itself after the computer restarts.

Instructions on installing user defined service:

  1.Use perl2exe or other software to convert the perl program
    (server side) to executable. Save your perl executable into
    C:\convert
  2.Download and install resource kit tool from Microsoft 
    website.
    Window server 2003:[1]   
    Window 2000:[2]
    Alternatively if you can get INSTSRV.EXE and SRVANY.EXE 
    somewhere, you don’t need to install the whole resource kit.
    Suppose these two executable are located in “C:\reskit”
  3.At a MS-DOS command prompt(running CMD.EXE), type the 
    following  command:
    C:\reskit\INSTSRV.EXE RemoteConvert C:\reskit\SRVANY.EXE
  4.Run Registry Editor (start|run|regedit) and locate the
    following subkey:
 HKEY_LOCAL_MACHINE\SYSTEM\CurrentControlSet\Services\RemoteConvert 
    a. From the Edit menu, click New Key. Type the following
       and click OK:
       Key Name: Parameters
       Class : <leave blank> 
    b. Select the Parameters key. 
       From the Edit menu, click New Value. Type the following
       and click OK:
       Value Name: Application
       Data Type: REG_SZ
       String: C:\convert\RemoteConvertServer.exe
    c. Select the Parameters key
       From the Edit menu, click New Value. Type the following
       and click OK:
       Value Name: AppDirectory
       Data Type: REG_SZ
       String: C:\convert
    d. Close Registry Editor.
  5: start the service
    control panel -> administrative tool -> component service
    Find the "RemoteConvert" 
    Click it
    on popup window, click start


This software is included in the current TPP distribution.


Additional methods for obtaining the software are:

  • Download from SourceForge Sashimi project file release: []
  • Browse sourcecode from on Sashimi project SVN[].
Personal tools