Software:RemoteConvert
From SPCTools
(Difference between revisions)
| Revision as of 17:36, 4 March 2009 Zsun (Talk | contribs) (→How to use it) ← Previous diff |
Current revision Zsun (Talk | contribs) (→Requirements) |
||
| Line 1: | Line 1: | ||
| - | '''RemoteConvert: TConvert the raw file remotely.''' | + | '''RemoteConvert''' |
| ==Description== | ==Description== | ||
| Line 6: | Line 6: | ||
| ==Requirements== | ==Requirements== | ||
| - | The following is a list of software need to be installed in window machine before you can convert each type of the raw file. | + | The following is a list of software need to be installed on window machine before you can convert each type of the raw file. |
| + | |||
| + | {| class="wikitable" style="text-align:center;" border="2" cellpadding="2" | ||
| + | |- | ||
| + | ! 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 | ||
| + | |- | ||
| + | |} | ||
| ==How to use it== | ==How to use it== | ||
| - | Suppose the remote window machine is named[[ R machine]]. The local linux machine is named [[L machine]]. | + | Suppose the remote window machine is named R machine. The local linux machine is named L machine. |
| - | [[On R machine:]] | + | '''On R machine:''' |
| mkdir C:\convert | mkdir C:\convert | ||
| Line 24: | Line 42: | ||
| perl RemoteConvertServer.pl | perl RemoteConvertServer.pl | ||
| - | [[On L machine:]] | + | '''On L machine:''' |
| Download remoteconvert.pl and save into some dir. | Download remoteconvert.pl and save into some dir. | ||
| Line 32: | Line 50: | ||
| ./ remoteconvert.pl –showoptions: show all options available for each converter | ./ remoteconvert.pl –showoptions: show all options available for each converter | ||
| - | ==Install RemoteConvert as service== | + | ==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. | + | 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 install user defined service== | + | == Instructions on installing user defined service: == |
| - | Use perl2exe or other software to convert the perl program (server side) to exectuable. | + | |
| - | Suppose your perl executable is located in C:\convert | + | 1.Use perl2exe or other software to convert the perl program |
| - | 1. Download and install resource kit tool from Microsoft website according to which version of window machine you have. | + | (server side) to executable. Save your perl executable into |
| - | Window server 2003: | + | C:\convert |
| - | http://www.microsoft.com/downloads/details.aspx?FamilyID=9D467A69-57FF-4AE7-96EE-B18C4790CFFD&displaylang=en | + | 2.Download and install resource kit tool from Microsoft |
| - | Window 2000: | + | website. |
| - | http://www.microsoft.com/downloads/details.aspx?displaylang=en&FamilyID=3e89879d-6c0b-4f92-96c4-1016c187d429 | + | Window server 2003:[http://www.microsoft.com/downloads/details.aspx?FamilyID=9D467A69-57FF-4AE7-96EE-B18C4790CFFD&displaylang=en] |
| - | Alternatively if you can get INSTSRV.EXE and SRVANY.EXE somewhere, you don’t need to install the whole resource kit. | + | Window 2000:[http://www.microsoft.com/downloads/details.aspx?displaylang=en&FamilyID=3e89879d-6c0b-4f92-96c4-1016c187d429] |
| - | Suppose these two executable is located in “C:\reskit” | + | Alternatively if you can get INSTSRV.EXE and SRVANY.EXE |
| - | 2. At a MS-DOS command prompt(running CMD.EXE), type the following command: | + | somewhere, you don’t need to install the whole resource kit. |
| - | C:\reskit\INSTSRV.EXE RemoteConvert C:\reskit\SRVANY.EXE | + | Suppose these two executable are located in “C:\reskit” |
| - | 3. Run Registry Editor (start|run|regedit) and locate the following subkey: | + | 3.At a MS-DOS command prompt(running CMD.EXE), type the |
| - | HKEY_LOCAL_MACHINE\SYSTEM\CurrentControlSet\Services\RemoteConvert | + | following command: |
| - | a. From the Edit menu, click New Key. Type the following and click OK: | + | C:\reskit\INSTSRV.EXE RemoteConvert C:\reskit\SRVANY.EXE |
| - | Key Name: Parameters | + | 4.Run Registry Editor (start|run|regedit) and locate the |
| - | Class : <leave blank> | + | following subkey: |
| - | b. Select the Parameters key. | + | HKEY_LOCAL_MACHINE\SYSTEM\CurrentControlSet\Services\RemoteConvert |
| - | From the Edit menu, click New Value. Type the following and click OK: | + | a. From the Edit menu, click New Key. Type the following |
| - | Value Name: Application | + | and click OK: |
| - | Data Type: REG_SZ | + | Key Name: Parameters |
| - | String: C:\convert\RemoteConvertServer.exe | + | Class : <leave blank> |
| - | b. Select the Parameters key | + | b. Select the Parameters key. |
| - | From the Edit menu, click New Value. Type the following and click OK: | + | From the Edit menu, click New Value. Type the following |
| - | Value Name: AppDirectory | + | and click OK: |
| - | Data Type: REG_SZ | + | Value Name: Application |
| - | String: C:\convert | + | 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. | d. Close Registry Editor. | ||
| - | 4: start the service | + | 5: start the service |
| - | control panel -> administrative tool -> component service | + | control panel -> administrative tool -> component service |
| - | Find the "RemoteConvert" | + | Find the "RemoteConvert" |
| - | Click it | + | Click it |
| - | on popup window, click start | + | on popup window, click start |
| + | |||
| + | |||
| '''This software is included in the current [[Software:TPP|TPP]] distribution.''' | '''This software is included in the current [[Software:TPP|TPP]] distribution.''' | ||
| + | |||
| Additional methods for obtaining the software are: | Additional methods for obtaining the software are: | ||
| *Download from SourceForge Sashimi project file release: [] | *Download from SourceForge Sashimi project file release: [] | ||
| *Browse sourcecode from on Sashimi project SVN[]. | *Browse sourcecode from on Sashimi project SVN[]. | ||
Current revision
RemoteConvert
Contents |
[edit]
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.
[edit]
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 |
[edit]
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
[edit]
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.
[edit]
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[].
