spectraST error

[Delphine]

Hello,

I'm trying to use spectraST. I downloaded the NIST_human_IT_2010_01_14_7AA.splib library in a "dbase/speclibs/" folder, with the tpp tool and also directly from the website. Now whatever I do with this library (interrogation or just making a consensus library) I get this error:

SpectraST started at Tue Nov 18 18:06:47 2014.
Creating CONSENSUS library from "c:/Inetpub/wwwroot/ISB/data/dbase/speclibs/NIST_human_IT_2010_01_14_7AA.splib" 
Importing ions...500...1000...1500...2000...2500...3000...3500...4000...4500...5000...5500...6000...6500...7000...7500...800
        ==== FATAL ERROR. Exiting immediately. ====
	Error trace :
	GENERAL: Corrupt .splib file from which to import entry.
	===========================================

Could someone help me solving this problem?

Thanks

Delphine

[David Shteynberg]

Looks like this file
"c:/Inetpub/wwwroot/ISB/data/dbase/speclibs/NIST_human_IT_2010_01_14_7AA.splib"

is corrupted. Can you try to download the file again?

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[delphine wood]

I downloaded it again but the same error remains... I tried with the HumanPlasma_2012-08_all.splib library and it works, but it's not the library I'm interested in.... Could it be that the NIST_human_IT_2010_01_14_7AA.splib is corrupted from the source?

Delphine

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[Rene B]

I tried this as well a few weeks ago with several human libraries, and ran in the same issue. I assumed it was a windows memory issue, the NIST human libraries are over 2GB. This is a known issue listed in the TPP4.7.1 release notes. I have not tried it on linux though.

Rene

[delphine wood]

I have read the issue note( release notes ).

Do you think that if I install TPP on a windows 7 , 64 bit system the problem could be solved? I will try and let you know if this solved the problem.

Delphine

[David Shteynberg]

You will also require a 64bit TPP build for windows that we are still working on.

David

[Eric Deutsch]

In addition to running on a 64-bit operating system, you will need a 64-bit SpectraST executable. I think there is a test 64-bit executable for SpectraST at:

 

http://sourceforge.net/projects/sashimi/files/Trans-Proteomic%20Pipeline%20%28TPP%29/TPP%20v0.0%20%28Development%29/

 

you can download the “spectrast.exe” file there and replace the installed spectrast.exe with the one that you download.

 

That may fix the problem.

 

Eric

[delphine wood]

Hello,

I tried to run the spectrast search on the big human_nist_protein library on a 64 bit windows, but with the actual version of TPP, and as expected the same error occured. Thus I installed TPP on linux, and it seems to be working; at least the same error doesn't occur. I didn't tried to use the 64-bit executable for SpectraST, unless it is included in the sources of the last version of tpp I used for the linux installation...

Delphine

[Eric Deutsch]

If you compile on Linux, your executable will almost surely be 64-bit as all modern distros are 64-bit.

 

The issue with Windows is that our default compiler is still 32-bit and so we generate 32-bits executables. But we’re working on creating a 64-bit Windows build, but it is a little tricky. However, we do have a valid 64-bit executable for SpectraST that I pointed you to. For the very reason that you encountered. Starting with TPP 5.0, everything will be 64-bit.

 

Regards,

[yude...@gmail.com]

hello

I try to create spectra library through spectrast, got the same error too. And I download the TPP 5.0.0 and run it on windows10, but the same error occured.

how can I solve this problem?

yuderui

在 2014年11月29日星期六 UTC+8上午9:04:12，Eric Deutsch写道：