Re: [spctools-discuss] New at TTP. Problem with PSM validation

['David Shteynberg' via spctools-discuss]

Hi Carlos,

The TPP is statistical software that takes advantage of statistical trends
in data and requires many data points to work well.  Do you have a dataset
of reasonable size with maybe dozens or hundreds of spectra?  Also can you
post the file somewhere I can download it?  Sending files as email
attachments may not work for larger files.

Thanks,
-David

On Mon, Jul 20, 2020 at 5:12 PM Carlos Humberto Paván 
wrote:

> Dear David
> Thank you your answer and your offer. Of course I can send you the
> dataset. I have attached it. You will note this is a small number of
> spectrums.
> Looking forward your comments
>
> PS I have attached the interact file too with the 0 prob result.
>
> El lunes, 20 de julio de 2020, 13:29:42 (UTC-3), David Shteynberg escribió:
>>
>> Dear Carlos,
>>
>> There is probably some bug exposed by the modeling of this type of data
>> with the specific set of options you enabled.   If you are able to share a
>> part of your dataset that can replicate the issue, I am able to
>> troubleshoot this  further.
>>
>> Thanks,
>> David
>>
>> On Sat, Jul 18, 2020, 12:10 PM Carlos Humberto Paván 
>> wrote:
>>
>>> Dear all
>>>
>>> I have recently installed TTP 5.2 and I´m still learn about it. I´m
>>> stuck at the peptide validation process: I get the follow error next to run
>>> Peptide Prophet:
>>> "Initialising statistical models ...
>>>
>>> command "C:/TPP/bin/PeptideProphetParser
>>> "/tmp/a04412/params/interact.pep.xml" MINPROB=0.0 CLEVEL=-1 PPM MALDI"
>>> failed: Unknown error
>>>
>>> command "C:/TPP/bin/PeptideProphetParser
>>> "/tmp/a04412/params/interact.pep.xml" MINPROB=0.0 CLEVEL=-1 PPM MALDI"
>>> exited with non-zero exit code: 255
>>> QUIT - the job is incomplete"
>>>
>>> The data is from a 4800 MALDI, a single spot from gel.
>>>
>>> Regards and Thanks
>>>
>>> --
>>> You received this message because you are subscribed to the Google
>>> Groups "spctools-discuss" group.
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>>> 
>>> .
>>>
>> --
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> .
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Re: [spctools-discuss] New at TTP. Problem with PSM validation

[Carlos Humberto Paván]

Dear David
Thank you your answer and your offer. Of course I can send you the dataset. 
I have attached it. You will note this is a small number of spectrums.
Looking forward your comments

PS I have attached the interact file too with the 0 prob result.

El lunes, 20 de julio de 2020, 13:29:42 (UTC-3), David Shteynberg escribió:
>
> Dear Carlos, 
>
> There is probably some bug exposed by the modeling of this type of data 
> with the specific set of options you enabled.   If you are able to share a 
> part of your dataset that can replicate the issue, I am able to 
> troubleshoot this  further. 
>
> Thanks,
> David
>
> On Sat, Jul 18, 2020, 12:10 PM Carlos Humberto Paván  > wrote:
>
>> Dear all
>>
>> I have recently installed TTP 5.2 and I´m still learn about it. I´m stuck 
>> at the peptide validation process: I get the follow error next to run 
>> Peptide Prophet:
>> "Initialising statistical models ...
>>
>> command "C:/TPP/bin/PeptideProphetParser 
>> "/tmp/a04412/params/interact.pep.xml" MINPROB=0.0 CLEVEL=-1 PPM MALDI" 
>> failed: Unknown error
>>
>> command "C:/TPP/bin/PeptideProphetParser 
>> "/tmp/a04412/params/interact.pep.xml" MINPROB=0.0 CLEVEL=-1 PPM MALDI" 
>> exited with non-zero exit code: 255
>> QUIT - the job is incomplete"
>>
>> The data is from a 4800 MALDI, a single spot from gel.
>>
>> Regards and Thanks
>>
>> -- 
>> You received this message because you are subscribed to the Google Groups 
>> "spctools-discuss" group.
>> To unsubscribe from this group and stop receiving emails from it, send an 
>> email to spctools...@googlegroups.com .
>> To view this discussion on the web visit 
>> https://groups.google.com/d/msgid/spctools-discuss/06da8ba0-99b1-4599-88b0-2743964e44ceo%40googlegroups.com
>>  
>> 
>> .
>>
>

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BSA.mzML
Description: Binary data


interactbis.pep.xml
Description: XML document

Re: [spctools-discuss] New at TTP. Problem with PSM validation

['David Shteynberg' via spctools-discuss]

Dear Carlos,

There is probably some bug exposed by the modeling of this type of data
with the specific set of options you enabled.   If you are able to share a
part of your dataset that can replicate the issue, I am able to
troubleshoot this  further.

Thanks,
David

On Sat, Jul 18, 2020, 12:10 PM Carlos Humberto Paván 
wrote:

> Dear all
>
> I have recently installed TTP 5.2 and I´m still learn about it. I´m stuck
> at the peptide validation process: I get the follow error next to run
> Peptide Prophet:
> "Initialising statistical models ...
>
> command "C:/TPP/bin/PeptideProphetParser
> "/tmp/a04412/params/interact.pep.xml" MINPROB=0.0 CLEVEL=-1 PPM MALDI"
> failed: Unknown error
>
> command "C:/TPP/bin/PeptideProphetParser
> "/tmp/a04412/params/interact.pep.xml" MINPROB=0.0 CLEVEL=-1 PPM MALDI"
> exited with non-zero exit code: 255
> QUIT - the job is incomplete"
>
> The data is from a 4800 MALDI, a single spot from gel.
>
> Regards and Thanks
>
> --
> You received this message because you are subscribed to the Google Groups
> "spctools-discuss" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to spctools-discuss+unsubscr...@googlegroups.com.
> To view this discussion on the web visit
> https://groups.google.com/d/msgid/spctools-discuss/06da8ba0-99b1-4599-88b0-2743964e44ceo%40googlegroups.com
> 
> .
>

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