Hi Andreas, This seems to be caused by the PI model. If you can upload the file that caused the error I can troubleshoot it. Otherwise, please just disable the PI model for this analysis for now.
-David On Wed, Sep 8, 2010 at 3:22 PM, Andreas Quandt <[email protected]> wrote: > dear list, > when trying to run xinteract on some pep.xml files generated with spectrast > i run quite often in an NAN probability density error: > > > xinteract > -N/cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectrast_xinteract/Spectrast_Xinteract.pep.xml > -OAlIw > /cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectraST/spectrastlib_raw/aquandt_M1002_191.pep.xml > /cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectraST/spectrastlib_raw/aquandt_M1002_192.pep.xml > /cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectraST/spectrastlib_raw/aquandt_M1002_194.pep.xml > /cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectraST/spectrastlib_raw/aquandt_M1002_195.pep.xml > xinteract (TPP v4.4 VUVUZELA rev 0, Build 201008252227 (linux)) > running: "/cluster/apps/tpp/4.4.0/bin/InteractParser > '/cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectrast_xinteract/Spectrast_Xinteract.pep.xml' > '/cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectraST/spectrastlib_raw/aquandt_M1002_191.pep.xml' > '/cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectraST/spectrastlib_raw/aquandt_M1002_192.pep.xml' > '/cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectraST/spectrastlib_raw/aquandt_M1002_194.pep.xml' > '/cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectraST/spectrastlib_raw/aquandt_M1002_195.pep.xml' > -L'7'" > file 1: > /cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectraST/spectrastlib_raw/aquandt_M1002_191.pep.xml > file 2: > /cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectraST/spectrastlib_raw/aquandt_M1002_192.pep.xml > file 3: > /cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectraST/spectrastlib_raw/aquandt_M1002_194.pep.xml > file 4: > /cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectraST/spectrastlib_raw/aquandt_M1002_195.pep.xml > processed altogether 50145 results > > results written to file > /cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectrast_xinteract/Spectrast_Xinteract.pep.shtml > > > command completed in 27 sec > running: "/cluster/apps/tpp/4.4.0/bin/PeptideProphetParser > '/cluster/scratch/malars/pgrade/PS_TPP_develop_280/PSet_39/collector/LIB/spectrast_xinteract/Spectrast_Xinteract.pep.xml' > ACCMASS LEAVE PI INSTRWARN" > using Accurate Mass Bins > using pI > Using no error on different instrument types. > (SpectraST) > adding Accurate Mass mixture distr > adding pI mixture distr > init with SpectraST trypsin > MS Instrument info: Manufacturer: Thermo Scientific, Model: LTQ Orbitrap XL, > Ionization: nanoelectrospray, Analyzer: orbitrap, Detector: inductive > detector > PeptideProphet (TPP v4.4 VUVUZELA rev 0, Build 201008252227 (linux)) > akel...@isb > read in 0 1+, 45779 2+, 4366 3+, 0 4+, 0 5+, 0 6+, and 0 7+ spectra. > Initialising statistical models ... > Iterations: .........10.........20.........30.ERROR: NAN probability density > detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > ERROR: NAN probability density detected. Please alert the developer !!! > does anyone has an idea what causes this? > many thanks in advance, > andreas > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To post to this group, send email to [email protected]. > To unsubscribe from this group, send email to > [email protected]. > For more options, visit this group at > http://groups.google.com/group/spctools-discuss?hl=en. > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
