Thanks for the files you've provided. I was able to find and fix one error in the code. TPP revision 6171 from trunk should contain this fix. Also I found an error in your commands. When you train a a Neural Net with RTCalc you have to use the ANN= option if you want to then apply the trained model to data. Here are my commands on your files using my new code:
RTCalc TRAIN=list2_predictions_no_neg.txt ANN=list2_ann_DDS.coeff RTCalc PEPS=peptides.txt ANN=list2_ann_DDS.coeff I hope it works for you too! -David On Thu, Mar 28, 2013 at 10:58 AM, [email protected] < [email protected]> wrote: > OK - I sent the training set and the ANN model by e-mail. > > > On Thursday, 28 March 2013 18:49:41 UTC+1, David Shteynberg wrote: > >> Hi Magnus, >> >> Can you forward me the files you have and the commands you are using and >> I will debug? >> >> Thanks, >> -David >> >> On Thu, Mar 28, 2013 at 10:47 AM, [email protected] < >> [email protected]> wrote: >> >>> Dear All (especially David), >>> >>> I am trying to use the ANN retention time predictor. The training runs >>> OK, but when trying to use it I get this error: >>> >>> gsl: init_source.c:29: ERROR: vector length n must be positive integer >>> Default GSL error handler invoked. >>> >>> This application has requested the Runtime to terminate it in an unusual >>> way. >>> Please contact the application's support team for more information. >>> >>> >>> I used ca. 60,000 different peptides in the training set. How many would >>> be needed? What are the things to look out for? >>> >>> >>> Cheers, >>> >>> Magnus >>> >>> -- >>> 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-discu...@**googlegroups.com. >>> To post to this group, send email to spctools...@googlegroups.**com. >>> >>> Visit this group at http://groups.google.com/** >>> group/spctools-discuss?hl=en<http://groups.google.com/group/spctools-discuss?hl=en> >>> . >>> For more options, visit >>> https://groups.google.com/**groups/opt_out<https://groups.google.com/groups/opt_out> >>> . >>> >>> >>> >> >> -- > 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 [email protected]. > To post to this group, send email to [email protected]. > Visit this group at http://groups.google.com/group/spctools-discuss?hl=en. > For more options, visit https://groups.google.com/groups/opt_out. > > > -- 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 [email protected]. To post to this group, send email to [email protected]. Visit this group at http://groups.google.com/group/spctools-discuss?hl=en. For more options, visit https://groups.google.com/groups/opt_out.
