That's an old page you're referencing. Try these files: http://sourceforge.net/p/sashimi/code/6253/tree/tags/release_4-6-3/trans_proteomic_pipeline/extern/xtandem/src_tpp/
On Thu, Jul 25, 2013 at 4:46 PM, Rishika Bisaria <[email protected]>wrote: > Hi , > Thank you for the reply. > I downloaded the two files in src folder of XTandem from > https://proteomics.fhcrc.org/CPAS/Project/Published%20Experiments/Tandem%20Pluggable%20Scoring/begin.view > ?. > But I am getting error on running the make command. > > g++ -M -O2 -DGCC4_3 mscore_k.cpp > mscore_k.d > g++ -M -O2 -DGCC4_3 mscore_k.cpp | sed s/\\.o/.d/ > mscore_k.d > g++ -O2 -DGCC4_3 -c -o mscore_k.o mscore_k.cpp > mscore_k.cpp: In member function ‘virtual mplugin* > mscorefactory_k::create_plugin()’: > mscore_k.cpp:34:25: error: cannot allocate an object of abstract type > ‘mscore_k’ > mscore_k.h:84:7: note: because the following virtual functions are pure > within ‘mscore_k’: > mscore.h:382:21: note: virtual float mscore::ion_check(long unsigned > int, size_t) > mscore_k.cpp: At global scope: > mscore_k.cpp:365:7: error: ‘mscore_tandem’ has not been declared > mscore_k.cpp: In function ‘float ion_check(long unsigned int, size_t)’: > mscore_k.cpp:371:36: error: ‘m_vmiType’ was not declared in this scope > make: *** [mscore_k.o] Error 1 > > Thanks, > Rishika > > > > On Thu, Jul 25, 2013 at 4:44 PM, Jimmy Eng <[email protected]> wrote: > >> You would need a version of X!Tandem that has k-score in it so use the >> one distributed with the TPP. Beyond that, the minimum parameter to set >> would be: >> >> <note type="input" label="scoring, algorithm">k-score</note> >> >> >> On Thu, Jul 25, 2013 at 1:15 PM, Rishika Bisaria <[email protected] >> > wrote: >> >>> Hi, >>> I am a newbie to proteomics analysis. >>> I wanted to know how can we use k-score in XTandem. Just modifying the >>> parameter in the file is sufficient or we have to make other changes also. >>> Thank You. >>> >>> -- >>> 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. >>> For more options, visit https://groups.google.com/groups/opt_out. >>> >>> >>> >> >> -- >> You received this message because you are subscribed to a topic in the >> Google Groups "spctools-discuss" group. >> To unsubscribe from this topic, visit >> https://groups.google.com/d/topic/spctools-discuss/lpKfFoMiQS0/unsubscribe >> . >> To unsubscribe from this group and all its topics, 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. >> 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. > 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. For more options, visit https://groups.google.com/groups/opt_out.
