HI Eric, I went ahead and checked which version were available and used the 7922, it now compiled and installed successfully. After some permissions troubleshooting with apache I have it running! I followed the "testing ". The only thing that is not working is to check for the ions in the pepxml file. I get the following error:
Error - scan 10000 is an *MS1* scan in the mzXML file > /home/laptop/Documents/TPP_data/tests/QuickYeastUPS1/UPS1_50000amol_R1.mzML I can click on the Spectrum and see the peptide table but whenever I click on the ions I see that error. Otherwise the rest of the test goes fine. Alejandro On Saturday, May 18, 2019 at 4:37:34 AM UTC+2, Alejandro wrote: > > HI Eric, > > I think it was the 7909, but I'm not 100% sure. I could try again using > the 7909. > > Alejandro > > On Saturday, May 18, 2019 at 1:00:39 AM UTC+2, Eric Deutsch wrote: >> >> Hi Alejandro, which checkout did you do? Was it this? >> >> >> >> svn checkout -r 7909 >> http://svn.code.sf.net/p/sashimi/code/trunk/trans_proteomic_pipeline >> >> >> >> Or a little different? >> >> >> >> Thanks, >> >> Eric >> >> >> >> >> >> *From:* [email protected] <[email protected]> *On >> Behalf Of *Alejandro >> *Sent:* Friday, May 17, 2019 2:57 PM >> *To:* spctools-discuss <[email protected]> >> *Subject:* [spctools-discuss] TPP 5.2 compile error Ubuntu 18.04 >> >> >> >> Hello all, >> >> >> >> Im trying to install TPP 5.2 on a computer running Ubuntu 18.04. I'm >> following the guide but so far I have been unsuccessful. I just changed the >> username and kept the tpp group. The install location is as is in the >> guide, and the /dat would be different. After running >> >> make all >> >> As per the guide I tried to run again (make all) but always throws the >> same error. >> >> >> I get the following error:; >> >> >> >> *~/svn/trans_proteomic_pipeline$ make all* >> >> >> >> g++ -g -std=c++11 -Wno-deprecated -D_FILE_OFFSET_BITS=64 >> -D_LARGEFILE_SOURCE -DTPPLIB >> -I/home/laptop/svn/trans_proteomic_pipeline/src >> -I/home/laptop/svn/trans_proteomic_pipeline/build/gnu-x86_64/include >> -D__LINUX__ -fPIC -MMD -c -o >> /home/laptop/svn/trans_proteomic_pipeline/build/gnu-x86_64/artifacts/Parsers/mzParser/saxmzmlhandler.o >> >> /home/laptop/svn/trans_proteomic_pipeline/src/Parsers/mzParser/saxmzmlhandler.cpp >> >> >> /home/laptop/svn/trans_proteomic_pipeline/src/Parsers/mzParser/saxmzmlhandler.cpp:571:58: >> >> error: no ‘bool mzpSAXMzmlHandler::readHeaderFromOffset(f_off)’ member >> function declared in class ‘mzpSAXMzmlHandler’ >> >> bool mzpSAXMzmlHandler::readHeaderFromOffset(f_off offset){ >> >> >> ^ >> >> /home/laptop/svn/trans_proteomic_pipeline/src/Parsers/mzParser/saxmzmlhandler.cpp:633:60: >> >> error: no ‘bool mzpSAXMzmlHandler::readSpectrumFromOffset(f_off)’ member >> function declared in class ‘mzpSAXMzmlHandler’ >> >> bool mzpSAXMzmlHandler::readSpectrumFromOffset(f_off offset){ >> >> >> ^ >> >> /home/laptop/svn/trans_proteomic_pipeline/src/Parsers/Makefile:87: recipe >> for target >> '/home/laptop/svn/trans_proteomic_pipeline/build/gnu-x86_64/artifacts/Parsers/mzParser/saxmzmlhandler.o' >> >> failed >> >> make: *** >> [/home/laptop/svn/trans_proteomic_pipeline/build/gnu-x86_64/artifacts/Parsers/mzParser/saxmzmlhandler.o] >> >> Error 1 >> >> >> >> >> >> The "^" sign is bellow the closing parenthesis on (f_off offset) and on >> my terminal is highlighted in red >> >> >> >> I really don't know how to troubleshoot this. >> >> >> >> Any help would be appreciated. >> >> >> >> Alejandro >> >> >> >> >> >> -- >> 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 https://groups.google.com/group/spctools-discuss. >> To view this discussion on the web visit >> https://groups.google.com/d/msgid/spctools-discuss/e9e10909-7716-4f46-accd-42e4fd33f010%40googlegroups.com >> >> <https://groups.google.com/d/msgid/spctools-discuss/e9e10909-7716-4f46-accd-42e4fd33f010%40googlegroups.com?utm_medium=email&utm_source=footer> >> . >> For more options, visit https://groups.google.com/d/optout. >> > -- 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 https://groups.google.com/group/spctools-discuss. To view this discussion on the web visit https://groups.google.com/d/msgid/spctools-discuss/293e1912-09f0-4039-ad0e-80f62a3c201e%40googlegroups.com. For more options, visit https://groups.google.com/d/optout.
