Thank you, David. Ubuntu 10 users (or any other system), please feel free to add notes or pages to the wiki. Email me if you need an account there.
:) Natalie On Fri, May 14, 2010 at 12:06 PM, David Trudgian < [email protected]> wrote: > Hi Jesse, > > This problem occurs because recent versions of g++ need the headet file > stdint.h included explicitly to use the types the error messages are > complaining about. You can fix the problem by adding the following line to > the file extern/xtandem/src/saxhandler.h > > #include <stdint.h> > > Put it under the other #include statements that are already there. If you > try to compile again then it should work fine. > > @Natalie - I inadvertently committed this change to trunk in the commit for > my ASAPRatio changes, so it's in trunk. > > DT > > Dr. David Trudgian, Bioinformatician in Proteomics, University of Oxford. > Tel: (+44) (01865 2)87807 (CCMP - Mon-Thu) > Tel: (+44) (01865 2)75557 (Dunn - Friday ) > > ________________________________________ > From: [email protected] [[email protected]] > On Behalf Of Jesse J [[email protected]] > Sent: 14 May 2010 18:17 > To: spctools-discuss > Subject: [spctools-discuss] Installing X! Tandem Under Linux > > I've been running some of the TPP tools under wine, but I'm trying now > to run them as Linux programs, or more specifically, Ubuntu 10.04. I > was following the instructions on the Wiki page for installing TPP > under Linux (http://tools.proteomecenter.org/wiki/index.php? > title=TPP_4.2.1:_Installing_on_Ubuntu_9.04) but I ran into a problem > after the second 'make -j5': > > In file included from saxgamlhandler.h:140, > from loadmspectrum.h:235, > from loadmspectrum.cpp:143: > saxhandler.h:240: error: ‘uint32_t’ has not been declared > saxhandler.h:241: error: ‘uint64_t’ does not name a type > make[3]: *** [linuxloadmspectrum.o] Error 1 > make[3]: Leaving directory `/usr/local/src/tpp-4.2.1/extern/xtandem/ > src' > make[2]: *** [default] Error 2 > make[2]: Leaving directory `/usr/local/src/tpp-4.2.1/extern/xtandem/ > src' > make[1]: *** [xtandem] Error 2 > make[1]: Leaving directory `/usr/local/src/tpp-4.2.1/src' > make: *** [default] Error 2 > > I got this same error when I tried earlier to install X! Tandem by > itself, but trying to resolve it just got me into more problems. > Hoping I could just skip this, I did the next step in the > instructions, which was 'make install', but then I got into another > problem: > > # Create Directories > mkdir -p /usr/local/apps/tpp/ > mkdir -p /usr/local/apps/tpp/bin/ > mkdir -p /usr/local/apps/tpp/cgi-bin/ > mkdir -p /usr/local/apps/tpp/schema/ > # Copy all source executables and configuration files to their > location > cp -f /usr/local/src/tpp-4.2.1/src/../build/linux/ > ASAPRatioPeptideParser /usr/local/apps/tpp/bin/ > cp: cannot stat `/usr/local/src/tpp-4.2.1/src/../build/linux/ > ASAPRatioPeptideParser': No such file or directory > make: *** [install-linux-xml] Error 1 > > I'm not sure if this problem is related or not, but I'm really not > sure how to fix it. Has anyone else come across this problem? > > -- > 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]<spctools-discuss%[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]<spctools-discuss%[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.
