Thanks Joe! I'll get it from the repository.
Now if I could just get ASAPRatio viewers to work. Maybe the below fix will also help that problem. I'll let you know. Thanks again for your help. Happy Holidays! Brian On Thu, Dec 20, 2012 at 1:49 PM, Joseph Slagel < [email protected]> wrote: > Brian, Eric, > > I just checked into the TPP trunk a fix that corrects the issue. It > turned out to be an invalid use of strcpy() which doesn't seem to manifest > itself on older versions of glibc/gcc and the platforms we regularly use. > > I can provide a patch for your source if you need it or you can get it > from our SourceForge subversion repository. > > -Joe > > > On Fri, Dec 14, 2012 at 6:38 PM, Eric Paniagua <[email protected]>wrote: > >> I am seeing a similar misbehavior in a new Linux installation of TPP >> 4.6.1. While I haven't systematically investigated this apparent >> path-rewriting bug yet (I'm doing RCA on different irregularity in Pep3D), >> I have noted an (awfully crude) workaround to at least get to see some >> images. >> >> 1. Attempt to run Pep3D as usual (through Petunia in my case). >> 2. Replace each missing character with 2 copies of that character. >> 3. Click "Generate Pep3D Images" >> >> In my case, step 2 appears to act as a left inverse for the path mutation >> process which is deleting characters. >> >> Hopefully that is helpful to someone. I would be curious to know about >> cases where this temporary workaround fails, as they may be helpful to know >> when debugging. >> >> I, too, would be grateful to hear from anyone who has sorted this out or >> is attempting to fix it. I can provide more detailed system and >> configuration info for my installation if it would be helpful. >> >> Thanks, >> Eric Paniagua >> Informatics Software Developer >> Cold Spring Harbor Laboratory >> >> On Dec 7, 2012 9:44 AM, "Brian Hampton" <[email protected]> wrote: >> > >> > I am seeing a strange behavior in TPP 4.6.1 (also saw same in 4.5.2) >> Linux install. When I click on the link to generate a Ped3D image of >> either an .mzXML file or a pep.xml file it will re-write the file name and >> then not be able to generate the Pep3D image cause a file with that name >> doesn't exist. For example: >> > >> > /usr/local/tpp/data/projects/s-aorta-1/121205_Saorta1_Guan-6.mzXML is >> the input file to Pep3D and it will re-write the file name to: >> > >> > /usr/local/tpp/data/projects/s-aorta-1/121205_Sarta1_Guan-6.mzXML and >> then fail cause that file doesn't exist. Note the missing "o". >> > >> > If I keep clicking the button to generate the Pep3D image it will >> continue to delete certain letters and then I got this: >> > >> > >> /usr/local/tpp/data/projects/s-aorta-1/121205_Saa1_Guan-6.mzXMLmzRange=Full >> > >> > The mzXML files are generated by MSConvert on a PC from a thermo .raw >> file no options other than 32 bit. >> > >> > Any clues? >> > >> > Thanks in advance, >> > >> > Brian >> > >> > -- >> > 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. >> > > -- > 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.
