Must be the time difference. Does Seattle observe daylight savings time? My SVN root is :https://sashimi.svn.sourceforge.net/svnroot/sashimi/ trunk/trans_proteomic_pipeline/src/Parsers/Algorithm2XML/Sequest2XML I'm at version 4775
At line 752 in out2xml.cxx I have: for (i=2; i <strlen(szPep)-2; i++) i is defined as: int (signed) and strlen returns size_t an Unsigned integral I think C++ might be a little OCD. Thanks, Bill On Nov 17, 2:42 pm, Brian Pratt <[email protected]> wrote: > Glad it's coming along. > > There is some weirdness here, though - my copy of out2xml.cxx doesn't have a > comparison operator at line 752, and it's current with SVN. > > Brian > > > > On Tue, Nov 17, 2009 at 8:24 AM, Bill Nelson <[email protected]> wrote: > > > Hi Brian, > > Well, here's a guess to what is happening. The C:\sashimi\trunk > > \trans_proteomic_pipeline\extern>bsdtar-1_2_38.exe -xjf > > boost_1_39_0.tar.bz2 command takes about five minutes. It takes so > > long because it prints " Can't set permissions: Function not > > implemented" for every file. When the build is started with VS8 the > > extraction is running in the background but the build keeps running. > > After the build completes, with a lot of missing boost library > > errors, boost_1_39_0.tar.bz2 still has not finished extracting but the > > extraction process is killed when the build script ends leaving a > > corrupted boost_1_39_0 directory. > > So, if I do a clean, manually run bsdtar-1_2_38.exe -xjf > > boost_1_39_0.tar.bz2, and then do a build everything works except for > > two errors. I do have BioworksBrowser 3.3.1 SP1 installed on this PC: > > > 24>------ Build started: Project: Out2XML, Configuration: Release > > Win32 ------ > > 24>Compiling... > > 23>Compiling... > > 24>SequestOut.cxx > > 23>StdAfx.cpp > > 24>SequestHit.cxx > > 24>Out2XMLMain.cxx > > 23>Compiling... > > 23>ThermoInterface.cpp > > 24>Out2XML.cxx > > 24>.\Out2XML.cxx(752) : error C2220: warning treated as error - no > > 'object' file generated > > 24>.\Out2XML.cxx(752) : warning C4018: '<' : signed/unsigned mismatch > > 24>Generating Code... > > 23>SimpleXMLWriter.cpp > > 24>Build log was saved at "file://c:\sashimi\trunk > > \trans_proteomic_pipeline\src\Parsers\Algorithm2XML\Sequest2XML\Release > > \BuildLog.htm" > > 24>Out2XML - 1 error(s), 1 warning(s) > > > 37>------ Build started: Project: CombineOut, Configuration: Release > > Win32 ------ > > 37>Compiling... > > 37>SequestOut.cxx > > 37>SequestHit.cxx > > 37>Out2XML.cxx > > 37>.\Out2XML.cxx(752) : error C2220: warning treated as error - no > > 'object' file generated > > 37>.\Out2XML.cxx(752) : warning C4018: '<' : signed/unsigned mismatch > > 37>CombineOutMain.cxx > > 37>CombineOut.cxx > > 37>Build log was saved at "file://c:\sashimi\trunk > > \trans_proteomic_pipeline\src\Parsers\Algorithm2XML\Sequest2XML\Release > > \BuildLog.htm" > > 37>CombineOut - 1 error(s), 1 warning(s) > > > The Centos build worked well. The pre-install scripts are very > > helpful. > > > Thanks for your help. > > Bill > > > On Nov 16, 5:40 pm, Brian Pratt <[email protected]> wrote: > > > Try opening a command window, cd to the extern directory, and run > > > build_boost_vc8.bat > > > > Should have happened automatically, I wonder what's up. > > > > Brian > > > > On Mon, Nov 16, 2009 at 12:27 PM, Bill Nelson <[email protected]> > > wrote: > > > > > Can you tell me how to extract the external libs manually or how to > > > > troubleshoot the makefile? > > > > Thanks, > > > > Bill > > > > > On Nov 16, 1:34 pm, Brian Pratt <[email protected]> wrote: > > > > > Bill, > > > > > > Agreed, it's bad when the docs get stale. I'll update that windows > > > > readme. > > > > > > As to the IDE, I'm with you but the bulk of the TPP developers are > > linux > > > > > folk. > > > > > > Brian > > > > > > On Mon, Nov 16, 2009 at 9:13 AM, Bill Nelson <[email protected]> > > > > wrote: > > > > > > > Okay, I got a little side tracked but I'm back. I'm not a C++ > > > > > > programmer so I don't think I'll be much help maintaining the VS8 > > > > > > build. I'm using VS8 because in the past this was the easiest way > > for > > > > > > me to build the TPP on windows and from the perspective of a Java > > > > > > programmer it is difficult for me to understand how one could > > > > > > sacrifice the productivity of an IDE on such a large project. > > > > > > > I did check out the trunk and did a clean release build. Boost did > > not > > > > > > extract. I'm very grateful for open source contribution of the TPP > > and > > > > > > I do understand how difficult it is to maintain documentation but > > it > > > > > > would have saved me a lot of time if, at least, the README file had > > > > > > been updated when the build procedure was changed. > > > > > > Thanks, > > > > > > Bill > > > > > > > On Nov 9, 11:59 am, Brian Pratt <[email protected]> wrote: > > > > > > > >>Can you please guide me to the correct win_lib folder for the > > trunk > > > > or > > > > > > > > is it no longer needed? > > > > > > > No longer needed. Instead, things are extracted as needed from > > > > > > compressed > > > > > > > files in extern. Ordinarily that happens seamlessly as part of > > the > > > > build > > > > > > > process (but as we have seen, in the case of VC you need to do a > > > > release > > > > > > > buld first to trigger the uncompressing). > > > > > > > > Such is life in trunk. > > > > > > > > Brian > > > > > > > > On Mon, Nov 9, 2009 at 7:27 AM, Bill Nelson < > > [email protected]> > > > > > > wrote: > > > > > > > > > The newer releases don't extract the external libraries. > > > > > > > > I was using the XML_only solution. I switched to the plain > > vanilla > > > > TPP > > > > > > > > solution, rebuilt ziplib , and everything works now. > > > > > > > > I would like to use the trunk but it does not match the > > > > documentation: > > > > > > > > I can't find the win_lib folder in the trunk. > > > > > > > > Can you please guide me to the correct win_lib folder for the > > trunk > > > > or > > > > > > > > is it no longer needed? > > > > > > > > > Thanks, > > > > > > > > Bill > > > > > > > > > On Nov 6, 6:27 pm, Brian Pratt <[email protected]> > > wrote: > > > > > > > > > Just about everything links against tpplib, so yes, if that's > > not > > > > > > happy > > > > > > > > > nobody's happy. And tpplib depends on zlib, so... > > > > > > > > > > I think you're better off looking forward than backward, > > though, > > > > and > > > > > > I'd > > > > > > > > say > > > > > > > > > go with trunk. > > > > > > > > > > On Fri, Nov 6, 2009 at 2:39 PM, Bill Nelson < > > > > [email protected]> > > > > > > > > wrote: > > > > > > > > > > > I couldn't get 4.3 to work so I went back to 4.2 (because > > it > > > > was > > > > > > the > > > > > > > > > > release used in the documentation's build example). > > > > > > > > > > It definitely got better and the build was running for > > about 45 > > > > > > > > > > minutes but still no joy. I hope you've seen this one: > > > > > > > > > > > LIB : fatal error LNK1181: cannot open input file > > 'C:\sashimi > > > > > > > > > > \release4-2-1\trans_proteomic_pipeline\src\/Debug/zlib.lib' > > > > > > > > > > LINK : fatal error LNK1181: cannot open input file > > > > '..\..\..\debug > > > > > > > > > > \tpplib.lib' *this one happens in almost every target* > > > > > > > > > > > ========== Build: 7 succeeded, 38 failed, 0 up-to-date, 0 > > > > skipped > > > > > > > > > > ========== > > > > > > > > > > > On Nov 6, 2:05 pm, Brian Pratt <[email protected]> > > > > wrote: > > > > > > > > > > > Branch should be fine - trunk build system is being > > worked on > > > > so > > > > > > no > > > > > > > > > > surprise > > > > > > > > > > > to find a hiccup there. > > > > > > > > > > > > On Fri, Nov 6, 2009 at 10:41 AM, Bill Nelson < > > > > > > [email protected]> > > > > > > > > > > wrote: > > > > > > > > > > > > > Hi Brian, > > > > > > > > > > > > I am using branch 4-3. do you know the last release > > that > > > > > > working? > > > > > > > > > > > > Thanks for your help. > > > > > > > > > > > > Bill > > > > > > > > > > > > > On Nov 6, 1:16 pm, Brian Pratt < > > [email protected]> > > > > > > wrote: > > > > > > > > > > > > > Try a release build first - it handles the > > uncompressing > > > > > > stuff. > > > > > > > > > > > > Apparently > > > > > > > > > > > > > just an oversight on the debug side, I'm sure it will > > get > > > > > > fixed > > > > > > > > soon, > > > > > > > > > > but > > > > > > > > > > > > > this should get you rolling. > > > > > > > > > > > > > > On Fri, Nov 6, 2009 at 7:58 AM, Bill Nelson < > > > > > > > > [email protected]> > > > > > > > > > > > > wrote: > > > > > > > > > > > > > > > I'm building tpp on windows with VS8. I checked > > out > > > > 4.3. I > > > > > > > > have a > > > > > > > > > > > > > > couple questions. > > > > > > > > > > > > > > > 1. I wanted to check out the trunk but I could only > > > > find > > > > > > > > win_lib in > > > > > > > > > > > > > > the branches; where is win_lib for the trunk? > > > > > > > > > > > > > > 2. I assume I need to extract some of the external > > > > libs > > > > > > but I > > > > > > > > > > can't > > > > > > > > > > > > > > find anything in the readme files. In extern I > > found: > > > > > > > > > > > > > > bjam_src.tgz > > > > > > > > > > > > > > boost_1_39_0.tar.bz2 > > > > > > > > > > > > > > expat-2.0.1.tar.gz > > > > > > > > > > > > > > libarchive-2.2.7.tar.gz > > > > > > > > > > > > > > sqlite-amalgamation-3.6.15.tar.gz > > > > > > > > > > > > > > Which ones do I need and where do they go? > > > > > > > > > > > > > > > It looks like the build script tried to extract > > them > > > > but I > > > > > > > > can't > > > > > > > > > > find > > > > > > > > > > > > > > any boost stuff other than the archive and there > > are a > > > > lot > > > > > > > > can't > > > > > > > > > > find > > > > > > > > > > > > > > boost errors in the build: > > > > > > > > > > > > > > > 1>zlib - 0 error(s), 14 warning(s) > > > > > > > > > > > > > > 3>------ Build started: Project: boost_vc8, > > > > Configuration: > > > > > > > > Debug > > > > > > > > > > Win32 > > > > > > > > > > > > > > ------ > > > > > > > > > > > > > > 4>------ Build started: Project: > > > > regenerate_versionInfo, > > > > > > > > > > > > > > Configuration: Debug Win32 ------ > > > > > > > > > > > > > > 3>Performing Makefile project actions > > > > > > > > > > > > > > 3>Setting environment for using Microsoft Visual > > Studio > > > > > > 2005 > > ... > > read more » -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. 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