Hi Zhi-Wei, Thank you for reporting this bug. I just pushed a fix to our main git repository (commit id 625a9fdc), but it may take some time to appear on the public server.
The bug affects only compiles without the environment variable USE_BAM=1, which is set in our default compile for development. If you would like support for BAM data in your browser mirror (and fewer compile bugs :), see http://genomewiki.ucsc.edu/index.php/Build_Environment_Variables . Hope that helps and please write back to the list if you encounter any more trouble or have questions. Angie ----- "Zhi-Wei Lu" <[email protected]> wrote: > From: "Zhi-Wei Lu" <[email protected]> > To: [email protected] > Sent: Friday, February 11, 2011 9:03:51 AM GMT -08:00 US/Canada Pacific > Subject: [Genome] error compiling uscs genome browser > > Hi, > > I am trying to update our uscs genome browser to the latest in git. When > I tried to make lib, I am getting this error: > > bamFile.c:816: error: conflicting types for ‘bamOpen’ > ../inc/bamFile.h:66: error: previous declaration of ‘bamOpen’ was here > cc1: warnings being treated as errors > bamFile.c:847: warning: ‘struct samfile_t’ declared inside parameter list > bamFile.c:847: warning: its scope is only this definition or > declaration, which is probably not what you want > bamFile.c:850: error: conflicting types for ‘bamReadNextSamAlignments’ > ../inc/bamFile.h:62: error: previous declaration of > ‘bamReadNextSamAlignments’ was here > make[1]: *** [bamFile.o] Error 1 > make[1]: Leaving directory > `/gbdb2/src/ucsc_genome_browser/kent/src/hg/lib' > make: *** [hgLib] Error 2 > > Does anyone know what the problem is, am I missing something? > > I am working on a CentOS 5.5 x86_64 system. > > Thank you. > > -- > Zhi-Wei Lu > Bioinformatics Core > Genome Center > University of California, Davis > (530) 752-2698 > > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
