Hello, For running cgi-scripts, there should also be an .hg.conf file in your home working directory with permission set so that only the owner (you) can read/write/execute. Explained here: http://genomewiki.cse.ucsc.edu/index.php/Browser_Installation see the end of section #6
For "make alpha", a checked out copy of the source tree should be in your working directory and any changes made there in your own sandbox. From your path ~kent/src/hg/makeDb/trackDb, run the make program. Check in changes to the main cvs tree before or after running "make [alpha|strict] DBS=<db>". - alpha created lines in the mySQL table trackDb for all tracks - strict makes lines in trackDb only for those tracks that actually have tables (less clustered table, especially for a minimal install) - DBS is optional, using it restricts the command. ex. DBS=hg18 means that only hg18 would be updated These and more details are in the jksrc download at /scr/products/README* Jennifer Jackson UCSC Genome Bioinformatics Group Sridhar A Malkaram wrote: > Hello, > > I have a specific question regarding using cgi-scripts along with > genome-browser. > I want to load a bed file to the mysql database, using hgLoadBed command > from within a cgi script. > > However, it complains that it cannot read the required information from > .hg.conf file despite the fact that I have the .hg.conf file in the > web-user's home directory. > It also cannot find the data base. > > What are the requirements to run hgLoadBed and make alpha commands using a > cgi-script. > > > Thankyou, > > sridhar > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
