As I mentioned before, you need to put your minimum and maximum values of your data on your 'type wig' line. Look at the trackDb/README file for examples, and in many of the existing trackDb.ra files.
--Hiram WANG Wuqi wrote: > Hi Jennifer Jackson, > > Answer below: > > When you say compile track, do you mean that you ran "make" from the > directory kent/src/hg/makeDb/trackDb ? > >>>>> Yes, command is "make alpha DBS=hg18" in above directory > > Some simple things to check. I am assuming that you used an existing > track and copied that trackDb.ra file data to create your own. > 1) What "group" was the track assigned to? This is where to look. You > may want to make up your own group for your own local data. > >>>>> our own group 'gistrack', there are many tracks in this group > > 2) Is the track set as visible? -- trackDb.visibility > 3) Did you add the data to to the top level for the organism or down in > the particular assembly's trackDb.ra file? Are there any > tableName/shortLabel/longLable conflicts? > > data in trackDb.ra: > ------------------- > track chr2_positive_strand > shortLabel chr2_positive_strand > longLabel chr2_positive_strand > group gistrack > priority 58 > visibility hide > color 175,150,128 > altColor 255,128,0 > type wig > ------------------- > 4) Did you create an html track description? > >>>>> No > > If you want to send in the section of your trackDb.ra file with the > track's data (to just Hiram and me) we can look at it and provide > feedback. Please also send the exact command you used to run "make" to > update the database, the path of the trackDb.ra file, and the cvs > version of the trackDb.ra file that you started with. >>>>> tracjDb.ra as attachment >>>>> make alpha DBS=hg18 in > /home/wangp/jksrc/kent/src/hg/makeDb/trackDb( > this is our installation path). > >>>>> trackDb.ra path: > /home/wangp/jksrc/kent/src/hg/makeDb/trackDb/human/hg18 >>>>> it seems there is not version control for trackDb.ra > > By the way, we can add any other permanent trackpara in our group > 'gistrack' > And no any problems, but only this 2-columns wiggle can not be seen. > > > Thanks & Regards > > Wuqi > > > -----Original Message----- > From: Jennifer Jackson [mailto:[email protected]] > Sent: Saturday, June 20, 2009 3:36 AM > To: WANG Wuqi > Cc: Hiram Clawson; [email protected] > Subject: Re: [Genome] Load Wiggle Error > > > Hello, > > When you say compile track, do you mean that you ran "make" from the > directory kent/src/hg/makeDb/trackDb ? > > Some simple things to check. I am assuming that you used an existing > track and copied that trackDb.ra file data to create your own. > 1) What "group" was the track assigned to? This is where to look. You > may want to make up your own group for your own local data. > 2) Is the track set as visible? -- trackDb.visibility > 3) Did you add the data to to the top level for the organism or down in > the particular assembly's trackDb.ra file? Are there any > tableName/shortLabel/longLable conflicts? > 4) Did you create an html track description? > > If you want to send in the section of your trackDb.ra file with the > track's data (to just Hiram and me) we can look at it and provide > feedback. Please also send the exact command you used to run "make" to > update the database, the path of the trackDb.ra file, and the cvs > version of the trackDb.ra file that you started with. > > Jennifer Jackson > UCSC Genome Bioinformatics Group > > WANG Wuqi wrote: >> Hi Hiram, >> >> Sorry late for replying. >> >> This data can do custom track, no any problems. >> >> I want to do a permanent track for this data, and load data, add entry > >> in trackDb.ra and compile track are ok, but we can not see this track >> in genome browser. I can query this table from database and see many >> rows, also there is this >> track's info in table 'trackDb'. >> >> My problems is why this permanent track can not display in genome >> browser? >> >> >> Thanks & Regards >> >> Wuqi >> >> >> >> >> -----Original Message----- >> From: Hiram Clawson [mailto:[email protected]] >> Sent: Thursday, June 11, 2009 1:16 AM >> To: WANG Wuqi >> Cc: [email protected]; OW Jack Ling; LEE Seow Eng >> Subject: Re: Load Wiggle Error >> >> Your data is only on chr2, look at chr2 for your track. >> >> Look in your Apache error log to see if there are any >> errors indicating what may be missing. >> >> Verify your custom track database configuration: >> http://genomewiki.ucsc.edu/index.php/Using_custom_track_database >> >> --Hiram >> >> WANG Wuqi wrote: >> >>> Hi Hiram, >>> >>> The data of Wiggle format can be uploaded to our Genome browser >>> mirror side and MySQL table has this data, no encounter any problems. >>> >>> But the problem is that we can not see this track in Genome browser. >>> >>> Source data as attachment >>> >>> Please help >>> >>> >>> Thanks & Regards >>> >>> Wuqi >>> >> _______________________________________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/mailman/listinfo/genome >> _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
