problem solved. Have a nice weekend!
On Fri, May 7, 2010 at 12:12 AM, Tiandao Li <[email protected]> wrote: > forget the link. > > > http://research.icts.uiowa.edu/genomebrowser/cgi-bin/hgTrackUi?hgsid=27&c=chrX&g=wigExample > > On Fri, May 7, 2010 at 12:02 AM, Tiandao Li <[email protected]> wrote: > > > Hi Hiram, > > > > I looked through README files several times, src/product/README.trackDb > and > > src/hg/makeDb/trackDb/README. > > > > I loaded my original wig file to UCSC genome browser to ensure the > > data/format is right. > > > > The next are the commands I used to load tracks to local browser. > > > > [l...@research tmp]$ /opt/kent/wigEncode PolII_eland_sorted2.wig > PolII.wig > > PolII.wib > > > > Converted PolII_eland_sorted2.wig, upper limit 4385.00, lower limit 2.00 > > > > [l...@research ~]$ /opt/kent/hgLoadWiggle hg18 wigExample PolII.wig > > > > Connected to database hg18 for track wigExample > > Creating wiggle table definition in hg18.wigExample > > Saving wiggle.tab > > WARNING: Exceeded chrM size 16624 > 16571. dropping 3 data point(s) > > Loading hg18 > > > > [l...@research tmp]$ cp PolII.wib /gbdb/hg18/wib/ > > I don't know the above is needed or not, but I follow the help of > > wigEncode. > > > > [l...@research tmp]$ /opt/kent/hgTrackDb human hg18 trackDb_wigExample > > ~/bin/kent/src/hg/lib/trackDb.sql . > > > > Loaded 1 track descriptions total > > Loaded database hg18 > > [l...@research tmp]$ /opt/kent/hgFindSpec human hg18 > hgFindspec_wigExample > > ~/bin/kent/src/hg/lib/hgFindSpec.sql . > > > > Loaded 0 search specs total > > Loaded database hg18 > > > > also edit hg.conf file, > > > > vim /var/www/html/genomebrowser/cgi-bin/hg.conf > > db.trackDb=trackDb,trackDb_wigExample > > > > Please check the following link, looks like the data and track > > specifications in database, however, there isn't any bars on the website. > > > > Thanks, > > > > Tiandao > > > > > > [l...@research tmp]$ more trackDb.ra > > track wigExample > > > > shortLabel Pol II > > longLabel Pol II in 25-Base Windows > > group user > > priority 23.5 > > visibility full > > autoScale On > > > > maxHeightPixels 128:36:16 > > graphTypeDefault Bar > > gridDefault OFF > > windowingFunction Mean > > color 0,0,0 > > altColor 128,128,128 > > viewLimits 30:70 > > spanList 5 > > type wig 0 100 > > [l...@research tmp]$ > > > > mysql> select * from trackDb_wigExample; > > > > > +------------+------------+-----------+---------------------------+------------+----------+--------+--------+--------+-----------+-----------+-----------+----------+---------+---------------+--------------+-----+------+------+---------+---------------------------------------------------------------------------------------------------------------------------------+ > > | tableName | shortLabel | type | longLabel | > > visibility | priority | colorR | colorG | colorB | altColorR | altColorG > | > > altColorB | useScore | private | restrictCount | restrictList | url | > html | > > grp | canPack | > > settings > > | > > > > > +------------+------------+-----------+---------------------------+------------+----------+--------+--------+--------+-----------+-----------+-----------+----------+---------+---------------+--------------+-----+------+------+---------+---------------------------------------------------------------------------------------------------------------------------------+ > > | wigExample | Pol II | wig 0 100 | Pol II in 25-Base Windows > > | 2 | 23.5 | 0 | 0 | 0 | 128 | > 128 > > | 128 | 0 | 0 | 0 | | | > > | user | 0 | autoScale On > > > > graphTypeDefault Bar > > gridDefault OFF > > maxHeightPixels 128:36:16 > > spanList 5 > > viewLimits 30:70 > > windowingFunction Mean > > | > > > > > +------------+------------+-----------+---------------------------+------------+----------+--------+--------+--------+-----------+-----------+-----------+----------+---------+---------------+--------------+-----+------+------+---------+---------------------------------------------------------------------------------------------------------------------------------+ > > 1 row in set (0.00 sec) > > > > > > > > > > > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
