Good Morning Wuqi:
Your file in your source tree:
src/hg/makeDb/trackDb/human/encodeRikenCageMappedTagsScore.html
is an out of date version. It was updated in January of 2009.
If you have been updating your source tree with a 'cvs update'
please try using the -A argument with that update to remove
any "sticky" tags.
See the note on:
http://genome.ucsc.edu/admin/cvs.html
> To update an existing source tree, use the command: cvs update -A -d -P
> -rbeta.
--Hiram
WANG Wuqi wrote:
> Hi Hiram,
>
> I have the source tree and already built 3 binaries, they are in ~/bin/ ,
>
> -rwxr-xr-x 1 wangp astar 1608624 Nov 26 14:54 hgTrackDb
> -rwxr-xr-x 1 wangp astar 1608636 Nov 26 14:56 hgFindSpec
> -rwxr-xr-x 1 wangp astar 1606352 Nov 26 14:59 hgLoadBed
>
> And I can load BED data successfully and add track entry to file trackDb.ra
> but when do "make alpha DBS=hg18" to encounter errors:
> ==============================================================================
> [email protected]$ pwd
> /home/wangp/jksrc/kent/src/hg/makeDb/trackDb
> [email protected]$ make alpha DBS=hg18
> find . -type l -exec rm {} \;
> #cvs -q up -d -P .
> ./loadTracks -release=alpha trackDb hgFindSpec hg18
> hgTrackDb -priority=human/priority.ra -release=alpha human hg18 trackDb
> ../../lib/trackDb.sql .
> Sorted 4 containers
> Loaded 1499 track descriptions total
> trackDb (encodeRikenCageMappedTagsScore) setting "B" not found for variable
> substitution of "$B" in encodeRikenCageMappedTagsScore
> make: *** [alpha] Error 255
> ==============================================================================
>
> Also I update the 'shortLabel' and 'longLabel' instead of "$o" in table
> hg18.trackDb,
> So the track names no longer appears "$o", because "make" failed, I can not
> know if
> The track names will change back.
>
> Please give advice.
>
>
> Thanks & Regards
>
> Wuqi
>
>
> -----Original Message-----
> From: Hiram Clawson [mailto:[email protected]]
> Sent: Thursday, November 26, 2009 12:17 PM
> To: WANG Wuqi
> Cc: [email protected]
> Subject: Re: [Genome] Track name prefix "$o"
>
>
> Do you have the source tree ? Have you been building
> the binaries for your genome browser installation ?
> If you have the source tree and have been building
> those binaries, go to the directory src/hg/makeDb/hgTrackDb/ and run a make.
>
> Everything needs to be kept in synchronization together.
> The genome browser CGI binaries and the database tables
> and the database loading commands should all be built
> and maintained together as one unit.
>
> Please read the information in the source tree files:
> src/product/README.*
>
> --Hiram
>
>
> WANG Wuqi wrote:
>> Hi Hiram,
>>
>> Thank you for support.
>>
>> hgTrackDb program info:
>> ----------------------------
>> -rwxr-xr-x 1 wangp astar 1445296 Nov 22 2007 hgTrackDb
>> /home/wangp/bin/
>>
>> I can not check its version for program hgTrackDb, what is its up to
>> date version? If this is old version, how to get new one? How to
>> rebuild trackDb tables?
>
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