When these programs are operating under the cgi-bin control, they are using the MySQL access user name and password that is specified in the cgi-bin/hg.conf file, not in the unix user home directory ~/.hg.conf file.
Note this section of the cgi-bin/hg.conf file: > > # See also: > # http://genomewiki.ucsc.edu/index.php?title=Using_custom_track_database > # Use these settings to provide host, user, and password settings > customTracks.host=<your specific host name> > customTracks.user=<your specific MySQL user for this function> > customTracks.password=<MySQL password for specified user> > customTracks.useAll=yes > customTracks.tmpdir=/data/tmp/ct > # tmpdir of /data/tmp is the default location if not specified here > # Set this to a directory as recommended in the genomewiki > # discussion mentioned above. --Hiram Abhishek Goel wrote: > Hello Hiram, > > I've been trying to get the custom tracks to work on out mirror and i'm > still having problems. > > i managed to compile the hgLoadBed and hgLoadWiggle files thanks to your > help. > > However, when I give the hgLoadBed hg17 bedExample data.bed command, i get > the following error: > > *[r...@franknstein ~]# hgLoadBed hg17 bedExample data.bed* > *Reading data.bed* > *Loaded 2 elements of size 12* > *Sorted* > *Creating table definition for bedExample* > *Can't start query:* > *CREATE TABLE bedExample (* > * bin smallint unsigned not null,* > * chrom varchar(255) not null,* > * chromStart int unsigned not null,* > * chromEnd int unsigned not null,* > * name varchar(255) not null,* > * score int unsigned not null,* > * strand char(1) not null,* > * thickStart int unsigned not null,* > * thickEnd int unsigned not null,* > * reserved int unsigned not null,* > * blockCount int unsigned not null,* > * blockSizes longblob not null,* > * chromStarts longblob not null,* > *#Indices* > * INDEX(name(16)),* > * INDEX(chrom(13),bin)* > *)* > * > * > * > * > *mySQL error 1005: Can't create table 'bedExample' (errno: 13)* > * > * > > I'm logged in as root and in the $HOME/.hg.conf file the dbuser and > centraluser accounts are both root (just to see if it really was a > permissions issue). > > When I give the hgLoadWiggle mm9 wigExample > EDITED.chip.negative.aln.sort.wig command I get the following error: > > *[r...@franknstein ~]# hgLoadWiggle mm9 wigExample > EDITED.chip.negative.aln.sort.wig* > *Expecting 13 words line 1 of EDITED.chip.negative.aln.sort.wig got 4* > > In both cases, I've uploaded the files using the browser in the using the > "add custom tracks" option and it works. > > I'd appreciate if you can point out what I'm doing wrong. > > Abhishek > > > Abhishek Goel > Staff Research Associate > Geschwind Laboratory, UCLA Neurology > Gonda Neuroscience and Genetics Research Center #2309 > University of California Los Angeles > 695 Charles E. Young Dr. South > Los Angeles, CA 90095 > Tel: (310) 794-7537 > Fax: (310) 267-2401 > > > > > > On Thu, Nov 12, 2009 at 7:52 PM, Hiram Clawson <[email protected]> wrote: > >> Please note the discussion about MySQL database permissions >> >> in the source tree file: >> src/product/README.mysql.setup >> >> --Hiram >> >> >> Jennifer Jackson wrote: >> >>> Hello, >>> It looks as if permission to create tables in the database has not been >>> granted to you (or the user name you are using). Confirm with your DBA that >>> your user name has create/modify/drop table permissions. Or, perhaps there >>> is no disc space? >>> Jennifer >>> >>> ------------------------------------------------ Jennifer Jackson UCSC >>> Genome Bioinformatics Group >>> ----- "Abhishek Goel" <[email protected]> wrote: >>> >>> From: "Abhishek Goel" <[email protected]> >>>> To: "Hiram Clawson" <[email protected]> >>>> Cc: [email protected] >>>> Sent: Thursday, November 12, 2009 3:00:31 PM GMT -08:00 US/Canada Pacific >>>> Subject: Re: [Genome] Saved custom tracks >>>> >>>> Hello Hiram, >>>> >>>> That works. thank you so much. Sorry I require so much hand holding >>>> with >>>> this. >>>> >>>> I have another question. When I try to load a BED file into the >>>> custom >>>> tracks I get the following error: >>>> >>>> >>>> [r...@franknstein ~]# hgLoadBed rheMac2 bedrheMacExample >>>> >>>> Abhishek-bfast.reported.file.080513_HWI-EAS172_20DYG.l7.Mac2MacCombo.2MM.k18w19.v2.2.bed >>>> >>>> Reading >>>> >>>> Abhishek-bfast.reported.file.080513_HWI-EAS172_20DYG.l7.Mac2MacCombo.2MM.k18w19.v2.2.bed >>>> Loaded 3688697 elements of size 4 >>>> Sorted >>>> Creating table definition for bedrheMacExample >>>> Can't start query: >>>> CREATE TABLE bedrheMacExample ( >>>> bin smallint unsigned not null, >>>> chrom varchar(255) not null, >>>> chromStart int unsigned not null, >>>> chromEnd int unsigned not null, >>>> name varchar(255) not null, >>>> #Indices >>>> INDEX(name(16)), >>>> INDEX(chrom(5),bin) >>>> ) >>>> >>>> >>>> mySQL error 1005: Can't create table 'bedrheMacExample' (errno: 13) >>>> >>>> >>>> I checked the forums and it seems to be an issue with some database >>>> cleaning >>>> script on the genome browser. However, there wasn't any solution >>>> mentioned. >>>> >>>> >>>> Abhishek Goel >>>> Staff Research Associate >>>> Geschwind Laboratory, UCLA Neurology >>>> Gonda Neuroscience and Genetics Research Center #2309 >>>> University of California Los Angeles >>>> 695 Charles E. Young Dr. South >>>> Los Angeles, CA 90095 >>>> Tel: (310) 794-7537 >>>> Fax: (310) 267-2401 >>>> >>>> >>>> >>>> >>>> >>>> On Tue, Nov 10, 2009 at 9:55 PM, Hiram Clawson <[email protected]> >>>> wrote: >>>> >>>> Add -lssl to your MYSQLLIBS environment variable. >>>>> You mysql libraries are SSL enabled. You may need >>>>> to properly install the mysql development system. >>>>> Check the output of this command on your system: >>>>> $ rpm -qa | grep -i mysql >>>>> >>>>> It should say something about MySQL-devel >>>>> >>>>> See also, helpful work around discussion for build >>>>> problems in the source tree file: >>>>> kent/src/README.building.source >>>>> >>>>> >>>>> --Hiram >>>>> >>>>> Abhishek Goel wrote: >>>>> >>>>> Hello Hiram, >>>>>> At first my particular distribution was missing the >>>>>> >>>>> libmysqlclient.a file. >>>>> I >>>>>> managed to get that from another one of our servers and set the >>>>>> environment >>>>>> variable to its location. >>>>>> >>>>>> I used CVS to get the source tree. >>>>>> >>>>>> When I type make in the kent/src/hg/makeDb/hgTrackDb directory I >>>>>> >>>>> get the >>>>> following error: >>>>>> gcc -O -g -Wall -Werror -Wformat -Wimplicit -Wreturn-type >>>>>> >>>>> -Wuninitialized >>>>> -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE >>>>> -DMACHTYPE_x86_64 >>>>> -Wall -Werror -Wformat -Wimplicit -Wreturn-type -Wuninitialized >>>>> -I../inc >>>>> -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc >>>>> -o >>>>> hgTrackDb.o -c hgTrackDb.c >>>>>> gcc -O -g -Wall -Werror -Wformat -Wimplicit -Wreturn-type >>>>>> >>>>> -Wuninitialized >>>>> -o /root/bin/x86_64/hgTrackDb hgTrackDb.o >>>>> ../../../lib/x86_64/jkhgap.a >>>>> ../../../lib/x86_64/jkweb.a -lm /usr/lib64/mysql/libmysqlclient.a >>>>> -lz >>>>> /usr/lib64/mysql/libmysqlclient.a(client.o): In function >>>>>> `mysql_close_free_options': >>>>>> (.text+0xdb5): undefined reference to `SSL_CTX_free' >>>>>> /usr/lib64/mysql/libmysqlclient.a(client.o): In function >>>>>> `mysql_get_ssl_cipher': >>>>>> (.text+0x1155): undefined reference to `SSL_get_current_cipher' >>>>>> /usr/lib64/mysql/libmysqlclient.a(client.o): In function >>>>>> `mysql_real_connect': >>>>>> (.text+0x3879): undefined reference to `SSL_get_peer_certificate' >>>>>> /usr/lib64/mysql/libmysqlclient.a(client.o): In function >>>>>> `mysql_real_connect': >>>>>> (.text+0x3891): undefined reference to `X509_get_subject_name' >>>>>> /usr/lib64/mysql/libmysqlclient.a(client.o): In function >>>>>> `mysql_real_connect': >>>>>> (.text+0x38a1): undefined reference to `X509_NAME_oneline' >>>>>> /usr/lib64/mysql/libmysqlclient.a(client.o): In function >>>>>> `mysql_real_connect': >>>>>> (.text+0x38a9): undefined reference to `X509_free' >>>>>> /usr/lib64/mysql/libmysqlclient.a(client.o): In function >>>>>> `mysql_get_ssl_cipher': >>>>>> (.text+0x1161): undefined reference to `SSL_CIPHER_get_name' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function `ssl_do': >>>>>> (.text+0x54): undefined reference to `SSL_new' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function `ssl_do': >>>>>> (.text+0x68): undefined reference to `SSL_clear' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function `ssl_do': >>>>>> (.text+0x70): undefined reference to `SSL_get_session' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function `ssl_do': >>>>>> (.text+0x7b): undefined reference to `SSL_SESSION_set_timeout' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function `ssl_do': >>>>>> (.text+0x86): undefined reference to `SSL_set_fd' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function `ssl_do': >>>>>> (.text+0x99): undefined reference to `SSL_get_fd' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function `ssl_do': >>>>>> (.text+0x105): undefined reference to `ERR_get_error_line_data' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function `ssl_do': >>>>>> (.text+0x112): undefined reference to `SSL_free' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function `ssl_do': >>>>>> (.text+0x155): undefined reference to `ERR_get_error_line_data' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function >>>>>> >>>>> `sslconnect': >>>>> (.text+0x161): undefined reference to `SSL_connect' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function >>>>>> >>>>> `sslaccept': >>>>> (.text+0x171): undefined reference to `SSL_accept' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function >>>>>> >>>>> `vio_ssl_close': >>>>> (.text+0x1a6): undefined reference to `SSL_set_quiet_shutdown' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function >>>>>> >>>>> `vio_ssl_close': >>>>> (.text+0x1ae): undefined reference to `SSL_shutdown' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function >>>>>> >>>>> `vio_ssl_delete': >>>>> (.text+0x1ec): undefined reference to `SSL_free' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function >>>>>> >>>>> `vio_ssl_write': >>>>> (.text+0x228): undefined reference to `SSL_write' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viossl.o): In function >>>>>> >>>>> `vio_ssl_read': >>>>> (.text+0x238): undefined reference to `SSL_read' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x71): undefined reference to `SSL_CTX_new' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x8e): undefined reference to `SSL_CTX_set_cipher_list' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0xa7): undefined reference to >>>>>> >>>>> `SSL_CTX_load_verify_locations' >>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0xc8): undefined reference to >>>>>> >>>>> `SSL_CTX_use_certificate_file' >>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0xe7): undefined reference to `SSL_CTX_use_PrivateKey_file' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0xf7): undefined reference to `SSL_CTX_check_private_key' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x107): undefined reference to `DH_new' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x127): undefined reference to `BN_bin2bn' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x13c): undefined reference to `BN_bin2bn' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x167): undefined reference to `SSL_CTX_ctrl' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x16f): undefined reference to `DH_free' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x1a5): undefined reference to >>>>>> >>>>> `SSL_CTX_set_default_verify_paths' >>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x1d5): undefined reference to `ERR_get_error_line_data' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x1e5): undefined reference to `SSL_CTX_free' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x208): undefined reference to `SSL_load_error_strings' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x220): undefined reference to `SSL_library_init' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x225): undefined reference to >>>>>> >>>>> `OPENSSL_add_all_algorithms_noconf' >>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x278): undefined reference to `ERR_get_error_line_data' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x2d6): undefined reference to `DH_free' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x30d): undefined reference to `ERR_get_error_line_data' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x31b): undefined reference to `SSL_CTX_free' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLFd': >>>>>> (.text+0x35d): undefined reference to `ERR_get_error_line_data' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLAcceptorFd': >>>>>> (.text+0x39d): undefined reference to `TLSv1_server_method' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLAcceptorFd': >>>>>> (.text+0x3d0): undefined reference to `SSL_CTX_ctrl' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLAcceptorFd': >>>>>> (.text+0x3e2): undefined reference to `SSL_CTX_set_verify' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLAcceptorFd': >>>>>> (.text+0x3f2): undefined reference to >>>>>> >>>>> `SSL_CTX_set_session_id_context' >>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `vio_verify_callback': >>>>>> (.text+0x452): undefined reference to >>>>>> >>>>> `X509_STORE_CTX_get_current_cert' >>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `vio_verify_callback': >>>>>> (.text+0x45a): undefined reference to `X509_get_subject_name' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `vio_verify_callback': >>>>>> (.text+0x46a): undefined reference to `X509_NAME_oneline' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `vio_verify_callback': >>>>>> (.text+0x4b8): undefined reference to `X509_get_issuer_name' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `vio_verify_callback': >>>>>> (.text+0x4c8): undefined reference to `X509_NAME_oneline' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `vio_verify_callback': >>>>>> (.text+0x4d4): undefined reference to `X509_STORE_CTX_get_error' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `vio_verify_callback': >>>>>> (.text+0x4dc): undefined reference to >>>>>> >>>>> `X509_STORE_CTX_get_error_depth' >>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLConnectorFd': >>>>>> (.text+0x52d): undefined reference to `TLSv1_client_method' >>>>>> /usr/lib64/mysql/libmysqlclient.a(viosslfactories.o): In function >>>>>> `new_VioSSLConnectorFd': >>>>>> (.text+0x56f): undefined reference to `SSL_CTX_set_verify' >>>>>> collect2: ld returned 1 exit status >>>>>> make: *** [hgTrackDb] Error 1 >>>>>> >>>>>> >>>>>> >>>>>> >>>>>> Abhishek Goel >>>>>> Staff Research Associate >>>>>> Geschwind Laboratory, UCLA Neurology >>>>>> Gonda Neuroscience and Genetics Research Center #2309 >>>>>> University of California Los Angeles >>>>>> 695 Charles E. Young Dr. South >>>>>> Los Angeles, CA 90095 >>>>>> Tel: (310) 794-7537 >>>>>> Fax: (310) 267-2401 >>>>>> >>>>>> >>>>>> >>>>>> >>>>>> >>>>>> On Tue, Nov 10, 2009 at 9:11 PM, Hiram Clawson >>>>>> >>>>> <[email protected]> >>>>> wrote: >>>>>> Please give me a hint on your compile problems. >>>>>> >>>>>>> It should be pretty easy to build the binaries there. >>>>>>> If you are going to be running your own copy of >>>>>>> the genome browser you will want to be able to >>>>>>> build the source tree. Give me an example of >>>>>>> a failed gcc command. >>>>>>> >>>>>>> --Hiram >>>>>>> >>>>>>> Abhishek Goel wrote: >>>>>>> >>>>>>> Hello Hiram, >>>>>>> >>>>>>>> Thank you for that information. I've been trying to compile the >>>>>>>> hgTrackDb >>>>>>>> and hgFindSpec binaries but I keep running into an error. I am >>>>>>>> >>>>>>> trying to >>>>> find some solution for the issue but I was wondering if there >>>>>>> were any >>>>> precompiled versions that you had that we could download. Is that >>>>>>> a >>>>> possibility? >>>>>>>> Thanks >>>>>>>> >>>>>>>> Abhishek >>>>>>>> >>>>>>>> >>>>>>>> Abhishek Goel >>>>>>>> Staff Research Associate >>>>>>>> Geschwind Laboratory, UCLA Neurology >>>>>>>> Gonda Neuroscience and Genetics Research Center #2309 >>>>>>>> University of California Los Angeles >>>>>>>> 695 Charles E. Young Dr. South >>>>>>>> Los Angeles, CA 90095 >>>>>>>> Tel: (310) 794-7537 >>>>>>>> Fax: (310) 267-2401 >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>>> On Tue, Oct 27, 2009 at 8:35 AM, Hiram Clawson >>>>>>>> >>>>>>> <[email protected]> >>>>> wrote: >>>>>>>> Good Morning Abhishek: >>>>>>>> >>>>>>>> You should take these tracks and make them permanent tracks >>>>>>>>> in your browser if you would like them to be available to >>>>>>>>> everyone. See these starting notes about how to load tracks >>>>>>>>> into the browser: >>>>>>>>> >>>>>>>>> >>>>>>>>> >>>> http://genome-test.cse.ucsc.edu/~kent/src/unzipped/product/README.trackDb >>>> < >>>> http://genome-test.cse.ucsc.edu/%7Ekent/src/unzipped/product/README.trackDb >>>>> < >>>>>>>>> >>>> http://genome-test.cse.ucsc.edu/%7Ekent/src/unzipped/product/README.trackDb >>>> >>>>> < >>>>>>>>> >>>>>>>>> >>>> http://genome-test.cse.ucsc.edu/%7Ekent/src/unzipped/product/README.trackDb >>>> >>>>> Follow the additional references to other README files from >>>>>>>> there. >>>>> --Hiram >>>>>>>>> >>>>>>>>> Abhishek Goel wrote: >>>>>>>>> >>>>>>>>> Hello Jennifer, >>>>>>>>> >>>>>>>>> Thank you for that info. Do you have any suggestions on where >>>>>>>>> to >>>>> start. >>>>>>>>>> I >>>>>>>>>> was going to see if there was any table with the list of hgsids >>>>>>>>>> >>>>>>>>> but it >>>>> turns >>>>>>>>>> out those are just temp ids and not really useful. >>>>>>>>>> >>>>>>>>>> Each time a BED file is loaded into the browser to create a >>>>>>>>>> >>>>>>>>> custom >>>>> track >>>>>>>>>> a >>>>>>>>>> new table is added to the customTrash database. The table >>>>>>>>>> >>>>>>>>> itself is >>>>> just >>>>>>>>>> the >>>>>>>>>> mysql version of the BED file. >>>>>>>>>> >>>>>>>>>> Thanks. >>>>>>>>>> >>>>>>>>>> Abhishek >>>>>>>>>> >>>>>>>>>> >>>>>>>>>> Abhishek Goel >>>>>>>>>> Staff Research Associate >>>>>>>>>> Geschwind Laboratory, UCLA Neurology >>>>>>>>>> Gonda Neuroscience and Genetics Research Center #2309 >>>>>>>>>> University of California Los Angeles >>>>>>>>>> 695 Charles E. Young Dr. South >>>>>>>>>> Los Angeles, CA 90095 >>>>>>>>>> Tel: (310) 794-7537 >>>>>>>>>> Fax: (310) 267-2401 >>>>>>>>>> >>>>>>>>>> >>>>>>>>>> >>>>>>>>>> >>>>>>>>>> >>>>>>>>>> On Thu, Oct 22, 2009 at 5:42 PM, Jennifer Jackson >>>>>>>>>> >>>>>>>>> <[email protected]> >>>>> wrote: >>>>>>>>>> Hello, >>>>>>>>>> >>>>>>>>>> No, there is no automatically generated page. The idea of >>>>>>>>>> >>>>>>>>> making one >>>>> from >>>>>>>>>>> the custom track table is a good one. >>>>>>>>>>> >>>>>>>>>>> The only alternative would be to get wiki and Sessions set up, >>>>>>>>>>> >>>>>>>>>> but >>>>> that >>>>>>>>>>> is >>>>>>>>>>> a major project, and not worth it for just a web page view. >>>>>>>>>>> >>>>>>>>>>> Hope this helps, >>>>>>>>>>> Jennifer >>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>>> ------------------------------------------------ >>>>>>>>>>> Jennifer Jackson >>>>>>>>>>> UCSC Genome Bioinformatics Group >>>>>>>>>>> >>>>>>>>>>> ----- "Abhishek Goel" <[email protected]> wrote: >>>>>>>>>>> >>>>>>>>>>> From: "Abhishek Goel" <[email protected]> >>>>>>>>>>> >>>>>>>>>>> To: [email protected] >>>>>>>>>>> >>>>>>>>>>>> Sent: Thursday, October 22, 2009 12:29:28 PM GMT -08:00 >>>>>>>>>>>> >>>>>>>>>>> US/Canada >>>>> Pacific >>>>>>>>>>>> Subject: [Genome] Saved custom tracks >>>>>>>>>>>> >>>>>>>>>>>> Hello, >>>>>>>>>>>> >>>>>>>>>>>> I've just set up a Genome Browser mirror for our lab and our >>>>>>>>>>>> collaborators. >>>>>>>>>>>> I enabled the customTrash database and set up the hg.conf >>>>>>>>>>>> >>>>>>>>>>> file so >>>>> that >>>>>>>>>>>> the >>>>>>>>>>>> added customTracks are saved. However, is there a page that >>>>>>>>>>>> >>>>>>>>>>> lists >>>>> all >>>>>>>>>>>> the >>>>>>>>>>>> custom tracks that have been saved? >>>>>>>>>>>> >>>>>>>>>>>> I could just create a page that would list all the saved >>>>>>>>>>>> >>>>>>>>>>> custom >>>>> tracks >>>>>>>>>>>> from >>>>>>>>>>>> the mysql database but I thought if there is already a page I >>>>>>>>>>>> >>>>>>>>>>> could >>>>> just use >>>>>>>>>>>> that. >>>>>>>>>>>> >>>>>>>>>>>> Thanks. >>>>>>>>>>>> >>>>>>>>>>>> Abhishek >>>>>>>>>>>> >>>>>>>>>>>> Abhishek Goel >>>>>>>>>>>> Staff Research Associate >>>>>>>>>>>> Geschwind Laboratory, UCLA Neurology >>>>>>>>>>>> Gonda Neuroscience and Genetics Research Center #2309 >>>>>>>>>>>> University of California Los Angeles >>>>>>>>>>>> 695 Charles E. Young Dr. South >>>>>>>>>>>> Los Angeles, CA 90095 >>>>>>>>>>>> Tel: (310) 794-7537 >>>>>>>>>>>> Fax: (310) 267-2401 >>>>>>>>>>>> _______________________________________________ >>>>>>>>>>>> Genome maillist - [email protected] >>>>>>>>>>>> https://lists.soe.ucsc.edu/mailman/listinfo/genome >>>>>>>>>>>> >>>>>>>>>>>> _______________________________________________ >>>>>>>>>>>> >>>>>>>>>>>> Genome maillist - [email protected] >>>>>>>>>> https://lists.soe.ucsc.edu/mailman/listinfo/genome >>>>>>>>>> >>>>>>>>>> >>>>>>>>>> >>>>>>>>>> >>>>>>>>>> _______________________________________________ >>>> Genome maillist - [email protected] >>>> https://lists.soe.ucsc.edu/mailman/listinfo/genome >>>> >>> > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
