Hello,
I have followed the file below to install kent source tree.
*
http://genome-test.cse.ucsc.edu/~kent/src/unzipped/product/README.building.source<http://genome-test.cse.ucsc.edu/%7Ekent/src/unzipped/product/README.building.source>
*
but in step 5, I met a problem
5. To continue building the CGI binaries
$ cd kent/src/hg
$ make compile
r...@dongshan:/usr/local/jksrc/kent/src/hg# make compile
cd lib && make
make[1]: Entering directory `/usr/local/jksrc/kent/src/hg/lib'
make[1]: `../../lib/x86_64/jkhgap.a' is up to date.
make[1]: Leaving directory `/usr/local/jksrc/kent/src/hg/lib'
cd protein/lib && make
make[1]: Entering directory `/usr/local/jksrc/kent/src/hg/protein/lib'
make[1]: `../../../lib/x86_64/jkpbap.a' is up to date.
make[1]: Leaving directory `/usr/local/jksrc/kent/src/hg/protein/lib'
( cd cartReset && echo cartReset && make compile)
cartReset
make[1]: Entering directory `/usr/local/jksrc/kent/src/hg/cartReset'
gcc cartReset.o ../../lib/x86_64/jkhgap.a ../../lib/x86_64/jkweb.a
-lm /usr/lib/mysql/libmysqlclient.a -lsocket -lnsl -lz
gcc: /usr/lib/mysql/libmysqlclient.a: No such file or directory
make[1]: *** [compile] Error 1
make[1]: Leaving directory `/usr/local/jksrc/kent/src/hg/cartReset'
make: *** [cartReset.compile] Error 2
so, I think there must be a problem in step 3
3. Create the following shell environment variables:
MYSQLINC=/usr/include/mysql
MYSQLLIBS="/usr/lib/mysql/libmysqlclient.a -lz"
export MYSQLINC MYSQLLIBS
I have install mysql and use these two command to find the position:
r...@dongshan:/usr/local/jksrc/kent/src/hg# mysql_config --libs
-Wl,-Bsymbolic-functions -rdynamic -L/usr/lib/mysql -lmysqlclient
r...@dongshan:/usr/local/jksrc/kent/src/hg# mysql_config --include
-I/usr/include/mysql
But there is no file in '/usr/lib/mysql', I don't know why.
Could you please tell me which package should I install?
I have installed mysql-client-5.1, mysql-server (5.1.37-1ubuntu5.1),
mysql-clien(5.1.37-1ubuntu5.1),
mysql-common(5.1.37-1ubuntu5.1), libdbd-mysql-perl(4.011-1ubuntu1),
mysql-server-5.1,
mysql-server-core-5.1, libmysqlclient16, libmysqlclient-dev(5.1.37-1ubuntu5.1),
libmysqld-dev(5.1.37-1ubuntu5.1).
Thank you very much in advance!
Best regards!
Shan
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