File Changes for galt

v289_base to v290_preview (2013-09-09 to 2013-09-16) v290

• src/hg/lib/jksql.c
  • lines changed 2, context: html, text, full: html, text
    Fixing a problem with Ubuntu and other systems where load data LOCAL infile has been disabled by default for mysql clients
  • lines changed 14, context: html, text, full: html, text
    because Ubuntu currently has a hard time getting pstack to work, I do not want any dumpStack statements that cannot be turned off by a flag in hg.conf
• src/hg/makeDb/genbank/src/gbSanity/chkAlignTbls.c
  • lines changed 3, context: html, text, full: html, text
    gbSanity.c (genbank) properly escaping the mysql where clauses
• src/hg/makeDb/genbank/src/gbSanity/chkMetaDataTbls.c
  • lines changed 6, context: html, text, full: html, text
    gbSanity.c (genbank) properly escaping the mysql where clauses
• src/hg/makeDb/genbank/src/gbSanity/chkSeqTbl.c
  • lines changed 3, context: html, text, full: html, text
    gbSanity.c (genbank) properly escaping the mysql where clauses
• src/hg/utils/mysqlSecurityCheck/mysqlSecurityCheck.c
  • lines changed 2, context: html, text, full: html, text
    removing a condition that is not needed.
• src/lib/net.c
  • lines changed 15, context: html, text, full: html, text
    net.c: Adding read and write timeouts to the tcp open. One site was connecting but then failing to send a response and hanging indefinitely.
• src/parasol/paraNode/paraNode.c
  • lines changed 1, context: html, text, full: html, text
    ubuntu needs #include <sys/resource.h>
• src/product/README.mysql.setup
  • lines changed 14, context: html, text, full: html, text
    noting that users should use myisam instead of innodb
  • lines changed 23, context: html, text, full: html, text
    updating README.mysql.setup with new configuration information regarding LOAD DATA LOCAL INFILE -- since we learned a better way to do it. This works now because of new support for a client side setting to enable LOCAL at connect time in jksql.c
• src/product/ex.hg.conf
  • lines changed 2, context: html, text, full: html, text
    fixing typos in ex.hg.conf
• src/utils/makefile
  • lines changed 2, context: html, text, full: html, text
    people need gitFiles in gitTools/ in order to make in htdocs, so gitTools is moving from the UCSC_APPS list to the UTILS_APPLIST
• src/utils/qa/weeklybld/unsymtrick.csh
  • lines changed 1, context: html, text, full: html, text
    oops fixed typo in errmsg