File Changes for max

v313_preview2 to v313_base (2015-03-02 to 2015-03-09) v313

• src/hg/hgBeacon/README.txt
  • lines changed 19, context: html, text, full: html, text
    during its last code review, hgBeacon was criticized,
    partially, because it's calling bigBedInfo and bigBedToBed and so requires
    copies of these in the cgi-bin dir. This change makes hgBeacon easier to
    install as it does not need the external tools anymore.
    It also adds a tester that can be pointed at the hgBeacon to see if it
    works, at least the basic functions.
    It also makes it easier to import VCF files, as it can import these
    directly.
    
  • lines changed 13, context: html, text, full: html, text
    fixing the help message and the tester in hgBeacon.
    
• src/hg/hgBeacon/help.txt
  • lines changed 45, context: html, text, full: html, text
    during its last code review, hgBeacon was criticized,
    partially, because it's calling bigBedInfo and bigBedToBed and so requires
    copies of these in the cgi-bin dir. This change makes hgBeacon easier to
    install as it does not need the external tools anymore.
    It also adds a tester that can be pointed at the hgBeacon to see if it
    works, at least the basic functions.
    It also makes it easier to import VCF files, as it can import these
    directly.
    
  • lines changed 14, context: html, text, full: html, text
    fixing the help message and the tester in hgBeacon.
    
  • lines changed 1, context: html, text, full: html, text
    typo in help message
    
• src/hg/hgBeacon/hgBeacon
  • lines changed 511, context: html, text, full: html, text
    during its last code review, hgBeacon was criticized,
    partially, because it's calling bigBedInfo and bigBedToBed and so requires
    copies of these in the cgi-bin dir. This change makes hgBeacon easier to
    install as it does not need the external tools anymore.
    It also adds a tester that can be pointed at the hgBeacon to see if it
    works, at least the basic functions.
    It also makes it easier to import VCF files, as it can import these
    directly.
    
  • lines changed 28, context: html, text, full: html, text
    fixing the help message and the tester in hgBeacon.
    
• src/hg/hgBeacon/makefile
  • lines changed 7, context: html, text, full: html, text
    fixing the help message and the tester in hgBeacon.
    
• src/hg/hgBeacon/testBeacon
  • lines changed 68, context: html, text, full: html, text
    during its last code review, hgBeacon was criticized,
    partially, because it's calling bigBedInfo and bigBedToBed and so requires
    copies of these in the cgi-bin dir. This change makes hgBeacon easier to
    install as it does not need the external tools anymore.
    It also adds a tester that can be pointed at the hgBeacon to see if it
    works, at least the basic functions.
    It also makes it easier to import VCF files, as it can import these
    directly.
    
  • lines changed 7, context: html, text, full: html, text
    fixing the help message and the tester in hgBeacon.
    
• src/hg/hgMirror/makefile
  • lines changed 3, context: html, text, full: html, text
    removing pylint from hgMirror makefile as it adds an additional
    dependency for mirrors.
    
• src/hg/utils/otto/clinvar/clinVarToBed
  • lines changed 5, context: html, text, full: html, text
    making clinvar ottoupdates easier to use
    
• src/hg/utils/otto/clinvar/doUpdate.sh
  • lines changed 4, context: html, text, full: html, text
    making clinvar ottoupdates easier to use
    
• src/makefile
  • lines changed 3, context: html, text, full: html, text
    removing utils/ for hgBeacon from the main and the utils makefile
    
  • lines changed 1, context: html, text, full: html, text
    removing unnecessary line from the alpha target
    
• src/utils/bigBedInfo/makefile
  • lines changed 28, context: html, text, full: html, text
    during its last code review, hgBeacon was criticized,
    partially, because it's calling bigBedInfo and bigBedToBed and so requires
    copies of these in the cgi-bin dir. This change makes hgBeacon easier to
    install as it does not need the external tools anymore.
    It also adds a tester that can be pointed at the hgBeacon to see if it
    works, at least the basic functions.
    It also makes it easier to import VCF files, as it can import these
    directly.
    
• src/utils/bigBedToBed/makefile
  • lines changed 29, context: html, text, full: html, text
    during its last code review, hgBeacon was criticized,
    partially, because it's calling bigBedInfo and bigBedToBed and so requires
    copies of these in the cgi-bin dir. This change makes hgBeacon easier to
    install as it does not need the external tools anymore.
    It also adds a tester that can be pointed at the hgBeacon to see if it
    works, at least the basic functions.
    It also makes it easier to import VCF files, as it can import these
    directly.
    
• src/utils/makefile
  • lines changed 14, context: html, text, full: html, text
    removing utils/ for hgBeacon from the main and the utils makefile