gjuggler

Ext.override(Ext.grid.RowSelectionModel, {
  initEvents: function() {
    // Create an event which only fires after a selection is DONE changing in response
    // to a user interaction (i.e., when we shift-click to select 10 items, this only fires ONCE).
    this.addEvents('afterselectionchange');

    // Make the grid respond to click events.
    this.grid.on('rowclick', this.handleMouseDown, this);

gjuggler

# color.column - color the columns of a table for LaTeX output.
#
# Takes an xtable object and a column name as input, and returns the
# xtable with the chosen column stringified and prepended with color
# values using the \cellcolor command from the xcolor package. For an
# easy copy-paste into a LaTeX document, use xtable's print function
# with the following parameter to preserve the \cellcolor command:
# "sanitize.text.function=function(x){x}". I also like to add
# "include.rownames=F". Here's a worked example:
#

gjuggler

# farm_scripts.R - a simple script to submit and run LSF jobs and job
#   arrays from R. The "main" function reads in arguments from the
#   command-line and passes them, possibly along with the job array
#   index, to a user-defined function. This can serve as a basic tool
#   for creating and running batched processes using R in an LSF 
#   environment.
#
#  contact: greg@ebi.ac.uk

# Extract the command-line arguments

gjuggler

library(devtools)
load_all('phyloseq', reset=T)

data(GlobalPatterns)
x <- subset_species(GlobalPatterns, Phylum == "Chlamydiae")

png(file="01_ladderize_left.png")
p <- plot_tree(x, color="SampleType", label.tips="Genus", size="abundance",
  ladderize='left')
print(p)

gjuggler

greg$ ack 'second-field-align="margin"' -i ./

advanced-functional-materials.csl
99:  <bibliography second-field-align="margin" entry-spacing="0">

american-heart-association.csl
102:  <bibliography second-field-align="margin" entry-spacing="0" et-al-min="16" et-al-use-first="15">

bioorganic-and-medicinal-chemistry-letters.csl
93:  <bibliography second-field-align="margin" entry-spacing="0">

gjuggler

org.springframework.beans.factory.UnsatisfiedDependencyException: Error creating bean with name 'cdrEntityManagerFactory' defined in class path resource [org/pmiops/workbench/cdr/CdrDbConfig.class]: Unsatisfied dependency expressed through method 'getCdrEntityManagerFactory' parameter 1; nested exception is org.springframework.beans.factory.UnsatisfiedDependencyException: Error creating bean with name 'cdrDataSource' defined in class path resource [org/pmiops/workbench/cdr/CdrDbConfig.class]: Unsatisfied dependency expressed through method 'cdrDataSource' parameter 0; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'cdrDbConfig.CdrDataSource' defined in URL [jar:file:/w/common-api/build/libs/common-api-0.1.0.jar!/org/pmiops/workbench/cdr/CdrDbConfig$CdrDataSource.class]: Bean instantiation via constructor failed; nested exception is org.springframework.beans.BeanInstantiationException: Failed to instantiate [org.pmiops.workbench.cdr.CdrDbConfig$CdrDat