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Michael O'Keefe okeefm

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okeefm / run_mmsys.bat
Created Jun 18, 2020
Metamorphosys Run Batch Script for Inferno
View run_mmsys.bat
@echo off
REM
REM Set Inferno base dir
REM
set INFERNODIR=C:\Inferno\inferno-program-1.0.0P
REM
REM Set the maximum amount of memory to assign to the mmsys script
REM
View server test.hbs
<div class="container main">
<div class="row content">
<div class="col-md-12">
<div class="palette report">
<div class="row">
<div class="col-md-9">
<h1>Review Conformance and Select Tests</h1>
</div>
<div class="col-md-3">
{{#if savingTestRun}}
@okeefm
okeefm / error.txt
Created Aug 29, 2014
Simplified Vagrantfile error message
View error.txt
INFO runner: Preparing hooks for middleware sequence...
INFO runner: 3 hooks defined.
INFO runner: Running action: #<Vagrant::Action::Builder:0x0000010138e120>
ERROR vagrant: Vagrant experienced an error! Details:
ERROR vagrant: #<Vagrant::Errors::MachineGuestNotReady: Guest-specific operations were attempted on a machine that is not
ready for guest communication. This should not happen and a bug
should be reported.>
ERROR vagrant: Guest-specific operations were attempted on a machine that is not
ready for guest communication. This should not happen and a bug
should be reported.
View .vagrant.d Vagrantfile
# -*- mode: ruby -*-
# vi: set ft=ruby :
# Vagrantfile API/syntax version. Don't touch unless you know what you're doing!
VAGRANTFILE_API_VERSION = "2"
Vagrant.configure(VAGRANTFILE_API_VERSION) do |config|
if Vagrant.has_plugin?("vagrant-proxyconf")
@okeefm
okeefm / vagrant-proxyconf-error
Created Aug 28, 2014
The error from Vagrant when run with vagrant-proxyconf and the Docker provider
View vagrant-proxyconf-error
INFO runner: Running action: #<Vagrant::Action::Builder:0x00000104b60788>
ERROR vagrant: Vagrant experienced an error! Details:
ERROR vagrant: #<Vagrant::Errors::MachineGuestNotReady: Guest-specific operations were attempted on a machine that is not
ready for guest communication. This should not happen and a bug
should be reported.>
ERROR vagrant: Guest-specific operations were attempted on a machine that is not
ready for guest communication. This should not happen and a bug
should be reported.
ERROR vagrant: /Applications/Vagrant/embedded/gems/gems/vagrant-1.6.3/lib/vagrant/machine.rb:231:in `guest'
/Users/mokeefe/.vagrant.d/gems/gems/vagrant-proxyconf-1.4.0.dev/lib/vagrant-proxyconf/action/base.rb:110:in `supported?'
View diskio.h
/*-----------------------------------------------------------------------
/ PFF - Low level disk interface modlue include file (C)ChaN, 2009
/-----------------------------------------------------------------------*/
#ifndef _DISKIO
#include "integer.h"
/* Status of Disk Functions */
typedef BYTE DSTATUS;
@okeefm
okeefm / Error message
Created Jun 8, 2011
Data Source load error
View Error message
BUILD FAILED
/Users/s-mokeef/code/intermine_0_97/imbuild/integrate.xml:54: The following error occurred while executing this line:
/Users/s-mokeef/code/intermine_0_97/imbuild/source.xml:253: java.lang.IllegalArgumentException: no class found in model for: Pseudogene (original GFF record type: Pseudogene) for record: <GFF3Record: sequenceID: chr1 source: MGI type: Pseudogene start: 3044314 end: 3044814 score: null strand: + phase: null attributes: {ID=[MGI:3801900], Name=[Gm16088], Note=[pseudogene]}>
at org.intermine.bio.dataconversion.GFF3Converter.process(GFF3Converter.java:173)
at org.intermine.bio.dataconversion.GFF3Converter.parse(GFF3Converter.java:126)
at org.intermine.bio.task.GFF3ConverterTask.execute(GFF3ConverterTask.java:241)
at org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:291)
at sun.reflect.GeneratedMethodAccessor26.invoke(Unknown Source)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
at java.lang.reflect.Method.invoke(Method.ja
@okeefm
okeefm / Intermine Webapp deploy error #1
Created Jun 3, 2011
Intermine Getting Started Webapp error messages
View Intermine Webapp deploy error #1
release-webapp:
BUILD FAILED
/Users/s-mokeef/code/intermine_0_96/imbuild/application.xml:124: java.io.IOException: Server returned HTTP response code: 403 for URL: http://localhost:8080//manager/deploy?path=%2Fmalariamine
at sun.net.www.protocol.http.HttpURLConnection.getInputStream(HttpURLConnection.java:1436)
at org.apache.catalina.ant.AbstractCatalinaTask.execute(AbstractCatalinaTask.java:223)
at org.apache.catalina.ant.DeployTask.execute(DeployTask.java:201)
at org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:291)
at sun.reflect.GeneratedMethodAccessor43.invoke(Unknown Source)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
@okeefm
okeefm / mm.c
Created Apr 19, 2011
Matrix Multiplication code for BlueGene/L using MPI.
View mm.c
#include <stdio.h>
#include <stdlib.h>
#include <unistd.h>
#include <mpi.h>
#include <string.h>
#if defined(__i386__)
static __inline__ unsigned long long rdtsc(void)
{
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