roryk

#!/bin/bash
TMPDIR=download
START=1161
END=1438
mkdir -p ${TMPDIR}
parallel -j 4 wget -P download https://theweekinchess.com/zips/twic{}g.zip ::: $(seq ${START} ${END})
unzip -d ${TMPDIR} ${TMPDIR}/'*.zip'
cat ${TMPDIR}/*.pgn > twic_pgn_${START}_${END}.pgn
zip twic_pgn_${START}_${END}.zip twic_pgn_${START}_${END}.pgn
rm twic_pgn_${START}_${END}.pgn

roryk

Tom Knight and the Lisp Machine

A novice was trying to fix a broken Lisp machine by turning the power off and on.

Knight, seeing what the student was doing, spoke sternly: “You cannot fix a machine by just power-cycling it with no understanding of what is going wrong.”

Knight turned the machine off and on.

The machine worked.

roryk

import os
import subprocess
from argparse import ArgumentParser

def find_parallel_environment(queue):
    """Find an SGE/OGE parallel environment for running multicore jobs in specified queue.
    """
    base_queue = os.path.splitext(queue)[0]
    queue = base_queue + ".q"

roryk

#!/bin/bash
set -e

# Figure out where this script is located.
SELFSCRIPT="`readlink -f \"$0\"`"
SELFDIR="`dirname \"$SELFSCRIPT\"`"
SELFDIR="`cd \"$SELFDIR\" && pwd`"

# Temporarily set PATH and LD_LIBRARY_PATH
export PATH=$SELFDIR/bin:$PATH

roryk

import tempfile
import gffutils
import os
from argparse import ArgumentParser

def get_gtf_db(gtf, in_memory=False):
    """
    create a gffutils DB
    """
    db_file = gtf + ".db"

roryk

class Foo(object):

    def __init__(self):
        self.history = {"var1": [], "var2": [], "var3": [], "var4": []}

    def update(self, to_update):
        for k, v in self.history.iteritems():
            if k == to_update:
                v.append(1)
            else:

roryk

[ 51%] Performing build step for 'libsparsehash'
cd /tmp/sailfish20150920-18016-i304l8/sailfish-0.7.4/external/sparsehash-sparsehash-2.0.2 && /Applications/Xcode.app/Contents/Developer/usr/bin/make
[ -d src/sparsehash/internal ] || mkdir -p src/sparsehash/internal
echo "/*" > src/sparsehash/internal/_sparsehash_config
echo " * NOTE: This file is for internal use only." >> src/sparsehash/internal/_sparsehash_config
echo " *       Do not use these #defines in your own program!" >> src/sparsehash/internal/_sparsehash_config
echo " */" >> src/sparsehash/internal/_sparsehash_config
awk '{prevline=currline; currline=$0;} \
	        /^#/ {in_second_file = 1;} \
	        !in_second_file {if (currline !~ /^ *$/) {inc[currline]=0}}; \

roryk

import numpy
import scipy.stats as stats

def outlier_resistant(coverage):
  median = float(numpy.median(coverage))
  deviations = [abs(x - median) for x in coverage]
  # median absolute deviation estimator of the standard deviation
  mad = 1.4826 * float(numpy.median(deviations))
  return int(median), int(mad)

roryk

>chrM
GTTAATGTAGCTTAATAACAAAGCAAAGCACTGAAAATGCTTAGATGGAT
AATTGTATCCCATAAACACAAAGGTTTGGTCCTGGCCTTATAATTAATTA
GAGGTAAAATTACACATGCAAACCTCCATAGACCGGTGTAAAATCCCTTA
AACATTTACTTAAAATTTAAGGAGAGGGTATCAAGCACATTAAAATAGCT
TAAGACACCTTGCCTAGCCACACCCCCACGGGACTCAGCAGTGATAAATA
TTAAGCAATAAACGAAAGTTTGACTAAGTTATACCTCTTAGGGTTGGTAA
ATTTCGTGCCAGCCACCGCGGTCATACGATTAACCCAAACTAATTATCTT
CGGCGTAAAACGTGTCAACTATAAATAAATAAATAGAATTAAAATCCAAC
TTATATGTGAAAATTCATTGTTAGGACCTAAACTCAATAACGAAAGTAAT

roryk

MOD_NAME=Commander's Choice - LW
AUTHOR=Peasly Wellbott
DESCRIPTION=Choose the class of your Squaddies! When being prompted to pick a Squaddie's first skill, the "Cycle Soldier" buttons on the bottom of the screen will instead cycle the soldier's class! Does not affect MECs or any soldier who has locked in their specialty, but should work for reward soldiers and special soldiers.

Version: 1.0

Compatible with XCOM Long War versions:
 - All hopefully