brentp

sudo apt-get install libtool
git clone git://dnaa.git.sourceforge.net/gitroot/dnaa/dnaa dnaa-git
cd dnaa-git
# bfast required. see above gist
cp -r ../bfast-git ./bfast
# samtools require. see above gist.
cp -r ../samtools-svn/ ./samtools

sh autogen.sh && ./configure && make && sudo make install

arq5x

export BATCH1="1094PC0005 1094PC0009 1094PC0012 1094PC0013 "
export BATCH2="1094PC0016 1094PC0017 1094PC0018 1094PC0019 \
               1094PC0020 1094PC0021 1094PC0022 1094PC0023 1094PC0025 "
export BATCH3="1478PC0001B 1478PC0002 1478PC0003 1478PC0004 \
               1478PC0005 1478PC0006B 1478PC0007B 1478PC0008B \
               1478PC0009B 1478PC0010 1478PC0011 1478PC0012 \
               1478PC0013B 1478PC0014B 1478PC0015B 1478PC0016 \
               1478PC0017B 1478PC0018 1478PC0019 1478PC0020 \
               1478PC0021 1478PC0022B 1478PC0023B 1478PC0024B"
export BATCH4="1719PC0001 1719PC0002 1719PC0003 1719PC0004 \

arq5x

##########################################
# Step 0. setup a list of sample names.  
# Assume that each of your gzipped
# FASTQ files is named as follows:
# sample1.1.fq.gz
# sample1.2.fq.gz
# sample2.1.fq.gz
# sample2.2.fq.gz
# ...
# sampleN.1.fq.gz

lindenb

Pull branch from remote

git branch -f X origin/X

Squashing

See : http://stackoverflow.com/questions/5667884/how-to-squash-commits-in-git-after-they-have-been-pushed

harawata

/*
 * Copyright 2014 MyBatis.org.
 *
 * Licensed under the Apache License, Version 2.0 (the "License");
 * you may not use this file except in compliance with the License.
 * You may obtain a copy of the License at
 *
 *      http://www.apache.org/licenses/LICENSE-2.0
 *
 * Unless required by applicable law or agreed to in writing, software

imkevinxu

[alias]
    random = !"git add -A; git commit -am \"$(echo $(curl -s http://whatthecommit.com/index.txt)\" (http://whatthecommit.com)\")\"; git pull --rebase; git push"

peteroupc

/*
Written by Peter O.

Any copyright to this work is released to the Public Domain.
In case this is not possible, this work is also
licensed under Creative Commons Zero (CC0):
https://creativecommons.org/publicdomain/zero/1.0/

*/

LoranKloeze

/*
 Tired of scrolling to one of the last photos on the page on Instagram? Let your
 browser do the scrolling for you!
 31-05-2017
 (c) 2017 - Loran Kloeze - loran@ralon.nl
 
 Usage
  - Go to https://www.instagram.com/instagram_handle/ (change instagram_handle in i.e. taylorswift)
  - Open up the console (F12) (Firefox users: type 'allow pasting' if you haven't done so yet)
  - Select the contents of this complete file and copy/paste it to the console and hit enter

richardcornish

Git notes

Start

1. Install Git
2. Create a GitHub account
3. Open Terminal /Applications/Utilities/Terminal.app

Configure

sujaikumar

NCBI blastp seems to have a bug where it reports different top hits when -max_target_seqs is changed. This is a serious problem because the first 20 hits (for example) should be the same whether -max_target_seqs 100 or -max_target_seqs 500 is used.

The bug is reproducible on the command line when searching NCBI's nr blast database (dated 25-Nov-2015) using NCBI 2.2.28+, 2.2.30+ and 2.2.31+.

At first I thought it was something to do with my local exe/blastdb, but the same problem is also apparent on the NCBI blastp web interface (as of 30-Nov-2015)