I frequently administer remote servers over SSH, and need to copy data to my clipboard. If the text I want to copy all fits on one screen, then I simply select it with my mouse and press CMD-C, which asks relies on m y terminal emulator (xterm2) to throw it to the clipboard.
This isn't practical for larger texts, like when I want to copy the whole contents of a file.
If I had been editing large-file.txt locally, I could easily copy its contents by using the pbcopy command:
The git command-line utility has plenty of inconsistencies http://steveko.wordpress.com/2012/02/24/10-things-i-hate-about-git/
A GUI like http://sourcetreeapp.com is often helpful, but staying on the command line usually quicker. This is a list of the commands I use most frequently, listed by functional category:
git status list which (unstaged) files have changed
| #!/usr/bin/env python | |
| import os | |
| import logging | |
| from collections import Counter | |
| import gffutils | |
| from gffutils.create import logger | |
| logger.setLevel(logging.INFO) | |
| usage = """ |
SAM and BAM filtering one-liners
@author: David Fredman, david.fredmanAAAAAA@gmail.com (sans poly-A tail)
@dependencies: http://sourceforge.net/projects/bamtools/ and http://samtools.sourceforge.net/
Please extend with additional/faster/better solutions via a pull request!
BWA mapping (using piping for minimal disk I/O)
| I like to manage dotfiles without having to mess with silly symlinks or having | |
| to install/configure specific dotfile managament tools. So here's what I did: | |
| $ cd ~ | |
| $ git init . | |
| $ echo '*' > .gitignore # ignore all files by default | |
| $ echo '!.bashrc' >> .gitignore # ...and then tell git what files not to *not* ignore | |
| $ # ...add other files you may want to track to *not* ignore | |
| $ git add .bashrc # now actually add the files to git | |
| $ git add .gitignore # add the .gitignore to git |
| { | |
| /* Keybindings for emacs emulation. Compiled by Jacob Rus. | |
| * | |
| * This is a pretty good set, especially considering that many emacs bindings | |
| * such as C-o, C-a, C-e, C-k, C-y, C-v, C-f, C-b, C-p, C-n, C-t, and | |
| * perhaps a few more, are already built into the system. | |
| * | |
| * BEWARE: | |
| * This file uses the Option key as a meta key. This has the side-effect | |
| * of overriding Mac OS keybindings for the option key, which generally |
| rule rnaalignment: | |
| input: lambda wildcards: source2fastq(wildcards)['fastq'] | |
| output: "bam/{source}/RNA/aligned.bam", "bam/{source}/RNA/Chimeric.out.sam" | |
| params: batch="-q ccr -l nodes=1:gpfs:g128",outdir="bam/{source}/RNA" | |
| priority: 10 | |
| threads: 32 | |
| version: "2.4.0a" | |
| run: | |
| read1 = ",".join(input[0::2]) | |
| read2 = ",".join(input[1::2]) |
Custom recipe to get OS X 10.10 Yosemite running from scratch, setup applications and developer environment. I use this gist to keep track of the important software and steps required to have a functioning system after a semi-annual fresh install. On average, I reinstall each computer from scratch every 6 months, and I do not perform upgrades between distros.
This keeps the system performing at top speeds, clean of trojans, spyware, and ensures that I maintain good organizational practices for my content and backups. I highly recommend this.
You are encouraged to fork this and modify it to your heart's content to match your own needs.
