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#!/bin/bash | |
# on OS X, need to install ffmpeg | |
# so that we can convert FLAC music files | |
# into mp3 files | |
# install ffmpeg | |
brew install ffmpeg --with-fdk-aac --with-ffplay --with-freetype --with-libass --with-libquvi --with-libvorbis --with-libvpx --with-opus --with-x265 | |
brew update && brew upgrade ffmpeg |
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I dunno why this is not readily visible from the main pages: | |
https://github.com/search/advanced | |
http://stackoverflow.com/questions/32119877/searching-in-multiple-github-repositories |
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#!/bin/bash | |
# PROBLEM: want to preseve the terminal output from bowtie2, but also copy the stderr from bowtie into a separate file | |
# SOLUTION: use `tee` along with some bash stream redirection to copy the stderr stream to a new file AND print it on the terminal | |
# set files and places | |
tmp_fastq1="$HOME/projects/SmithLab_PARCLIP/14Q-sample1_R1_mini.fastq" | |
tmp_fastq2="$HOME/projects/SmithLab_PARCLIP/14Q-sample1_R2_mini.fastq" | |
tmp_outdir="$HOME/projects/SmithLab_PARCLIP/test_bowtie2" |
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https://help.github.com/articles/duplicating-a-repository/ | |
https://help.github.com/articles/what-happens-to-forks-when-a-repository-is-deleted-or-changes-visibility/ | |
http://stackoverflow.com/questions/16052477/delete-fork-dependency-of-a-github-repository |
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First method (the hard way) | |
http://naleid.com/blog/2012/01/17/finding-and-purging-big-files-from-git-history | |
Second method (easier) | |
https://help.github.com/articles/removing-files-from-a-repository-s-history/ | |
https://rtyley.github.io/bfg-repo-cleaner/ | |
also see: http://stackoverflow.com/questions/2100907/how-to-remove-delete-a-large-file-from-commit-history-in-git-repository |
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#!/bin/bash | |
PassList="password1 password2 password3" && OldDir="$(pwd)" | |
for i in $PassList; do | |
for q in $(find . -name "*.rar"); do | |
echo "$q" | |
NewDir=$(dirname "$q") | |
echo -e "\t$NewDir" | |
cd "$NewDir" | |
~/Downloads/rar/unrar e -p${i} *.rar |
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#!/bin/bash | |
#~~~ Shell Options ~~~~# | |
# use some extra shell glob features; turn them on here | |
# remember whether extglob was originally set, so we know whether to unset it | |
shopt -q extglob; extglob_set=$? | |
# set extglob if it wasn't originally set. | |
((extglob_set)) && shopt -s extglob | |
# Note, 0 (true) from shopt -q is "false" in a math context. |
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#!/bin/bash | |
# in OS X | |
find -E . \( ! -regex '.*/\..*' \) | |
# vanilla bash | |
find . \( ! -regex '.*/\..*' \) -type f -name "filename" |
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#!/bin/bash | |
# unzip all files in current directory | |
# extract into new directory of the same name | |
for i in *.zip; do echo $i; echo ${i%.zip}; mkdir ${i%.zip}; unzip ${i} -d ${i%.zip}; done |
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# .bashrc | |
# Source global definitions | |
if [ -f /etc/bashrc ]; then | |
. /etc/bashrc | |
fi | |
# User specific aliases and functions | |
### autocorrects cd misspellings, 'cd /sur/src/linus' >> 'cd /usr/src/linux' ### |