Matthew Kweskin mkweskin

## gist:5414303
pandoc -f markdown -t mediawiki test.md -o test.wiki

# Thanks to @tillmanj for the updated formatting

## gist:5484040
pandoc -w docx file.md -o file.docx

## gist:5495586
ln -s SATe-2.2.7 SATe

## gist:5542669
dsenableroot

## gist:5831102
diskutil mount `diskutil list | grep "Time Machine" | awk {'print $7'}`

## keep-longest.py
#!/usr/bin/python

"""
Reads a FASTA file and if >1 sequence has the same description line,
it only keeps the longest sequence. It outputs all the sequencs to stdout
when complete.

"""


## gist:9214338
env GIT_SSL_NO_VERIFY=true git clone https://...

## avgQseq
#!/usr/bin/env python
import numpy as np
from Bio import SeqIO

for record in SeqIO.parse("test_R1.fq", "fastq"):
    print ('{}\t{}'.format(record.id, np.mean(record.letter_annotations["phred_quality"])))

## avgQseq
#!/usr/bin/env python
import numpy as np
from Bio import SeqIO

for record in SeqIO.parse("test_R1.fq", "fastq"):
    print ('{}\t{}'.format(record.id, np.mean(record.letter_annotations["phred_quality"])))

## rmssh
#!/bin/bash

if [ -n "$1" ] #If input arg is non-empty then move on, but if it is prompt for number
then
	LINE="$1"
else
	echo "Enter line to delete of ~/.ssh/known_hosts:"
	read LINE
fi
	pandoc -f markdown -t mediawiki test.md -o test.wiki

	# Thanks to @tillmanj for the updated formatting
	#!/usr/bin/python

	"""
	Reads a FASTA file and if >1 sequence has the same description line,
	it only keeps the longest sequence. It outputs all the sequencs to stdout
	when complete.

	"""
	#!/usr/bin/env python
	import numpy as np
	from Bio import SeqIO

	for record in SeqIO.parse("test_R1.fq", "fastq"):
	print ('{}\t{}'.format(record.id, np.mean(record.letter_annotations["phred_quality"])))
	#!/bin/bash

	if [ -n "$1" ] #If input arg is non-empty then move on, but if it is prompt for number
	then
	LINE="$1"
	else
	echo "Enter line to delete of ~/.ssh/known_hosts:"
	read LINE
	fi