Uri Laserson laserson

Drag and drop desired messages to directories (e.g., archived/).

Convert directory to mbox file

./eml2mbox.py archived archived.mbox

Follow directions here to upload via Gmail API

https://github.com/google/import-mailbox-to-gmail

	Schema 1
	num_files 15002
	num_seqs 7051351620
	sequence,locus,stop_codon,vj_in_frame,v_frameshift,productive,rev_comp,complete_vdj,v_call,d_call,j_call,sequence_alignment,germline_alignment,sequence_alignment_aa,germline_alignment_aa,v_alignment_start,v_alignment_end,d_alignment_start,d_alignment_end,j_alignment_start,j_alignment_end,v_sequence_alignment,v_sequence_alignment_aa,v_germline_alignment,v_germline_alignment_aa,d_sequence_alignment,d_sequence_alignment_aa,d_germline_alignment,d_germline_alignment_aa,j_sequence_alignment,j_sequence_alignment_aa,j_germline_alignment,j_germline_alignment_aa,fwr1,fwr1_aa,cdr1,cdr1_aa,fwr2,fwr2_aa,cdr2,cdr2_aa,fwr3,fwr3_aa,fwr4,fwr4_aa,cdr3,cdr3_aa,junction,junction_length,junction_aa,junction_aa_length,v_score,d_score,j_score,v_cigar,d_cigar,j_cigar,v_support,d_support,j_support,v_identity,d_identity,j_identity,v_sequence_start,v_sequence_end,v_germline_start,v_germline_end,d_sequence_start,d_sequence_end,d_germline_start,d_germline_end,j_sequence_start,j_sequence_end,j_

	#! /usr/bin/env fish

	set target_pids (pgrep caffeinate)
	set num_pids (count $target_pids)

	if test $num_pids -eq 0
	caffeinate -d -t 43200
	else
	for target_pid in $target_pids
	kill $target_pid

	from opentrons import robot, containers, instruments

	robot.connect(robot.get_serial_ports_list()[0])
	robot.home()

	tiprack200 = containers.load('tiprack-200ul', 'C2')
	trash = containers.load('point', 'D2')
	p200 = instruments.Pipette(axis='a',
	max_volume=200,
	min_volume=20,

	import json
	from copy import deepcopy
	from itertools import product
	from collections import OrderedDict

	all_wells = ['{}{}'.format(r, c) for c in range(1, 13) for r in 'ABCDEFGH']

	with open('_containers_create.json.bak','r') as ip:
	obj = json.load(ip)

	import pandas as pd
	from airtable import airtable


	metadata = pd.read_table(metadata_path, sep=',', header=0, index_col=None)
	at = airtable.Airtable(base_id, api_key)
	ibd_records = at.get('sample', filter_by_formula='AND(project = "cho-ibd", phenotype = "")')['records']

	for record in ibd_records:
	if (metadata.local_sample == record['fields']['sample_id']).sum() != 1:

	package com.cloudera.science.throwaway;

	public class ThrowAway {
	private String datum = "Howdy!";

	public ThrowAway() { }

	public String response() {
	return "Goodbye!";
	}

	import org.bdgenomics.formats.avro.AlignmentRecord
	import org.bdgenomics.adam.rdd.ADAMContext._

	val bamFile = "/Users/laserson/repos/adam/adam-core/src/test/resources/artificial.sam"
	val reads = sc.adamLoad[AlignmentRecord, Nothing](bamFile)

	reads.first()
	/*
	java.lang.IncompatibleClassChangeError: Implementing class
	at java.lang.ClassLoader.defineClass1(Native Method)

	---------------------------------------------------------------------------
	TypeError Traceback (most recent call last)
	<ipython-input-33-9be617700fcd> in <module>()
	6 t = ax.plot(times, events, lw=1, c=random_color())
	7 ax.set_yscale('log')
	----> 8 IPython.core.pylabtools.print_figure(fig)

	/usr/lib/python2.6/site-packages/IPython/core/pylabtools.pyc in print_figure(fig, fmt)
	108 fmt = 'png'
	109 fig.canvas.print_figure(bytes_io, format=fmt, bbox_inches='tight',