proteneer

# processed from https://raw.githubusercontent.com/proteneer/timemachine/8ff69ee3c7bf248a7bdc5caf9fcae2e37fdb86ac/jax/harmonic_dij.py

import functools
import time
from tqdm import tqdm
import numpy as onp
from jax.config import config; config.update("jax_enable_x64", True)
import jax
import jax.numpy as np

proteneer

import functools
import numpy as onp
import jax
import jax.numpy as np

from timemachine.potentials import bonded


param_idxs = np.array([
    [0,1],

proteneer

Keybase proof

I hereby claim:

• I am proteneer on github.
• I am yutong (https://keybase.io/yutong) on keybase.
• I have a public key whose fingerprint is A3DD C50A 4524 96E9 2A4F CFB3 91CE ACDB 2605 E878

To claim this, I am signing this object:

proteneer

count = 10000

start = time.time()
for i in range(count):
    rc.set('bar',1)
    rc.set('bar',1)
    rc.set('bar',1)
    rc.set('bar',1)
print time.time()-start

proteneer

import redis
rc = redis.Redis(port=6782)
rc.flushdb()

class HashSet(object):
    
    _rc   = None
    _rmaps = []
    
    @classmethod

proteneer

import redis
import threading
 

class Listener(threading.Thread):
    def __init__(self, r, channels):
        threading.Thread.__init__(self)
        self.redis = r
        self.pubsub = self.redis.pubsub()
        self.pubsub.subscribe(channels)

proteneer

import redis
import threading
 
class Listener(threading.Thread):
    def __init__(self, r, channels):
        threading.Thread.__init__(self)
        self.redis = r
        self.pubsub = self.redis.pubsub()
        self.pubsub.subscribe(channels)
    

proteneer

#include <OpenMM.h>
#include <iostream>
#include <fstream>
#include <limits>

using namespace OpenMM;
using namespace std;

extern "C" void registerSerializationProxies();
extern "C" void registerOpenCLPlatform();

proteneer

import tornado.web
import tornado.httpserver
import tornado.ioloop
import process2
import tornado.netutil
import redis
import signal
import time
import sys
import os

proteneer

import simtk.openmm
import simtk.unit as unit
import math

state = simtk.openmm.XmlSerializer.deserialize(open('state.xml').read())
system = simtk.openmm.XmlSerializer.deserialize(open('system.xml').read())
for i, force in enumerate(system.getForces()):
    force.setForceGroup(i)
system.getForce(3).setReciprocalSpaceForceGroup(6)