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blazer-0.1.35
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مشاهده بیشترتوضیحات
An HPC abstraction over MPI that uses pipes and pydash primitives for composable super-computing.
| ویژگی | مقدار |
|---|---|
| سیستم عامل | - |
| نام فایل | blazer-0.1.35 |
| نام | blazer |
| نسخه کتابخانه | 0.1.35 |
| نگهدارنده | [] |
| ایمیل نگهدارنده | [] |
| نویسنده | Darren Govoni |
| ایمیل نویسنده | darren@ontrenet.com |
| آدرس صفحه اصلی | https://github.com/radiantone/blazer |
| آدرس اینترنتی | https://pypi.org/project/blazer/ |
| مجوز | CC0-1.0 License |
An HPC abstraction over MPI that uses pipes and pydash primitives. Blazer will handle all the MPI orchestration behind the scenes for you. You just work strictly with data and functions. Easy!
### Install
From pypi
```bash
$ pip install blazer
```
From clone
```bash
$ git clone https://github.com/radiantone/blazer
$ cd blazer
$ make init install
```
NOTE: For some tests ensure you have slurm configured properly (single or muli-machine). However, using slurm is not required to use blazer.
### Linting
```bash
$ make lint
```
### Tests
```bash
(venv) $ mpirun -n 2 python setup.py test
blazer/tests/test_parallel.py::test_parallel PASSED [ 50%]
blazer/tests/test_pipeline.py::test_pipeline PASSED [100%]
============================== 2 passed in 0.48s ===============================
ctrl-c
```
or
```bash
$ ./bin/tests.sh
```
### Examples
```python
import blazer
from blazer.hpc.mpi import parallel, pipeline, partial as p, scatter, where, select, filter, rank, size
def calc_some(value, *args):
""" Do some calculations """
result = { 'some': value }
return result
def calc_stuff(value, *args):
""" Do some calculations """
result = { 'this': value }
return result
def add_date(result):
from datetime import datetime
if type(result) is dict:
result['date'] = str(datetime.now())
return result
def calc_more_stuff(result):
""" Do some more calculations """
if type(result) is list:
result += [{'more':'stuff'}]
elif type(result) is dict:
result['more'] = 'stuff'
return result
INPUT_DATA = 'that'
with blazer.begin():
result1=parallel([
p(calc_stuff, 1),
p(calc_stuff, 2),
p(calc_stuff, 3),
p(calc_stuff, 4),
p(calc_stuff, 5)
])
blazer.print("PARALLEL1:",result1)
if blazer.ROOT:
r = list(
result1
| where(lambda g: where(lambda g: g['this'] > 1))
| select(lambda g: p(calc_stuff, g['this']*2))
)
# Run the composed computation in parallel, wait for result
result = parallel(r)
blazer.print("PARALLEL2:",result)
r=pipeline([
p(calc_stuff, 'DATA'),
p(pipeline, [
calc_some,
add_date
]),
calc_stuff
])
blazer.print("PIPELINE:",r)
scatter_data = scatter(list(range(0,(size*2)+2)), calc_some)
blazer.print("SCATTER_DATA:",scatter_data)
result = pipeline([
p(calc_stuff, INPUT_DATA),
add_date,
scatter_data,
p(parallel,[
calc_some,
p(pipeline,[
calc_stuff,
p(parallel, [
calc_some,
calc_some
]),
calc_stuff
]),
calc_some
]),
calc_more_stuff
])
blazer.print("PIPELINE RESULT:",result)
def get_data():
""" Data generator """
for i in range(0,(size*2)):
yield i
result = scatter(get_data(), calc_some)
blazer.print("SCATTER:",result)
```
To run:
```
(venv) $ export PYTHONPATH=.
(venv) $ mpirun -n 4 python blazer/examples/example1.py
PARALLEL1: [{'this': 1}, {'this': 2}, {'this': 3}, {'this': 4}, {'this': 5}]
PARALLEL2: [{'this': 4}, {'this': 6}, {'this': 2}, {'this': 8}, {'this': 10}]
PIPELINE: {'this': {'some': ({'this': 'DATA'},), 'date': '2022-02-11 02:47:23.356461'}}
SCATTER_DATA: [{'some': 0}, {'some': 1}, {'some': 2}, {'some': 3}, {'some': 4}, {'some': 5}, {'some': 6}, {'some': 7}, {'some': 8}, {'some': 9}, {'some': None}, {'some': None}]
PIPELINE RESULT: [{'this': [{'this': ([{'some': 0}, {'some': 1}, {'some': 2}, {'some': 3}, {'some': 4}, {'some': 5}, {'some': 6}, {'some': 7}, {'some': 8}, {'some': 9}, {'some': None}, {'some': None}],)}, {'some': {'some': [{'some': 0}, {'some': 1}, {'some': 2}, {'some': 3}, {'some': 4}, {'some': 5}, {'some': 6}, {'some': 7}, {'some': 8}, {'some': 9}, {'some': None}, {'some': None}]}}]}, {'some': 'some'}, {'more': 'stuff'}]
[0, 1, 2, 3, 4, 5, 6, 7]
SCATTER: [{'some': 0}, {'some': 1}, {'some': 2}, {'some': 3}, {'some': 4}, {'some': 5}, {'some': 6}, {'some': 7}]
```
A map/reduce example
```python
import blazer
from blazer.hpc.mpi import map, reduce
def sqr(x):
return x * x
def add(x, y=0):
return x+y
with blazer.begin():
result = map(sqr, [1, 2, 3, 4])
blazer.print(result)
result = reduce(add, result)
blazer.print(result)
```
To run:
```
(venv) $ export PYTHONPATH=.
(venv) $ mpirun -n 4 python blazer/examples/example3.py
[1, 4, 9, 16]
30
```
#### Streaming Compute
Blazer supports the notion of `streaming compute` to handle jobs where the data can't fit into memory on a single machine.
In this example we implement a map/reduce computation where everything is streaming from the source data through the results without loading all the data into memory.
```python
""" Streaming map/reduce example """
from itertools import groupby
from random import randrange
from typing import Generator
import blazer
from blazer.hpc.mpi import stream
def datagen() -> Generator:
for i in range(0, 1000):
r = randrange(2)
v = randrange(100)
if r:
yield {"one": 1, "value": v}
else:
yield {"zero": 0, "value": v}
def key_func(k):
return k["key"]
def map(datum):
datum["key"] = list(datum.keys())[0]
return datum
def reduce(datalist):
from blazer.hpc.mpi import rank
_list = sorted(datalist, key=key_func)
grouped = groupby(_list, key_func)
return [{"rank": rank, key: list(group)} for key, group in grouped]
with blazer.begin():
import json
mapper = stream(datagen(), map, results=True)
reducer = stream(mapper, reduce, results=True)
if blazer.ROOT:
for result in reducer:
blazer.print("RESULT", json.dumps(result, indent=4))
```
> NOTE: blazer has (currently) only been tested on `mpirun (Open MPI) 4.1.0`
## Overview
Blazer is a _high-performance computing_ (HPC) library that hides the complexities of a super computer's _message-passing interface_ or (MPI).
Users want to focus on their code and their data and not fuss with low-level API's for orchestrating results, building pipelines and running fast, parallel code. This is why blazer exists!
With blazer, a user only needs to work with simple, straightforward python. No cumbersome API's, idioms, or decorators are needed.
This means they can get started quicker, run faster code, and get their jobs done _faster_!
### General Design
Blazer is designed around the concept of computing _primitives_ or operations. Some of the primitives include:
- **parallel** - For computing a list of tasks in parallel
- **pipeline** - For computing a list of tasks in sequence, passing the results along
- **map** - For mapping a task to a dataset
- **reduce** - For mapping a task to a data list and computing a single result
In addition there are other primitives to help manipulate lists of tasks or data, such as:
- **where** - Filter a list of tasks or data elements based on a function or lambda
- **select** - Apply a function to each list element and return the result
### Context Handlers
Blazer uses convenient context handlers to control blocks of code that need to be scheduled to MPI processes behind the scenes.
There are two types of context handlers currently.
#### MPI Context Handler
`blazer.begin()` is a mandatory context that enables the MPI scheduler behind the various primitives to operate correctly.
```python
import blazer
blazer.begin():
def get_data():
""" Data generator """
for i in range(0, (size * 2)):
yield i
result = scatter(get_data(), calc_some)
blazer.print("SCATTER:", result)
```
#### GPU Context Handler
`blazer.gpu()` is a context that requests (from the invisible MPI scheduler) dedicated access to a specific GPU on your MPI node fabric.
```python
import logging
import blazer
import numpy as np
from blazer.hpc.mpi.primitives import host, rank
from numba import vectorize
from timeit import default_timer as timer
def dovectors():
@vectorize(['float32(float32, float32)'], target='cuda')
def dopow(a, b):
return a ** b
vec_size = 100
a = b = np.array(np.random.sample(vec_size), dtype=np.float32)
c = np.zeros(vec_size, dtype=np.float32)
start = timer()
dopow(a, b)
duration = timer() - start
return duration
with blazer.begin(gpu=True): # on-fabric MPI scheduler
with blazer.gpu() as gpu: # on-metal GPU scheduler
# gpu object contains metadata about the GPU assigned
print(dovectors())
```
#### Shared Data Context Handler
Blazer supports synchronizing shared data across ranks seamlessly. Here is an example of sharing a dictionary where each rank adds its own data to the dictionary and it is available to all other ranks magically!
```python
from random import randrange
import blazer
from blazer.hpc.mpi.primitives import rank
with blazer.environment() as vars:
rv = randrange(10)
vars["rank" + str(rank)] = [
{"key": randrange(10)},
randrange(10),
randrange(10),
randrange(10),
]
print("RANK:", rank, "DATA", vars.vars)
blazer.print(vars["rank1"])
```
### Cross-Cluster Supercomputing
Blazer comes with a built-in design pattern for performing cross-cluster HPC. This is useful if you want to allocate compute resources on different super-computers and then build a pipeline of jobs across them. Here is a simple example using ALCF's Cooley and Theta systems (which are built into blazer).
```python
from blazer.hpc.alcf import cooley, thetagpu
from blazer.hpc.local import parallel, pipeline, partial as p
# Log into each cluster using MFA password from MobilePASS
cooleyjob = cooley.job(user='dgovoni', n=1, q="debug", A="datascience", password=True, script="/home/dgovoni/git/blazer/testcooley.sh").login()
thetajob = thetagpu.job(user='dgovoni', n=1, q="single-gpu", A="datascience", password=True, script="/home/dgovoni/git/blazer/testthetagpu.sh").login()
def hello(data, *args):
return "Hello "+str(data)
# Mix and match cluster compute jobs with local code tasks
# in serial chaining
cooleyjob("some data").then(hello).then(thetajob).then(hello)
# Run a cross cluster compute job
result = pipeline([
p(thetajob,"some data2"),
p(cooleyjob,"some data1")
])
print("Done")
```
When each job `.login()` method is run, it will gather the MFA login credentials for that system and then use that to schedule jobs on that system via ssh.
Notice the use of the `pipeline` primitive above. It's the same primitive you would use to build your compute workflows! Composable tasks and composable super-computers.
زبان مورد نیاز
| مقدار | نام |
|---|---|
| >=3.8.* | Python |
نحوه نصب
نصب پکیج whl blazer-0.1.35:
pip install blazer-0.1.35.whl
نصب پکیج tar.gz blazer-0.1.35:
pip install blazer-0.1.35.tar.gz