ml-logger 0.9.4
A Simple and Scalable Logging Utility With a Beautiful Visualization Dashboard
Keywords: ml_logger,visualization,logging,debug,debugging

ML-Logger, A Simple and Scalable Logging Utility With a Beautiful Visualization Dashboard That Is Super Fast
============================================================================================================

|Downloads|

ML-Logger makes it easy to:

-  save data locally and remotely, as **binary**, in a transparent
   ``pickle`` file, with the same API and zero configuration.
-  write from 500+ worker containers to a single instrumentation server
-  visualize ``matplotlib.pyplot`` figures from a remote server locally
   with ``logger.savefig('my_figure.png?raw=true')``

And ml-logger does all of these with *minimal configuration* — you can
use the same logging code-block both locally and remotely with no code-block change.

ML-logger is highly performant – the remote writes are asynchronous. For
this reason it doesn’t slow down your training even with 100+ metric
keys.

Why did we built this, you might ask? Because we want to make it easy
for people in ML to use the same logging code-block in all of they projects,
so that it is easy to get started with someone else’s baseline.

Getting Started!
----------------

To **install** ``ml_logger``, do:

.. code-block:: bash

   pip install ml-logger

..

   The landscape of python modules is a lot messier than that of
   javascript. The most up-to-date ``graphene`` requires the following
   versions:

   ::

      yes | pip install graphene==2.1.3
      yes | pip install graphql-core==2.1
      yes | pip install graphql-relay==0.4.5
      yes | pip install graphql-server-core==1.1.1

Now you can rock!

.. code-block:: python

   from ml_logger import logger

   print(logger)
   # ~> logging data to /tmp/ml-logger-debug

Log key/value pairs, and metrics:

.. code-block:: python

   for i in range(1):
       logger.log(metrics={'some_val/smooth': 10, 'status': f"step ({i})"}, reward=20, timestep=i)
       ### flush the data, otherwise the value would be overwritten with new values in the next iteration.
       logger.flush()
   # outputs ~>
   # ╒════════════════════╤════════════════════════════╕
   # │       reward       │             20             │
   # ├────────────────────┼────────────────────────────┤
   ...

Simple Logging Example
----------------------

In your project files, do:

.. code-block:: python

   from params_proto import ParamsProto, Proto, Flag

   class Args(ParamsProto):
       """ CLI Args for the program
       Try:
           python3 example.py --help
       And it should print out the help strings
       """
       seed = Proto(1, help="random seed")
       D_lr = 5e-4
       G_lr = 1e-4
       Q_lr = 1e-4
       T_lr = 1e-4
       plot_interval = 10
       verbose = Flag("the verbose flag")

   if __name__ == '__main__':
       import scipy
       import numpy as np
       from ml_logger import logger, LOGGER_USER

       # Put in your ~/.bashrc
       # export ML_LOGGER_ROOT = "http://<your-logging-server>:8081"
       # export ML_LOGGER_USER = $USER
       logger.configure(prefix=f"{LOGGER_USER}/scratch/your-experiment-prefix!")


       logger.log_params(Args=vars(Args))
       logger.upload_file(__file__)

       for epoch in range(10):
           logger.log(step=epoch, D_loss=0.2, G_loss=0.1, mutual_information=0.01)
           logger.log_key_value(epoch, 'some string key', 0.0012)
           # when the step index updates, logger flushes all of the key-value pairs to file system/logging server

       logger.flush()

       # Images
       face = scipy.misc.face()
       face_bw = scipy.misc.face(gray=True)
       logger.save_image(face, "figures/face_rgb.png?raw=true")
       logger.save_image(face_bw, "figures/face_bw.png?raw=true")
       image_bw = np.zeros((64, 64, 1))
       image_bw_2 = scipy.misc.face(gray=True)[::4, ::4]

       logger.save_video([face] * 5, "videos/face.mp4")

And it should print out

.. code-block:: bash

   ✓ created a new logging client
   Dashboard: http://app.dash.ml/user-name/your-experiment-prefix!
   Log_directory: http://<your-server-ip>:8080
   ══════════════════════════════════════════
           Args        
   ────────────────────┬─────────────────────
           seed        │ 1                   
           D_lr        │ 0.0005              
           G_lr        │ 0.0001              
           Q_lr        │ 0.0001              
           T_lr        │ 0.0001              
      plot_interval    │ 10                  
   ════════════════════╧═════════════════════
   ╒════════════════════╤════════════════════╕
   │        step        │         9          │
   ├────────────────────┼────────────────────┤
   │       D loss       │       0.200        │
   ├────────────────────┼────────────────────┤
   │       G loss       │       0.100        │
   ├────────────────────┼────────────────────┤
   │ mutual information │       0.010        │
   ╘════════════════════╧════════════════════╛


   Process finished with exit code-block 0

To View the Results
~~~~~~~~~~~~~~~~~~~

|ML-Logger Dashboard|

Note, the ``jwt`` based access control has not been implemented yet. So
you should leave the token field empty.

Logging to a Server
~~~~~~~~~~~~~~~~~~~

**Skip this if you just want to log locally.** When training in
parallel, you want to kickstart an logging server (Instrument Server).
To do so, run:

.. code-block:: bash

   python -m ml_logger.server

Use ssh tunnel if you are running on a managed cluster (with SLURM for
instance). **Important**: to set allow remote logging, you need to pass
in ``--host=0.0.0.0`` so that the server accepts non-localhost
connections.

.. code-block:: bash

   python -m ml_logger.server --host=0.0.0.0

Asynchronously log the summary of LOTs of training metrics
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

A common scenario is you only want to upload averaged statistics of your
metrics. A pattern that @jachiam uses is the following:
``store_metrics()``, ``peak_stored_metrics()``, and
``log_metrics_summary()``

.. code-block:: python

   # You log lots of metrics during training.
   for i in range(100):
       logger.store_metrics(metrics={'some_val/smooth': 10}, some=20, timestep=i)
   # you can peak what's inside the cache and print out a table like this: 
   logger.peek_stored_metrics(len=4)
   # outputs ~>
   #      some      |   timestep    |some_val/smooth
   # ━━━━━━━━━━━━━━━┿━━━━━━━━━━━━━━━┿━━━━━━━━━━━━━━━
   #       20       |       0       |      10
   #       20       |       1       |      10
   #       20       |       2       |      10
   #       20       |       3       |      10

   # The metrics are stored in-memory. Now we need to actually log the summaries:
   logger.log_metrics_summary(silent=True)
   # outputs ~> . (data is now logged to the server)

Table of Contents
-----------------

-  logging ``matplotlib.pyplot`` figures on an headless server
-  [documentation under construction]

How to Develop
--------------

First clone repo, install dev dependencies, and install the module under
evaluation mode.

.. code-block:: bash

   git clone https://github.com/episodeyang/ml_logger.git
   cd ml_logger && cd ml_logger && pip install -r requirements-dev.txt
   pip install -e .

Testing local-mode (without a server)
-------------------------------------

You should be inside ml_logger/ml_logger folder

.. code-block:: bash

   pwd # ~> ml_logger/ml_logger
   make test

Testing with a server (You need to do both for an PR)
-----------------------------------------------------

To test with a live server, first run (in a separate console)

::

   python -m ml_logger.server --data-dir /tmp/ml-logger-debug

or do:

.. code-block:: bash

   make start-test-server

Then run this test script with the option:

.. code-block:: bash

   python -m pytest tests --capture=no --data-dir http://0.0.0.0:8081

or do

.. code-block:: bash

   make test-with-server

Your PR should have both of these two tests working. ToDo: add CI to
this repo.

To Publish
~~~~~~~~~~

You need ``twine``, ``rst-lint`` etc, which are included in the
``requirements-dev.txt`` file.

--------------

Logging Matplotlib pyplots
~~~~~~~~~~~~~~~~~~~~~~~~~~

Configuring The Experiment Folder
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

.. code-block:: python

   from ml_logger import logger, ML_Logger
   from datetime import datetime

   now = datetime.now()
   logger.configure("/tmp/ml-logger-demo", "deep_Q_learning", f"{now:%Y%m%d-%H%M%S}")

This is a singleton pattern similar to ``matplotlib.pyplot``. However,
you could also use the logger constructor

.. code-block:: python

   logger = ML_Logger(root_dir="/tmp/ml-logger-demo", prefix=f"deep_Q_learning/{now:%Y%m%d-%H%M%S}")

Logging Text, and Metrics
~~~~~~~~~~~~~~~~~~~~~~~~~

.. code-block:: python

   logger.log({"some_var/smooth": 10}, some=Color(0.85, 'yellow', percent), step=3)

colored output: (where the values are yellow)

.. code-block:: text

   ╒════════════════════╤════════════════════╕
   │  some var/smooth   │         10         │
   ├────────────────────┼────────────────────┤
   │        some        │       85.0%        │
   ╘════════════════════╧════════════════════╛

Logging Matplotlib Figures
~~~~~~~~~~~~~~~~~~~~~~~~~~

We have optimized ML-Logger, so it supports any format that ``pyplot``
supports. To save a figure locally or remotely,

.. code-block:: python

   import matplotlib.pyplot as plt
   import numpy as np

   xs = np.linspace(-5, 5)

   plt.plot(xs, np.cos(xs), label='Cosine Func')
   logger.savefig('cosine_function.pdf')

Logging Videos
~~~~~~~~~~~~~~

It is especially hard to visualize RL training sessions on a remote
computer. With ML-Logger this is easy, and super fast. We optimized the
serialization and transport process, so that a large stack of video
tensor gets first compressed by ``ffmepg`` before getting sent over the
wire.

The compression rate (and speed boost) can be 2000:1.

.. code-block:: python

   import numpy as np

   def im(x, y):
       canvas = np.zeros((200, 200))
       for i in range(200):
           for j in range(200):
               if x - 5 < i < x + 5 and y - 5 < j < y + 5:
                   canvas[i, j] = 1
       return canvas

   frames = [im(100 + i, 80) for i in range(20)]

   logger.log_video(frames, "test_video.mp4")

Saving PyTorch Modules
~~~~~~~~~~~~~~~~~~~~~~

PyTorch has a very nice module saving and loading API that has inspired
the one in ``Keras``. We make it easy to save this state dictionary
(``state_dict``) to a server, and load it. This way you can load from
100+ of your previous experiments, without having to download those
weights to your code-block repository.

.. code-block:: python

   # save a module
   logger.save_module(cnn, "FastCNN.pkl")

   # load a module
   logger.load_module(cnn, f"FastCNN.pkl")

Saving Tensorflow Models
~~~~~~~~~~~~~~~~~~~~~~~~

The format tensorflow uses to save the models is opaque. I prefer to
save model weights in ``pickle`` as a dictionary. This way the weight
files are transparent. ML_Logger offers easy helper functions to save
and load from checkpoints saved in this format:

.. code-block:: python

   ## To save checkpoint
   from ml_logger import logger
   import tensorflow as tf

   logger.configure(log_directory="/tmp/ml-logger-demos")

   x = tf.get_variable('x', shape=[], initializer=tf.constant_initializer(0.0))
   y = tf.get_variable('y', shape=[], initializer=tf.constant_initializer(10.0))
   c = tf.Variable(1000)

   sess = tf.InteractiveSession()
   sess.run(tf.global_variables_initializer())

   trainables = tf.trainable_variables()
   logger.save_variables(trainables, path="variables.pkl", namespace="checkpoints")

which creates a file ``checkpoints/variables.pkl`` under
``/tmp/ml-logger-demos``.

Visualization
-------------

An idea visualization dashboard would be 1. **Fast, instantaneous.** On
an AWS headless server? View the plots as if they are on your local
computer. 2. **Searchable, performantly.** So that you don’t have to
remember where an experiment is from last week. 3. **Answer Questions,
from 100+ Experiments.** We make available Google’s internal
hyperparameter visualization tool, on your own computer.

Searching for Hyper Parameters
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Experiments are identified by the ``metrics.pkl`` file. You can log
multiple times to the same ``metrics.pkl`` file, and the later parameter
values overwrites earlier ones with the same key. We enforce namespace
in this file, so each key/value argument you pass into the
``logger.log_parameters`` function call has to be a dictionary.

.. code-block:: python

   Args = dict(
       learning_rate=10,
       hidden_size=200
   )
   logger.log_parameters(Args=Args)

How to launch the Vis App
~~~~~~~~~~~~~~~~~~~~~~~~~

**This requires node.js and yarn dev environment** at the moment. We
will streamline this process without these requirements soon.

0. download this repository
1. go to ``ml-vis-app`` folder
2. Install the dev dependencies

   1. install node: `Installation <https://nodejs.org/en/download/>`__
   2. install yarn:
      `Installation <https://yarnpkg.com/lang/en/docs/install/#mac-stable>`__
   3. install the dependencies of this visualization app:

      1. ``yarn install``

3. in that folder, run ``yarn``.

**The IP address of the server is currently hard
code-blockd**\ `here <https://github.com/episodeyang/ml_logger/blob/master/ml-vis-app/src/App.js#L11>`__\ **.**
To use this with your own instrumentation server, over-write this line.
I’m planning on making this configuration more accessible.

Full Logging API
----------------

.. code-block:: python

   from ml_logger import logger, Color, percent

   logger.log_params(G=dict(some_config="hey"))
   logger.log(some=Color(0.1, 'yellow'), step=0)
   logger.log(some=Color(0.28571, 'yellow', lambda v: "{:.5f}%".format(v * 100)), step=1)
   logger.log(some=Color(0.85, 'yellow', percent), step=2)
   logger.log({"some_var/smooth": 10}, some=Color(0.85, 'yellow', percent), step=3)
   logger.log(some=Color(10, 'yellow'), step=4)

colored output: (where the values are yellow)

.. code-block:: text

   ╒════════════════════╤════════════════════╕
   │        some        │        0.1         │
   ╘════════════════════╧════════════════════╛
   ╒════════════════════╤════════════════════╕
   │        some        │     28.57100%      │
   ╘════════════════════╧════════════════════╛
   ╒════════════════════╤════════════════════╕
   │        some        │       85.0%        │
   ╘════════════════════╧════════════════════╛
   ╒════════════════════╤════════════════════╕
   │  some var/smooth   │         10         │
   ├────────────────────┼────────────────────┤
   │        some        │       85.0%        │
   ╘════════════════════╧════════════════════╛

This version of logger also prints out a tabular printout of the data
you are logging to your ``stdout``. - can silence ``stdout`` per key
(per ``logger.log`` call) - can print with color:
``logger.log(timestep, some_key=green(some_data))`` - can print with
custom formatting:
``logger.log(timestep, some_key=green(some_data, percent))`` where
``percent`` - uses the correct ``unix`` table characters (please stop
using ``|`` and ``+``. **Use ``│``, ``┼`` instead**)

A typical print out of this logger look like the following:

.. code-block:: python

   from ml_logger import ML_Logger

   logger = ML_Logger(root_dir=f"/mnt/bucket/deep_Q_learning/{datetime.now(%Y%m%d-%H%M%S.%f):}")

   logger.log_params(G=vars(G), RUN=vars(RUN), Reporting=vars(Reporting))

outputs the following

.. code-block:: text

   ═════════════════════════════════════════════════════
                 G               
   ───────────────────────────────┬─────────────────────
              env_name            │ MountainCar-v0      
                seed              │ None                
         stochastic_action        │ True                
            conv_params           │ None                
            value_params          │ (64,)               
           use_layer_norm         │ True                
            buffer_size           │ 50000               
         replay_batch_size        │ 32                  
         prioritized_replay       │ True                
               alpha              │ 0.6                 
             beta_start           │ 0.4                 
              beta_end            │ 1.0                 
       prioritized_replay_eps     │ 1e-06               
         grad_norm_clipping       │ 10                  
              double_q            │ True                
            use_dueling           │ False               
        exploration_fraction      │ 0.1                 
             final_eps            │ 0.1                 
            n_timesteps           │ 100000              
           learning_rate          │ 0.001               
               gamma              │ 1.0                 
           learning_start         │ 1000                
           learn_interval         │ 1                   
   target_network_update_interval │ 500                 
   ═══════════════════════════════╧═════════════════════
                RUN              
   ───────────────────────────────┬─────────────────────
           log_directory          │ /mnt/slab/krypton/machine_learning/ge_dqn/2017-11-20/162048.353909-MountainCar-v0-prioritized_replay(True)
             checkpoint           │ checkpoint.cp       
              log_file            │ output.log          
   ═══════════════════════════════╧═════════════════════
             Reporting           
   ───────────────────────────────┬─────────────────────
        checkpoint_interval       │ 10000               
           reward_average         │ 100                 
           print_interval         │ 10                  
   ═══════════════════════════════╧═════════════════════
   ╒════════════════════╤════════════════════╕
   │      timestep      │        1999        │
   ├────────────────────┼────────────────────┤
   │      episode       │         10         │
   ├────────────────────┼────────────────────┤
   │    total reward    │       -200.0       │
   ├────────────────────┼────────────────────┤
   │ total reward/mean  │       -200.0       │
   ├────────────────────┼────────────────────┤
   │  total reward/max  │       -200.0       │
   ├────────────────────┼────────────────────┤
   │time spent exploring│       82.0%        │
   ├────────────────────┼────────────────────┤
   │    replay beta     │        0.41        │
   ╘════════════════════╧════════════════════╛

TODO:
-----

Visualization (Preview):boom:
-----------------------------

In addition, ml-logger also comes with a powerful visualization
dashboard that beats tensorboard in every aspect.

.. figure:: https://github.com/episodeyang/ml_logger/blob/master/figures/ml_visualization_dashboard_preview.png?raw=true
   :alt: ml visualization dashboard

   ml visualization dashboard

An Example Log from ML-Logger
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

A common pain that comes after getting to launch ML training jobs on AWS
is a lack of a good way to manage and visualize your data. So far, a
common practice is to upload your experiment data to aws s3 or google
cloud buckets. Then one quickly realizes that downloading data from s3
can be slow. s3 does

not offer diffsync like gcloud-cli’s ``g rsync``. This makes it hard to
sync a large collection of data that is constantly appended to.

So far the best way we have found for organizing experimental data is to
have a centralized instrumentation server. Compared with managing your
data on S3, a centralized instrumentation server makes it much easier to
move experiments around, run analysis that is co-located with your data,
and hosting visualization dashboards on the same machine. To download
data locally, you can use ``sshfs``, ``smba``, ``rsync`` or a variety of
remote disks. All faster than s3.

ML-Logger is the logging utility that allows you to do this. To make
ML_logger easy to use, we made it so that you can use ml-logger with
zero configuration, logging to your local hard-drive by default. When
the logging directory field
``logger.configure(log_directory= <your directory>)`` is an http end
point, the logger will instantiate a fast, future based logging client
that launches http requests in a separate thread. We optimized the
client so that it won’t slow down your training code-block.

API wise, ML-logger makes it easy for you to log textual printouts,
simple scalars, numpy tensors, image tensors, and ``pyplot`` figures.
Because you might also want to read data from the instrumentation
server, we also made it possible to load numpy, pickle, text and binary
files remotely.

In the future, we will start building an integrated dashboard with fast
search, live figure update and markdown-based reporting/dashboarding to
go with ml-logger.

Now give this a try, and profit!

.. |Downloads| image:: http://pepy.tech/badge/ml-logger
   :target: http://pepy.tech/project/ml-logger
.. |ML-Logger Dashboard| image:: figures/app-dash-ml_setup.png?raw=true
   :target: https://app.dash.ml/