spark-instrumented-optimizer/docs
leahmcguire d01a6d8c33 [SPARK-4894][mllib] Added Bernoulli option to NaiveBayes model in mllib
Added optional model type parameter for  NaiveBayes training. Can be either Multinomial or Bernoulli.

When Bernoulli is given the Bernoulli smoothing is used for fitting and for prediction as per: http://nlp.stanford.edu/IR-book/html/htmledition/the-bernoulli-model-1.html.

 Default for model is original Multinomial fit and predict.

Added additional testing for Bernoulli and Multinomial models.

Author: leahmcguire <lmcguire@salesforce.com>
Author: Joseph K. Bradley <joseph@databricks.com>
Author: Leah McGuire <lmcguire@salesforce.com>

Closes #4087 from leahmcguire/master and squashes the following commits:

f3c8994 [leahmcguire] changed checks on model type to requires
acb69af [leahmcguire] removed enum type and replaces all modelType parameters with strings
2224b15 [Leah McGuire] Merge pull request #2 from jkbradley/leahmcguire-master
9ad89ca [Joseph K. Bradley] removed old code
6a8f383 [Joseph K. Bradley] Added new model save/load format 2.0 for NaiveBayesModel after modelType parameter was added.  Updated tests.  Also updated ModelType enum-like type.
852a727 [leahmcguire] merged with upstream master
a22d670 [leahmcguire] changed NaiveBayesModel modelType parameter back to NaiveBayes.ModelType, made NaiveBayes.ModelType serializable, fixed getter method in NavieBayes
18f3219 [leahmcguire] removed private from naive bayes constructor for lambda only
bea62af [leahmcguire] put back in constructor for NaiveBayes
01baad7 [leahmcguire] made fixes from code review
fb0a5c7 [leahmcguire] removed typo
e2d925e [leahmcguire] fixed nonserializable error that was causing naivebayes test failures
2d0c1ba [leahmcguire] fixed typo in NaiveBayes
c298e78 [leahmcguire] fixed scala style errors
b85b0c9 [leahmcguire] Merge remote-tracking branch 'upstream/master'
900b586 [leahmcguire] fixed model call so that uses type argument
ea09b28 [leahmcguire] Merge remote-tracking branch 'upstream/master'
e016569 [leahmcguire] updated test suite with model type fix
85f298f [leahmcguire] Merge remote-tracking branch 'upstream/master'
dc65374 [leahmcguire] integrated model type fix
7622b0c [leahmcguire] added comments and fixed style as per rb
b93aaf6 [Leah McGuire] Merge pull request #1 from jkbradley/nb-model-type
3730572 [Joseph K. Bradley] modified NB model type to be more Java-friendly
b61b5e2 [leahmcguire] added back compatable constructor to NaiveBayesModel to fix MIMA test failure
5a4a534 [leahmcguire] fixed scala style error in NaiveBayes
3891bf2 [leahmcguire] synced with apache spark and resolved merge conflict
d9477ed [leahmcguire] removed old inaccurate comment from test suite for mllib naive bayes
76e5b0f [leahmcguire] removed unnecessary sort from test
0313c0c [leahmcguire] fixed style error in NaiveBayes.scala
4a3676d [leahmcguire] Updated changes re-comments. Got rid of verbose populateMatrix method. Public api now has string instead of enumeration. Docs are updated."
ce73c63 [leahmcguire] added Bernoulli option to niave bayes model in mllib, added optional model type parameter for training. When Bernoulli is given the Bernoulli smoothing is used for fitting and for prediction http://nlp.stanford.edu/IR-book/html/htmledition/the-bernoulli-model-1.html
2015-03-31 11:16:55 -07:00
..
_layouts [SPARK-5310][Doc] Update SQL Programming Guide to include DataFrames. 2015-03-09 16:16:16 -07:00
_plugins [SPARK-4501][Core] - Create build/mvn to automatically download maven/zinc/scalac 2014-12-27 13:26:38 -08:00
css [SPARK-1566] consolidate programming guide, and general doc updates 2014-05-30 00:34:33 -07:00
img [SPARK-5879][MLLIB] update PIC user guide and add a Java example 2015-02-18 16:29:32 -08:00
js [SPARK-1566] consolidate programming guide, and general doc updates 2014-05-30 00:34:33 -07:00
_config.yml [SPARK-6371] [build] Update version to 1.4.0-SNAPSHOT. 2015-03-20 18:43:57 +00:00
api.md [SPARK-1439, SPARK-1440] Generate unified Scaladoc across projects and Javadocs 2014-04-21 21:57:40 -07:00
bagel-programming-guide.md [SPARK-5608] Improve SEO of Spark documentation pages 2015-02-05 11:12:50 -08:00
building-spark.md [docs] [SPARK-4820] Spark build encounters "File name too long" on some encrypted filesystems 2015-03-17 11:26:11 +00:00
cluster-overview.md [SPARK-1566] consolidate programming guide, and general doc updates 2014-05-30 00:34:33 -07:00
configuration.md [SPARK-6313] Add config option to disable file locks/fetchFile cache to ... 2015-03-17 09:33:11 -07:00
contributing-to-spark.md Work in progress: 2013-09-08 00:29:11 -07:00
ec2-scripts.md [SPARK-6402][DOC] - Remove some refererences to shark in docs and ec2 2015-03-19 08:02:06 -04:00
graphx-programming-guide.md [SPARK-6510][GraphX]: Add Graph#minus method to act as Set#difference 2015-03-26 19:08:09 -07:00
hadoop-third-party-distributions.md [SPARK-4501][Core] - Create build/mvn to automatically download maven/zinc/scalac 2014-12-27 13:26:38 -08:00
hardware-provisioning.md Change port from 3030 to 4040 2013-09-11 10:01:38 -07:00
index.md [SPARK-5310][Doc] Update SQL Programming Guide to include DataFrames. 2015-03-09 16:16:16 -07:00
java-programming-guide.md [SPARK-1566] consolidate programming guide, and general doc updates 2014-05-30 00:34:33 -07:00
job-scheduling.md [SPARK-6402][DOC] - Remove some refererences to shark in docs and ec2 2015-03-19 08:02:06 -04:00
ml-guide.md [ML][docs][minor] Define LabeledDocument/Document classes in CV example 2015-03-24 16:33:38 +00:00
mllib-classification-regression.md [SPARK-5974] [SPARK-5980] [mllib] [python] [docs] Update ML guide with save/load, Python GBT 2015-02-25 16:13:17 -08:00
mllib-clustering.md [SPARK-5987] [MLlib] Save/load for GaussianMixtureModels 2015-03-25 14:45:23 -07:00
mllib-collaborative-filtering.md [SPARK-6053][MLLIB] support save/load in PySpark's ALS 2015-03-01 16:26:57 -08:00
mllib-data-types.md SPARK-6454 [DOCS] Fix links to pyspark api 2015-03-22 15:56:25 +00:00
mllib-decision-tree.md [SPARK-6097][MLLIB] Support tree model save/load in PySpark/MLlib 2015-03-02 22:27:01 -08:00
mllib-dimensionality-reduction.md SPARK-1307 [DOCS] Don't use term 'standalone' to refer to a Spark Application 2014-10-14 21:37:51 -07:00
mllib-ensembles.md [SPARK-6025] [MLlib] Add helper method evaluateEachIteration to extract learning curve 2015-03-20 17:14:09 -07:00
mllib-feature-extraction.md [SPARK-5912] [docs] [mllib] Small fixes to ChiSqSelector docs 2015-02-23 16:15:57 -08:00
mllib-frequent-pattern-mining.md [SPARK-5900][MLLIB] make PIC and FPGrowth Java-friendly 2015-02-19 18:06:16 -08:00
mllib-guide.md [SPARK-6278][MLLIB] Mention the change of objective in linear regression 2015-03-13 10:27:28 -07:00
mllib-isotonic-regression.md [MLLIB][SPARK-5502] User guide for isotonic regression 2015-02-15 09:10:03 -08:00
mllib-linear-methods.md [SPARK-5537][MLlib][Docs] Add user guide for multinomial logistic regression 2015-03-02 22:37:12 -08:00
mllib-migration-guides.md [SPARK-5867] [SPARK-5892] [doc] [ml] [mllib] Doc cleanups for 1.3 release 2015-02-20 02:31:32 -08:00
mllib-naive-bayes.md [SPARK-4894][mllib] Added Bernoulli option to NaiveBayes model in mllib 2015-03-31 11:16:55 -07:00
mllib-optimization.md [SPARK-6336] LBFGS should document what convergenceTol means 2015-03-17 12:11:57 -07:00
mllib-statistics.md SPARK-6454 [DOCS] Fix links to pyspark api 2015-03-22 15:56:25 +00:00
monitoring.md Add a note for context termination for History server on Yarn 2015-02-26 14:20:30 -08:00
programming-guide.md [SPARK-5750][SPARK-3441][SPARK-5836][CORE] Added documentation explaining shuffle 2015-03-30 11:54:01 +01:00
python-programming-guide.md [SPARK-1566] consolidate programming guide, and general doc updates 2014-05-30 00:34:33 -07:00
quick-start.md [SPARK-5608] Improve SEO of Spark documentation pages 2015-02-05 11:12:50 -08:00
README.md [SPARK-6596] fix the instruction on building scaladoc 2015-03-30 11:41:43 +01:00
running-on-mesos.md [SPARK-6423][Mesos] MemoryUtils should use memoryOverhead if it's set 2015-03-20 19:14:35 +00:00
running-on-yarn.md [SPARK-6469] Improving documentation on YARN local directories usage 2015-03-24 17:05:49 -07:00
scala-programming-guide.md [SPARK-1566] consolidate programming guide, and general doc updates 2014-05-30 00:34:33 -07:00
security.md [SPARK-5608] Improve SEO of Spark documentation pages 2015-02-05 11:12:50 -08:00
spark-standalone.md [SPARK-6552][Deploy][Doc]expose start-slave.sh to user and update outdated doc 2015-03-28 12:32:35 +00:00
sql-programming-guide.md [DOCS][SQL] Fix JDBC example 2015-03-26 14:51:46 -07:00
storage-openstack-swift.md [SPARK-938][doc] Add OpenStack Swift support 2014-09-07 20:56:04 -07:00
streaming-custom-receivers.md [SPARK-4806] Streaming doc update for 1.2 2014-12-11 06:21:23 -08:00
streaming-flume-integration.md [SPARK-6128][Streaming][Documentation] Updates to Spark Streaming Programming Guide 2015-03-11 18:48:21 -07:00
streaming-kafka-integration.md [SPARK-6128][Streaming][Documentation] Updates to Spark Streaming Programming Guide 2015-03-11 18:48:21 -07:00
streaming-kinesis-integration.md SPARK-3069 [DOCS] Build instructions in README are outdated 2014-09-16 09:18:03 -07:00
streaming-programming-guide.md [SPARK-6128][Streaming][Documentation] Updates to Spark Streaming Programming Guide 2015-03-11 18:48:21 -07:00
submitting-applications.md [SPARK-6426][Doc]User could also point the yarn cluster config directory via YARN_CONF_DI... 2015-03-20 18:42:18 +00:00
tuning.md [SPARK-5608] Improve SEO of Spark documentation pages 2015-02-05 11:12:50 -08:00

Welcome to the Spark documentation!

This readme will walk you through navigating and building the Spark documentation, which is included here with the Spark source code. You can also find documentation specific to release versions of Spark at http://spark.apache.org/documentation.html.

Read on to learn more about viewing documentation in plain text (i.e., markdown) or building the documentation yourself. Why build it yourself? So that you have the docs that corresponds to whichever version of Spark you currently have checked out of revision control.

Generating the Documentation HTML

We include the Spark documentation as part of the source (as opposed to using a hosted wiki, such as the github wiki, as the definitive documentation) to enable the documentation to evolve along with the source code and be captured by revision control (currently git). This way the code automatically includes the version of the documentation that is relevant regardless of which version or release you have checked out or downloaded.

In this directory you will find textfiles formatted using Markdown, with an ".md" suffix. You can read those text files directly if you want. Start with index.md.

The markdown code can be compiled to HTML using the Jekyll tool. Jekyll and a few dependencies must be installed for this to work. We recommend installing via the Ruby Gem dependency manager. Since the exact HTML output varies between versions of Jekyll and its dependencies, we list specific versions here in some cases:

$ sudo gem install jekyll
$ sudo gem install jekyll-redirect-from

Execute jekyll from the docs/ directory. Compiling the site with Jekyll will create a directory called _site containing index.html as well as the rest of the compiled files.

You can modify the default Jekyll build as follows:

# Skip generating API docs (which takes a while)
$ SKIP_API=1 jekyll build
# Serve content locally on port 4000
$ jekyll serve --watch
# Build the site with extra features used on the live page
$ PRODUCTION=1 jekyll build

Pygments

We also use pygments (http://pygments.org) for syntax highlighting in documentation markdown pages, so you will also need to install that (it requires Python) by running sudo pip install Pygments.

To mark a block of code in your markdown to be syntax highlighted by jekyll during the compile phase, use the following sytax:

{% highlight scala %}
// Your scala code goes here, you can replace scala with many other
// supported languages too.
{% endhighlight %}

Sphinx

We use Sphinx to generate Python API docs, so you will need to install it by running sudo pip install sphinx.

API Docs (Scaladoc and Sphinx)

You can build just the Spark scaladoc by running build/sbt unidoc from the SPARK_PROJECT_ROOT directory.

Similarly, you can build just the PySpark docs by running make html from the SPARK_PROJECT_ROOT/python/docs directory. Documentation is only generated for classes that are listed as public in __init__.py.

When you run jekyll in the docs directory, it will also copy over the scaladoc for the various Spark subprojects into the docs directory (and then also into the _site directory). We use a jekyll plugin to run build/sbt unidoc before building the site so if you haven't run it (recently) it may take some time as it generates all of the scaladoc. The jekyll plugin also generates the PySpark docs Sphinx.

NOTE: To skip the step of building and copying over the Scala and Python API docs, run SKIP_API=1 jekyll.