* Add json encode/decode for php.

* Fix php conformance test on 32-bit machines.

* Fix conformance test for c extension.

* Fix comments

* Add scripts to build python wheel for linux.
Followed PEP513.

* Fix dist check for new added files.

* Update README for usage example.

* adds PHPDoc @return and @param for getters and setters respectively

* addresses changes in PR review

* adds documentation tests

* Update php_generator:

- Prepend \ to names where required
- Remove <pre> tags
- Update protobuf field comments

* Updates class files with the protobuf changes

* Addresses review comments

* removes Protobuf Type line from PHP generated classes

* fixes phpdoc test

* adds array types to phpdoc

* Follows proper autoloading standards
 - Splits PHP classes in descriptor.php into separate files
 - Splits MapFieldIter and RepeatedFieldIter into separate files
 - Moves descriptor.php to Internal/functions.php
 - Moves all namespaced functions into Iternal/functions.php

* fixes Makefile.am for added php files

* [PHP] moves all functions to GPBUtil

* removes description.php from the makefile

* Add new file option php_namespace.

Use this option to change the namespace of php generated classes.
Default is empty. When this option is empty, the package name will be
used for determining the namespace.

* Uncomment commented tests

* Revert gdb test change

* Update csharp descriptor.

* Add test for empty php_namespace.

This has one important packaging change: the netstandard version now
depends (implicitly) on netstandard1.6.1 rather than on individual
packages. This is the preferred style of dependency, and shouldn't
affect any users - see http://stackoverflow.com/questions/42946951
for details.

The tests are still NUnit, but NUnit doesn't support "dotnet test"
yet; the test project is now an executable using NUnitLite. (When
NUnit supports dotnet test, we can adapt to it.)

Note that the project will now only work in Visual Studio 2017 (and
Visual Studio Code, and from the command line with the .NET Core
1.0.0 SDK); Visual Studio 2015 does *not* support this project file
format.

- Fix up -copyWithZone: to not leave the two registries sharing
  some of the storage by using -addExtensions:.
- Improve -addExtensions: to clone the sub dict when there is
  nothing to merge into.
- A ExtensionRegistry unittests.
- Update project schemes to not have extra things in perf scheme.

* Add compatibility test for php.

* Revert API incompatible change.

descriptor.proto uses proto2 syntax, which is not ready for external
usage. However, some proto3 files import descriptor.proto and cannot be
used. In this PR, all references (We cheated by only removing
extensions, which is enough for now. User should avoid using messages
defined in descriptor.proto as field type.) to content in
descriptor.proto are removed from generated files. Those that import
descriptor.proto can be used like other proto files.

This option will be prepended to generated classes of all messages in
the containing file.

This commit adds a __wrap_memcpy function and a linker flag to use that
in place of memcpy for our Ruby gem C extension. This allows us to
always use the 2.2.5 version of memcpy, making it possible to use the
gem on distributions with pre-2.14 versions of glibc.

Before this change:
$ objdump -T protobuf_c.so | grep memcpy
0000000000000000      DF *UND*  0000000000000000  GLIBC_2.3.4 __memcpy_chk
0000000000000000      DF *UND*  0000000000000000  GLIBC_2.14  memcpy

After:
$ objdump -T protobuf_c.so | grep memcpy
0000000000000000      DF *UND*  0000000000000000  GLIBC_2.2.5 memcpy
0000000000000000      DF *UND*  0000000000000000  GLIBC_2.3.4 __memcpy_chk
0000000000042450 g    DF .text  0000000000000005  Base __wrap_memcpy

This is based on gRPC's solution to a similar problem:
https://github.com/grpc/grpc/blob/5098508d2d41a116113f7e333c516cd9ef34a943/src/core/lib/support/wrap_memcpy.c

This fixes issue #2783.

* Changing DOTNET35 framework symbols in preprocessor directives to the default built-in value of NET35.
* Adding extension method StreamExtension.CopyTo for .NET 3.5 because it didn’t exist until .NET 4, and adding associated unit tests.

* Down-integrate internal changes to github.

* Update conformance test failure list.

* Explicitly import used class in nano test to avoid random test fail.

* Update _GNUC_VER to use the correct implementation of atomic operation
on Mac.

* maps_test.js: check whether Symbol is defined before using it (#2524)

Symbol is not yet available on older versions of Node.js and so this
test fails with them. This change just directly checks whether Symbol is
available before we try to use it.

* Added well_known_types_embed.cc to CLEANFILES so that it gets cleaned up

* Updated Makefile.am to fix out-of-tree builds

* Added Bazel genrule for generating well_known_types_embed.cc

In pull request #2517 I made this change for the CMake and autotools
builds but forgot to do it for the Bazel build.

* Update _GNUC_VER to use the correct implementation of atomic operation on Mac.

* Add new js file in extra dist.

* Bump version number to 3.2.0

* Fixed issue with autoloading - Invalid paths (#2538)

* PHP fix int64 decoding (#2516)

* fix int64 decoding

* fix int64 decoding + tests

* Fix int64 decoding on 32-bit machines.

* Fix warning in compiler/js/embed.cc

embed.cc: In function ‘std::string CEscape(const string&)’:
embed.cc:51:32: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for (int i = 0; i < str.size(); ++i) {
                                ^

* Fix include in auto-generated well_known_types_embed.cc

Restore include style fix (e3da722b) that has been trampled by
auto-generation of well_known_types_embed.cc

* Fixed cross compilations with the Autotools build

Pull request #2517 caused cross compilations to start failing, because
the js_embed binary was being built to run on the target platform
instead of on the build machine. This change updates the Autotools build
to use the AX_PROG_CXX_FOR_BUILD macro to find a suitable compiler for
the build machine and always use that when building js_embed.

* Minor fix for autocreated object repeated fields and maps.

- If setting/clearing a repeated field/map that was objects, check the class
  before checking the autocreator.
- Just to be paranoid, don’t mutate within copy/mutableCopy for the autocreated
  classes to ensure there is less chance of issues if someone does something
  really crazy threading wise.
- Some more tests for the internal AutocreatedArray/AutocreatedDictionary
  classes to ensure things are working as expected.
- Add Xcode 8.2 to the full_mac_build.sh supported list.

* Fix generation of extending nested messages in JavaScript (#2439)

* Fix generation of extending nested messages in JavaScript

* Added missing test8.proto to build

* Fix generated code when there is no namespace but there is enum definition.

* Decoding unknown field should succeed.

* Add embed.cc in src/Makefile.am to fix dist check.

* Fixed "make distcheck" for the Autotools build

To make the test pass I needed to fix out-of-tree builds and update
EXTRA_DIST and CLEANFILES.

* Remove redundent embed.cc from src/Makefile.am

* Update version number to 3.2.0-rc.1 (#2578)

* Change protoc-artifacts version to 3.2.0-rc.1

* Update version number to 3.2.0rc2

* Update change logs for 3.2.0 release.

* Update php README

* Update upb, fixes some bugs (including a hash table problem). (#2611)

* Update upb, fixes some bugs (including a hash table problem).

* Ruby: added a test for the previous hash table corruption.

Verified that this triggers the bug in the currently released
version.

* Ruby: bugfix for SEGV.

* Ruby: removed old code for dup'ing defs.

* Reverting deployment target to 7.0 (#2618)

The Protobuf library doesn’t require the 7.1 deployment target so
reverting it back to 7.0

* Fix typo that breaks builds on big-endian (#2632)

* Bump version number to 3.2.0

This consists of:
- Changing the codegen for the fixed set of options protos, to parse unknown fields instead of skipping them
- Add a new CustomOptions type in the C# support library
- Expose CustomOptions properties from the immutable proto wrappers in the support library

Only single-value options are currently supported, and fetching options values requires getting the type right
and knowing the field number. Both of these can be addressed at a later time.

Fixes #2143, at least as a first pass.

* Fix generation of extending nested messages in JavaScript

* Added missing test8.proto to build

- If setting/clearing a repeated field/map that was objects, check the class
  before checking the autocreator.
- Just to be paranoid, don’t mutate within copy/mutableCopy for the autocreated
  classes to ensure there is less chance of issues if someone does something
  really crazy threading wise.
- Some more tests for the internal AutocreatedArray/AutocreatedDictionary
  classes to ensure things are working as expected.
- Add Xcode 8.2 to the full_mac_build.sh supported list.

1. Generate single file for each message.
2. Lazily initiate metadata.

- Check the parent file options for deprecation when deciding to tag Messages
  and Enums as deprecated.
- Within the generated source push/pop the warning for implementing deprecated
  things around a deprecated class implementation.
- Annotate the methods generated for extension fields as deprecated.
- Add a testing .proto file that covers deprecated fields, messages, enums,
  enum values and compile it into the unittests to confirm things compile
  cleanly.
- Add a testing .proto file that uses the file level option to make everything
  deprecated and compile it into the unittests to confirm things compile
  cleanly.

* Factored Conformance test messages into shared test schema.

* Updated benchmarks to use new proto3 message locations.

* Fixed include path.

* Conformance: fixed include of Python test messages.

* Make maven in Rakefile use --batch-mode.

* Revert changes to benchmarks.

On second thought I think a separate schema for
CPU benchmarking makes sense.

* Try regenerating C# protos for new test protos.

* Removed benchmark messages from test proto.

* Added Jon Skeet's fixes for C#.

* Removed duplicate/old test messages C# file.

* C# fixes for test schema move.

* Fixed C# to use the correct TestAllTypes message.

* Fixes for Objective C test schema move.

* Added missing EXTRA_DIST file.

At generation time, walk the file's dependencies to see what really contains
extensions so we can generate more minimal code that only links together the
roots that provided extensions. Gets a bunch of otherwise noop code out of
the call flow when the roots are +initialized.

Change-Id: If80725402173cdf50969cb08e7fe5affe3532fb2