Remove abomonation to reduce unsoundness (#575)

* Remove abomonation to reduce unsoundness

* Add missing Serialize/Deserialize derives

* Tidy zero_copy, and leave a note explaining that it isn't

.github/workflows/test.yml

@@ -16,4 +16,3 @@ jobs:
       # clutter target/debug/deps with multiple copies of things.
       run: for file in $(find mdbook -name '*.md'); do rustdoc --test $file  -L ./target/debug/deps; done
     - run: cargo test
-    - run: cargo test --features bincode

communication/Cargo.toml

@@ -18,12 +18,10 @@ default = ["getopts"]
 
 [dependencies]
 getopts = { version = "0.2.14", optional = true }
-bincode = { version = "1.0", optional = true }
+bincode = { version = "1.0" }
 byteorder = "1.5"
 serde_derive = "1.0"
 serde = "1.0"
-abomonation = "0.7"
-abomonation_derive = "0.5"
 timely_bytes = { path = "../bytes", version = "0.12" }
 timely_logging = { path = "../logging", version = "0.12" }
 crossbeam-channel = "0.5.0"

communication/src/allocator/zero_copy/mod.rs

@@ -1,8 +1,12 @@
 //! Allocators based on serialized data which avoid copies.
 //!
-//! These allocators are based on `Abomonation` serialization, and its ability to deserialized
-//! typed Rust data in-place. They surface references to data, often ultimately referencing the
+//! These allocators were based on `Abomonation` serialization, and its ability to deserialized
+//! typed Rust data in-place. They surfaced references to data, often ultimately referencing the
 //! raw binary data they initial received.
+//!
+//! For the moment, they no longer use Abomonation due to its unsafety, and instead rely on the
+//! use of `Message::from_bytes` which .. could .. use Abomonation or something safer, but uses
+//! `bincode` at of this writing.
 
 pub mod bytes_slab;
 pub mod bytes_exchange;

communication/src/allocator/zero_copy/push_pull.rs

@@ -90,7 +90,7 @@ impl<T:Data> Pull<Message<T>> for Puller<T> {
         self.receiver
             .borrow_mut()
             .pop_front()
-            .map(|bytes| unsafe { Message::from_bytes(bytes) });
+            .map(Message::from_bytes);
 
         &mut self.current
     }
@@ -134,7 +134,7 @@ impl<T:Data> Pull<Message<T>> for PullerInner<T> {
             self.receiver
                 .borrow_mut()
                 .pop_front()
-                .map(|bytes| unsafe { Message::from_bytes(bytes) });
+                .map(Message::from_bytes);
 
             &mut self.current
         }

communication/src/lib.rs

@@ -8,8 +8,7 @@
 //! receive endpoint. Messages sent into a send endpoint will eventually be received by the corresponding worker,
 //! if it receives often enough. The point-to-point channels are each FIFO, but with no fairness guarantees.
 //!
-//! To be communicated, a type must implement the [`Serialize`](serde::Serialize) trait when using the
-//! `bincode` feature or the [`Abomonation`](abomonation::Abomonation) trait when not.
+//! To be communicated, a type must implement the [`Serialize`](serde::Serialize) trait.
 //!
 //! Channel endpoints also implement a lower-level `push` and `pull` interface (through the [`Push`](Push) and [`Pull`](Pull)
 //! traits), which is used for more precise control of resources.
@@ -77,14 +76,9 @@
 
 #[cfg(feature = "getopts")]
 extern crate getopts;
-#[cfg(feature = "bincode")]
 extern crate bincode;
-#[cfg(feature = "bincode")]
 extern crate serde;
 
-extern crate abomonation;
-#[macro_use] extern crate abomonation_derive;
-
 extern crate timely_bytes as bytes;
 extern crate timely_logging as logging_core;
 
@@ -97,26 +91,15 @@ pub mod buzzer;
 
 use std::any::Any;
 
-#[cfg(feature = "bincode")]
 use serde::{Serialize, Deserialize};
-#[cfg(not(feature = "bincode"))]
-use abomonation::Abomonation;
 
 pub use allocator::Generic as Allocator;
 pub use allocator::Allocate;
 pub use initialize::{initialize, initialize_from, Config, WorkerGuards};
 pub use message::Message;
 
 /// A composite trait for types that may be used with channels.
-#[cfg(not(feature = "bincode"))]
-pub trait Data : Send+Sync+Any+Abomonation+'static { }
-#[cfg(not(feature = "bincode"))]
-impl<T: Send+Sync+Any+Abomonation+'static> Data for T { }
-
-/// A composite trait for types that may be used with channels.
-#[cfg(feature = "bincode")]
 pub trait Data : Send+Sync+Any+Serialize+for<'a>Deserialize<'a>+'static { }
-#[cfg(feature = "bincode")]
 impl<T: Send+Sync+Any+Serialize+for<'a>Deserialize<'a>+'static> Data for T { }
 
 /// Pushing elements of type `T`.

communication/src/logging.rs

@@ -1,7 +1,9 @@
 //! Configuration and events for communication logging.
 
+use serde::{Serialize, Deserialize};
+
 /// Configuration information about a communication thread.
-#[derive(Abomonation, Debug, PartialEq, Eq, Hash, Clone, Copy)]
+#[derive(Debug, PartialEq, Eq, Hash, Clone, Copy, Serialize, Deserialize)]
 pub struct CommunicationSetup {
     /// True when this is a send thread (or the receive thread).
     pub sender: bool,
@@ -12,7 +14,7 @@ pub struct CommunicationSetup {
 }
 
 /// Various communication events.
-#[derive(Abomonation, Debug, PartialEq, Eq, Hash, Clone, Copy)]
+#[derive(Debug, PartialEq, Eq, Hash, Clone, Copy, Serialize, Deserialize)]
 pub enum CommunicationEvent {
     /// An observed message.
     Message(MessageEvent),
@@ -21,7 +23,7 @@ pub enum CommunicationEvent {
 }
 
 /// An observed message.
-#[derive(Abomonation, Debug, PartialEq, Eq, Hash, Clone, Copy)]
+#[derive(Debug, PartialEq, Eq, Hash, Clone, Copy, Serialize, Deserialize)]
 pub struct MessageEvent {
     /// true for send event, false for receive event
     pub is_send: bool,
@@ -30,7 +32,7 @@ pub struct MessageEvent {
 }
 
 /// Starting or stopping communication threads.
-#[derive(Abomonation, Debug, PartialEq, Eq, Hash, Clone, Copy)]
+#[derive(Debug, PartialEq, Eq, Hash, Clone, Copy, Serialize, Deserialize)]
 pub struct StateEvent {
     /// Is the thread a send (vs a recv) thread.
     pub send: bool,

communication/src/message.rs

@@ -2,7 +2,6 @@
 
 use std::sync::Arc;
 use bytes::arc::Bytes;
-use abomonation;
 use crate::Data;
 
 /// Either an immutable or mutable reference.
@@ -68,8 +67,6 @@ pub struct Message<T> {
 
 /// Possible returned representations from a channel.
 enum MessageContents<T> {
-    /// Binary representation. Only available as a reference.
-    Binary(abomonation::abomonated::Abomonated<T, Bytes>),
     /// Rust typed instance. Available for ownership.
     Owned(T),
     /// Atomic reference counted. Only available as a reference.
@@ -88,15 +85,13 @@ impl<T> Message<T> {
     /// Destructures and returns any typed data.
     pub fn if_typed(self) -> Option<T> {
         match self.payload {
-            MessageContents::Binary(_) => None,
             MessageContents::Owned(typed) => Some(typed),
             MessageContents::Arc(_) => None,
         }
     }
     /// Returns a mutable reference, if typed.
     pub fn if_mut(&mut self) -> Option<&mut T> {
         match &mut self.payload {
-            MessageContents::Binary(_) => None,
             MessageContents::Owned(typed) => Some(typed),
             MessageContents::Arc(_) => None,
         }
@@ -108,54 +103,12 @@ impl<T> Message<T> {
     /// data are serialized binary data.
     pub fn as_ref_or_mut(&mut self) -> RefOrMut<T> {
         match &mut self.payload {
-            MessageContents::Binary(bytes) => { RefOrMut::Ref(bytes) },
             MessageContents::Owned(typed) => { RefOrMut::Mut(typed) },
             MessageContents::Arc(typed) => { RefOrMut::Ref(typed) },
         }
     }
 }
 
-// These methods require `T` to implement `Abomonation`, for serialization functionality.
-#[cfg(not(feature = "bincode"))]
-impl<T: Data> Message<T> {
-    /// Wrap bytes as a message.
-    ///
-    /// # Safety
-    ///
-    /// This method is unsafe, in that `Abomonated::new()` is unsafe: it presumes that
-    /// the binary data can be safely decoded, which is unsafe for e.g. UTF8 data and
-    /// enumerations (perhaps among many other types).
-    pub unsafe fn from_bytes(bytes: Bytes) -> Self {
-        let abomonated = abomonation::abomonated::Abomonated::new(bytes).expect("Abomonated::new() failed.");
-        Message { payload: MessageContents::Binary(abomonated) }
-    }
-
-    /// The number of bytes required to serialize the data.
-    pub fn length_in_bytes(&self) -> usize {
-        match &self.payload {
-            MessageContents::Binary(bytes) => { bytes.as_bytes().len() },
-            MessageContents::Owned(typed) => { abomonation::measure(typed) },
-            MessageContents::Arc(typed) =>{ abomonation::measure::<T>(&**typed) } ,
-        }
-    }
-
-    /// Writes the binary representation into `writer`.
-    pub fn into_bytes<W: ::std::io::Write>(&self, writer: &mut W) {
-        match &self.payload {
-            MessageContents::Binary(bytes) => {
-                writer.write_all(bytes.as_bytes()).expect("Message::into_bytes(): write_all failed.");
-            },
-            MessageContents::Owned(typed) => {
-                unsafe { abomonation::encode(typed, writer).expect("Message::into_bytes(): Abomonation::encode failed"); }
-            },
-            MessageContents::Arc(typed) => {
-                unsafe { abomonation::encode(&**typed, writer).expect("Message::into_bytes(): Abomonation::encode failed"); }
-            },
-        }
-    }
-}
-
-#[cfg(feature = "bincode")]
 impl<T: Data> Message<T> {
     /// Wrap bytes as a message.
     pub fn from_bytes(bytes: Bytes) -> Self {
@@ -166,7 +119,6 @@ impl<T: Data> Message<T> {
     /// The number of bytes required to serialize the data.
     pub fn length_in_bytes(&self) -> usize {
         match &self.payload {
-            MessageContents::Binary(bytes) => { bytes.as_bytes().len() },
             MessageContents::Owned(typed) => {
                 ::bincode::serialized_size(&typed).expect("bincode::serialized_size() failed") as usize
             },
@@ -179,9 +131,6 @@ impl<T: Data> Message<T> {
     /// Writes the binary representation into `writer`.
     pub fn into_bytes<W: ::std::io::Write>(&self, writer: &mut W) {
         match &self.payload {
-            MessageContents::Binary(bytes) => {
-                writer.write_all(bytes.as_bytes()).expect("Message::into_bytes(): write_all failed.");
-            },
             MessageContents::Owned(typed) => {
                 ::bincode::serialize_into(writer, &typed).expect("bincode::serialize_into() failed");
             },
@@ -197,7 +146,6 @@ impl<T> ::std::ops::Deref for Message<T> {
     fn deref(&self) -> &Self::Target {
         // TODO: In principle we have aready decoded, but let's go again
         match &self.payload {
-            MessageContents::Binary(bytes) => { bytes },
             MessageContents::Owned(typed) => { typed },
             MessageContents::Arc(typed) => { typed },
         }
@@ -208,7 +156,6 @@ impl<T: Clone> Message<T> {
     /// Produces a typed instance of the wrapped element.
     pub fn into_typed(self) -> T {
         match self.payload {
-            MessageContents::Binary(bytes) => bytes.clone(),
             MessageContents::Owned(instance) => instance,
             // TODO: Could attempt `Arc::try_unwrap()` here.
             MessageContents::Arc(instance) => (*instance).clone(),
@@ -218,7 +165,6 @@ impl<T: Clone> Message<T> {
     pub fn as_mut(&mut self) -> &mut T {
 
         let cloned: Option<T> = match &self.payload {
-            MessageContents::Binary(bytes) => Some((*bytes).clone()),
             MessageContents::Owned(_) => None,
             // TODO: Could attempt `Arc::try_unwrap()` here.
             MessageContents::Arc(typed) => Some((**typed).clone()),

communication/src/networking.rs

@@ -9,6 +9,7 @@ use std::thread::sleep;
 use std::time::Duration;
 
 use byteorder::{ReadBytesExt, WriteBytesExt};
+use serde::{Deserialize, Serialize};
 
 // This constant is sent along immediately after establishing a TCP stream, so
 // that it is easy to sniff out Timely traffic when it is multiplexed with
@@ -21,7 +22,7 @@ type ByteOrder = byteorder::BigEndian;
 /// Framing data for each `Vec<u8>` transmission, indicating a typed channel, the source and
 /// destination workers, and the length in bytes.
 // *Warning*: Adding, removing and altering fields requires to adjust the implementation below!
-#[derive(Abomonation, Debug, PartialEq, Eq, Hash, Clone, Copy)]
+#[derive(Debug, PartialEq, Eq, Hash, Clone, Copy, Serialize, Deserialize)]
 pub struct MessageHeader {
     /// index of channel.
     pub channel:    usize,

mdbook/src/chapter_4/chapter_4_5.md

@@ -17,33 +17,21 @@ struct YourStruct { .. }
 
 ## The `ExchangeData` trait
 
-The `ExchangeData` trait is more complicated, and is established in the `communication/` module. There are two options for this trait, which are determined by whether you use the `--bincode` feature at compilation, or not.
+The `ExchangeData` trait is more complicated, and is established in the `communication/` module. The trait is a synonym for
 
-*   If you use `--bincode` then the trait is a synonym for
-
-    ```rust,ignore
-    Send+Sync+Any+serde::Serialize+for<'a>serde::Deserialize<'a>+'static
-    ```
-
-    where `serde` is Rust's most popular serialization and deserialization crate. A great many types implement these traits. If your types does not, you should add these decorators to their definition:
-
-    ```rust,ignore
-    #[derive(Serialize, Deserialize)]
-    ```
-
-    You must include the `serde` crate, and if not on Rust 2018 the `serde_derive` crate.
-
-    The downside to the `--bincode` flag is that deserialization will always involve a clone of the data, which has the potential to adversely impact performance. For example, if you have structures that contain lots of strings, timely dataflow will create allocations for each string even if you do not plan to use all of them.
+```rust,ignore
+Send+Sync+Any+serde::Serialize+for<'a>serde::Deserialize<'a>+'static
+```
 
-*  If you do not use the `--bincode` feature, then the `Serialize` and `Deserialize` requirements are replaced by `Abomonation`, from the `abomonation` crate. This trait allows in-place deserialization, but is implemented for fewer types, and has the potential to be a bit scarier (due to in-place pointer correction).
+where `serde` is Rust's most popular serialization and deserialization crate. A great many types implement these traits. If your types does not, you should add these decorators to their definition:
 
-    Your types likely do not implement `Abomonation` by default, but you can similarly use
+```rust,ignore
+#[derive(Serialize, Deserialize)]
+```
 
-    ```rust,ignore
-    #[derive(Abomonation)]
-    ```
+You must include the `serde` crate, and if not on Rust 2018 the `serde_derive` crate.
 
-    You must include the `abomonation` and `abomonation_derive` crate for this to work correctly.
+The downside to is that deserialization will always involve a clone of the data, which has the potential to adversely impact performance. For example, if you have structures that contain lots of strings, timely dataflow will create allocations for each string even if you do not plan to use all of them.
 
 ## An example
 
@@ -140,7 +128,7 @@ impl<D> TreeNode<D> {
 
 We get a new error. A not especially helpful error. It says that it cannot find an `exchange` method, or more specifically that one exists but it doesn't apply to our type at hand. This is because the data need to satisfy the `ExchangeData` trait but do not. It would be better if this were clearer in the error messages, I agree.
 
-We can fix the problem two ways. First, if you would like to use `bincode`, then we update the source like so:
+The fix is to update the source like so:
 
 ```rust,ignore
 #[macro_use]
@@ -154,10 +142,10 @@ struct TreeNode<D> {
 }
 ```
 
-and make sure to include the `serde_derive` and `serde` crates. Now when we run things (notice the `--features` flag) we see:
+and make sure to include the `serde_derive` and `serde` crates.
 
 ```ignore
-    Echidnatron% cargo run --example types --features bincode
+    Echidnatron% cargo run --example types
         Finished dev [unoptimized + debuginfo] target(s) in 0.07s
          Running `target/debug/examples/types`
     seen: TreeNode { data: 0, children: [] }

timely/Cargo.toml

@@ -17,15 +17,13 @@ license = "MIT"
 
 [features]
 default = ["getopts"]
-bincode= ["timely_communication/bincode"]
 getopts = ["getopts-dep", "timely_communication/getopts"]
 
 [dependencies]
 getopts-dep = { package = "getopts", version = "0.2.14", optional = true }
+bincode = { version = "1.0" }
 serde = "1.0"
 serde_derive = "1.0"
-abomonation = "0.7.3"
-abomonation_derive = "0.5"
 timely_bytes = { path = "../bytes", version = "0.12" }
 timely_logging = { path = "../logging", version = "0.12" }
 timely_communication = { path = "../communication", version = "0.12", default-features = false }

timely/examples/flatcontainer.rs

@@ -1,6 +1,5 @@
 //! Wordcount based on flatcontainer.
 
-#[cfg(feature = "bincode")]
 use {
     std::collections::HashMap,
     timely::container::CapacityContainerBuilder,
@@ -11,7 +10,6 @@ use {
     timely::dataflow::ProbeHandle,
 };
 
-#[cfg(feature = "bincode")]
 fn main() {
 
     type Container = FlatStack<<(String, i64) as RegionPreference>::Region>;
@@ -97,8 +95,3 @@ fn main() {
     })
     .unwrap();
 }
-
-#[cfg(not(feature = "bincode"))]
-fn main() {
-    eprintln!("Example requires feature bincode.");
-}