add benchmark

autochunk_benchmark.py

@@ -0,0 +1,79 @@
+import copy
+import torch
+import torch.nn.functional as F
+import pytest
+import torch.fx
+import torch.multiprocessing as mp
+from torch.fx import GraphModule
+from colossalai.fx import ColoTracer
+import colossalai
+from colossalai.utils import free_port
+from colossalai.core import global_context as gpc
+from colossalai.fx.graph_module import ColoGraphModule
+from colossalai.fx.passes.meta_info_prop import MetaInfoProp, TensorMetadata
+from colossalai.fx.profiler import MetaTensor
+from evoformer.evoformer import evoformer_base
+from chunk_codegen import ChunkCodeGen
+import time
+
+
+def _benchmark_evoformer(model: torch.nn.Module, node, pair):
+    loop = 10
+    with torch.no_grad():
+        for _ in range(loop // 4):
+            model(node, pair)
+        torch.cuda.synchronize()
+        time1 = time.time()
+        for _ in range(loop):
+            model(node, pair)
+        torch.cuda.synchronize()
+        time2 = time.time()
+    return (time2 - time1) / loop
+
+
+def benchmark_evoformer():
+    # data
+    msa_len = 300
+    pair_len = 800
+    node = torch.randn(1, msa_len, pair_len, 256).cuda()
+    pair = torch.randn(1, pair_len, pair_len, 128).cuda()
+
+    # build gm model
+    max_memory = 3000  # MB
+    model = evoformer_base().cuda()
+    # trace the module and replace codegen
+    graph = ColoTracer().trace(
+        model,
+        meta_args={
+            "node": node.to(torch.device("meta")),
+            "pair": pair.to(torch.device("meta")),
+        },
+    )
+    gm_prop = torch.fx.symbolic_trace(model)  # must use symbolic_trace
+    interp = MetaInfoProp(gm_prop)
+    interp.propagate(
+        MetaTensor(node, fake_device="cuda:0"), MetaTensor(pair, fake_device="cuda:0")
+    )
+    # now run it twice to get meta info in graph module, not necessary
+    gm = torch.fx.GraphModule(model, graph)
+    interp = MetaInfoProp(gm)
+    interp.propagate(
+        MetaTensor(node, fake_device="cuda:0"), MetaTensor(pair, fake_device="cuda:0")
+    )
+    # set code_gen
+    codegen = ChunkCodeGen(gm_prop, max_memory)
+    graph.set_codegen(codegen)
+    gm = ColoGraphModule(model, graph)
+    gm.recompile()
+    # print
+    code = graph.python_code("self").src
+    print(code)
+
+    time_gm = _benchmark_evoformer(gm, node, pair)
+    print("gm %.4fs" % time_gm)
+    time_openfold = _benchmark_evoformer(model, node, pair)
+    print("openfold %.4fs" % time_openfold)
+
+
+if __name__ == "__main__":
+    benchmark_evoformer()

chunk_codegen.py

@@ -1398,13 +1398,14 @@ class MemoryEstimator(object):
 
 class ChunkSelector(object):
     def __init__(
-        self, index_tracer: IndexTracer, memory_estimator: MemoryEstimator, stratge
+        self, index_tracer: IndexTracer, memory_estimator: MemoryEstimator, stratge, max_memory=None
     ):
         self.index_tracer = index_tracer
         self.memory_estimator = memory_estimator
         assert stratge in ["min_memory", "fit_memory"]
+        assert (stratge == "fit_memory" and max_memory is not None) or stratge != "fit_memory"
         self.stratge = stratge
-        self.max_memory = 600  # MB
+        self.max_memory = max_memory  # MB
 
     def _select_best_chunk_region(
         self, possible_chunk_regions, chunk_infos, peak_node, max_chunk_region, mem_peak
@@ -1556,13 +1557,13 @@ class ChunkSelector(object):
 
 
 class ChunkRegionSearch(object):
-    def __init__(self, gm) -> None:
+    def __init__(self, gm, max_memory=None) -> None:
         self.gm = gm
         self.index_tracer = IndexTracer(list(gm.graph.nodes))
         self.index_tracer.trace_index()
         self.memory_estimator = MemoryEstimator(self.index_tracer)
         self.chunk_selector = ChunkSelector(
-            self.index_tracer, self.memory_estimator, stratge="fit_memory"
+            self.index_tracer, self.memory_estimator, stratge="fit_memory", max_memory=max_memory
         )
 
     def _find_peak_node(self, mem_peak):
@@ -1897,6 +1898,7 @@ def emit_code_with_chunk(
     delete_unused_value_func,
     meta_nodes,
     meta_graph,
+    max_memory=None,
 ):
     """Emit code with nested activation checkpoint
     When we detect some of the node.activation_checkpoint is a List, we will use
@@ -1912,7 +1914,7 @@ def emit_code_with_chunk(
     node_list = list(nodes)
 
     # find the chunk regions
-    chunk_region_search = ChunkRegionSearch(meta_graph)
+    chunk_region_search = ChunkRegionSearch(meta_graph, max_memory)
     chunk_search = chunk_region_search.search_region()
 
     chunk_regions = [i["region"] for i in chunk_search]
@@ -1989,9 +1991,10 @@ def emit_code_with_chunk(
 if CODEGEN_AVAILABLE:
 
     class ChunkCodeGen(CodeGen):
-        def __init__(self, meta_graph):
+        def __init__(self, meta_graph, max_memory=None):
             super().__init__()
             self.meta_graph = meta_graph
+            self.max_memory = max_memory
             self.meta_node = list(meta_graph.graph.nodes)
 
         def _gen_python_code(
@@ -2230,6 +2233,7 @@ if CODEGEN_AVAILABLE:
                 delete_unused_values,
                 self.meta_node,
                 self.meta_graph,
+                self.max_memory
             )
 
             if len(body) == 0: