MacOs installation issue

[vittorione94]

Hello,

Thanks for open sourcing this project :)

I'm having troubles installing this repo on mac. After modifying a bit the cmake file I managed to get it to produce the make file but then I have some issues with protobuf versions (at least I believe I do).

The only difference is instead of using ${FIJI_DIR}/jars/ I replaced it with ${FIJI_DIR}/../../jars/ due to how macOS sorts stuff in the directory.

The error I get after make install is:

symbol:   method emptyFloatList()
  location: class Builder
caffe/Caffe.java:1930: error: cannot find symbol
          data_ = mutableCopy(data_);
                  ^
  symbol:   method mutableCopy(FloatList)
  location: class Builder
caffe/Caffe.java:2000: error: cannot find symbol
        data_ = emptyFloatList();
                ^
  symbol:   method emptyFloatList()
  location: class Builder
caffe/Caffe.java:2006: error: cannot find symbol
      private com.google.protobuf.Internal.FloatList diff_ = emptyFloatList();
                                                             ^
  symbol:   method emptyFloatList()
  location: class Builder
caffe/Caffe.java:2009: error: cannot find symbol
          diff_ = mutableCopy(diff_);
                  ^
  symbol:   method mutableCopy(FloatList)
  location: class Builder
caffe/Caffe.java:2079: error: cannot find symbol
        diff_ = emptyFloatList();
                ^
  symbol:   method emptyFloatList()
  location: class Builder
caffe/Caffe.java:2085: error: cannot find symbol
      private com.google.protobuf.Internal.DoubleList doubleData_ = emptyDoubleList();
                                                                    ^
  symbol:   method emptyDoubleList()
  location: class Builder
caffe/Caffe.java:2088: error: cannot find symbol
          doubleData_ = mutableCopy(doubleData_);
                        ^
  symbol:   method mutableCopy(DoubleList)
  location: class Builder
caffe/Caffe.java:2158: error: cannot find symbol
        doubleData_ = emptyDoubleList();
                      ^
  symbol:   method emptyDoubleList()
  location: class Builder
caffe/Caffe.java:2164: error: cannot find symbol
      private com.google.protobuf.Internal.DoubleList doubleDiff_ = emptyDoubleList();
                                                                    ^
  symbol:   method emptyDoubleList()
  location: class Builder
caffe/Caffe.java:2167: error: cannot find symbol
          doubleDiff_ = mutableCopy(doubleDiff_);
                        ^
  symbol:   method mutableCopy(DoubleList)
  location: class Builder
caffe/Caffe.java:2237: error: cannot find symbol
        doubleDiff_ = emptyDoubleList();
                      ^
  symbol:   method emptyDoubleList()
  location: class Builder
caffe/Caffe.java:2527: error: method does not override or implement a method from a supertype
    @java.lang.Override
    ^
caffe/Caffe.java:2944: error: method parseUnknownField in class com.google.protobuf.GeneratedMessageV3.Builder<BuilderType> cannot be applied to given types;
                if (!super.parseUnknownField(input, extensionRegistry, tag)) {
                          ^
  required: CodedInputStream,com.google.protobuf.UnknownFieldSet.Builder,ExtensionRegistryLite,int
  found:    CodedInputStream,ExtensionRegistryLite,int
  reason: actual and formal argument lists differ in length
  where BuilderType is a type-variable:
    BuilderType extends com.google.protobuf.GeneratedMessageV3.Builder<BuilderType> declared in class com.google.protobuf.GeneratedMessageV3.Builder

I believe that this is due to protobuf versions incompatibility.

My system is the follwing:

  macOS Monterey  
  Model Name:	MacBook Pro
  Processor Name:	Quad-Core Intel Core i7
  Processor Speed:	2.3 GHz

protoc --version
libprotoc 3.3.0

NOTE: this is also not working for libprotoc version 3.21 (the latest)

Any help with this would be greatly appreciated.

Best,
-Vittorio

[ThorstenFalk]

Please check the version of protobuf jars contained in your Fiji installation. Use the same version of protoc for building Caffe.java.