I have not seen how to upload to previous networks using net_spec, but you can always use protobuf objects directly. (I use your network structure as an example)
import caffe.proto.caffe_pb2 as caffe_pb2
import google.protobuf as pb
from caffe import layers as L
net = caffe_pb2.NetParameter()
with open('net.prototxt', 'r') as f:
pb.text_format.Merge(f.read(), net)
net.layer[1].name = 'conv1_1'
net.layer[1].top[0] = 'conv1_1'
net.layer[2].name = 'conv1_2'
net.layer[2].top[0] = 'conv1_2'
net.layer[2].bottom[0] = 'conv1_1'
net.layer[3].bottom[0] = 'conv2_2'
conv2_1 = net.layer.add()
conv2_1.CopyFrom(L.Convolution(kernel_size=7, stride=1, num_output=48, pad=0).to_proto().layer[0])
conv2_1.name = 'conv2_1'
conv2_1.top[0] = 'conv2_1'
conv2_1.bottom.add('conv1_2')
conv2_2 = net.layer.add()
conv2_2.CopyFrom(L.Convolution(kernel_size=7, stride=1, num_output=48, pad=0).to_proto().layer[0])
conv2_2.name = 'conv2_2'
conv2_2.top[0] = 'conv2_2'
conv2_2.bottom.add('conv2_1')
with open('net2.prototxt, 'w') as f:
f.write(pb.text_format.MessageToString(net))
Also see here as a guide to protocol buffers in python and here for current caffe message formats.
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