QGIS 2.14.3 "Essen" is really very slow when saving edits on a single layer (point features) on Ubuntu 16.04 64 bits.

There is only about 100 points in this layer. In editing mode, when saving, it takes about 15-20min (grayed QGIS windows during this time). CPU (Athlon II X4 640) is always at 100% activity during this time. Data are stored locally. There is no connection to any network.

What is the cause and how to fix it?

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