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After clipping by mask in QGIS 3.6 the output file has been blank (empty). Raster file and vector mask file have the same projected CRS:

USER:100029 - * Generated CRS (+proj=igh +a=6370997 +b=6370997 +units=m +no_defs)

How can I solve this problem?

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Try checking for errors in the vector mask file using Geometry checker and Topology checker plugin. I had the same problem once and fixing the errors in the vector file did the trick.

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