I remember the same or a similar story. A similar question is asked here.
There are several answers to that question. The answer (by FuzzyBoots) that sounds most like the story I remember, and a lot like your story, is "Pictures don't Lie" by Katherine MacLean. That story is online at Project Gutenberg.
"A half circle of cliffs around the horizon. A wide muddy lake swarming with swimming things. Huge, strange white foliage all around the ship and incredibly huge pulpy monsters attacking and eating each other on all sides. We almost landed in the lake, right on the soft edge. The mud can't hold the ship's weight, and we're sinking. The engineer says we might be able to blast free, but the tubes are mud-clogged and might blow up the ship. When can you reach us?"
Nathen laughed again harshly, reaching for the mike. "Get them out? There isn't a lake or river within hundreds of miles from here!"
A shiver of unreality went down the Times' spine. Automatically and inanely, he found himself delving in his pocket for a cigarette while he tried to grasp what had happened. "Where are they, then? Why can't we see their spaceship?"
Nathen switched the microphone on in a gesture that showed the bitterness of his disappointment.
"We'll need a magnifying glass for that."