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I have dowloaded blat from here. I have also added in to executable path:

PATH=$PATH:/Users/katja/Desktop/MyDocuments/Programms/blat

But I can run the program only from the folder where it is situated and only by typing ./blat and not simple blat, therefore homer does not find it. What should I do in order to be able to run a program just blat?

which blat gave nothing.

echo $PATH
/Users/katja/Desktop/MyDocuments/Programms/blat
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You should add to your PATH the directory in which the executable is located, without the executable name:

PATH=$PATH:/Users/katja/Desktop/MyDocuments/Programms

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