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statgen / bamUtil

http://genome.sph.umich.edu/wiki/BamUtil
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Compiling issue #3

Closed bastienllamas closed 11 years ago

bastienllamas commented 11 years ago

Hi

The program ClipOverlap.cpp calls the header file OverlapBaseQualMap.h but the latter does not exist in the bamUtil zip package. Compiling ends up with the following error message:

ClipOverlap.cpp:29:32: error: OverlapBaseQualMap.h: No such file or directory make[1]: * [../obj/ClipOverlap.o] Error 1 make: * [src] Error 2

Commenting line 29 in ClipOverlap.cpp seems to solve the compiling issue.

I assume the OverlapBaseQualMap.h is not needed anyway since it is not used in ClipOverlap.cpp. Could you please confirm?

Cheers

Bastien

mktrost commented 11 years ago

You are correct. I removed that include and it compiles fine. That include is for a new method that is in the works but not yet implemented and was inadvertently included.

I have checked in an updated version. Could you please update to that one and let me know if you have any further problems.

Sorry for the trouble. Mary Kate