ucsc bigWigToBedGraph tool error
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15 months ago

Hi Everyone,

I am trying to convert a bigWig file to a BedGraph by using the bigWigToBedGraph tool. This failed when trying it in the local-Galaxy environment giving a fatal error 127: command not found (as can be seen in my previous post). I proceeded to get the tool directly from the ucsc directory. When I try to run the tool in the command line by using:

./bigWigToBedGraph dataset_7.dat dataset_10.dat

I get the following error message:

dyld: lazy symbol binding failed: Symbol not found: ____chkstk_darwin
  Referenced from: /Users/Stijn/Desktop/./bigWigToBedGraph (which was built for Mac OS X 10.15)
  Expected in: /usr/lib/libSystem.B.dylib

dyld: Symbol not found: ____chkstk_darwin
  Referenced from: /Users/Stijn/Desktop/./bigWigToBedGraph (which was built for Mac OS X 10.15)
  Expected in: /usr/lib/libSystem.B.dylib

Abort trap: 6

Does anyone know how to tackle this problem? I am using Mac with High Sierra 10.13.6. Any help is much appreciated.

local galaxy bigwig ucsc • 819 views
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Entering edit mode

You were right, I updated the system and everything works perfectly now. Thanks a lot

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Entering edit mode
15 months ago
GenoMax 108k

As you can see the pre-built binary is for macOS catalina (v.10.15) and is not compatible with your older macOS. I would say you should report this to UCSC help desk. It looks like they may need to rebuild this binary to maintain backward compatibility (based on similar errors reported for other tools).

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