![]() ![]() ![]() Xcrun: error: invalid active developer path (/Library/Developer/CommandLineTools), missing xcrun at: /Library/Developer/CommandLineTools/usr/bin/xcrun When creating the `gatk conda` environment using `conda env create -f gatkcondaenv.yml` for GATK v4.0.8.1 on my Mac, I run into the following error.Ĭollecting pysam=0.13 (from -r /Applications/genomicstools/gatk/gatk-4.0.8.1/ (line 17))Ĭomplete output from command python setup.py egg_info:Ĭhecking whether the C compiler works… noĬonfigure: error: in `/private/var/folders/z0/s2h6193s3nb_75fsv36m5xldw34_0r/T/pip-build-_0t_kf9d/pysam/htslib’:Ĭonfigure: error: C compiler cannot create executables For latest documentation and forum click here This information is only valid until Dec 31st 2019. IMPORTANT: This is the legacy GATK Forum discussions website.
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