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Old 06-21-2017, 08:09 AM   #1
mevs
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Location: Northern Ireland

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Default Samtools mac install problems

Hello - relative bioinformatics newbie here, so apologies in advance if these are stupid questions!

I'm trying to install Samtools (tried both 1.4.1 and 1.5) on Mac OS X 10.11.6.

I seem to get through the install process (using ./configure, make and make install without any error messages, but it seems to me that the resulting Samtools folder only contains a limited selection of the executables that should be available:

ace2sam* export2sam.pl* maq2sam-short* novo2sam.pl* sam2vcf.pl* seq_cache_populate.pl* wgsim*
blast2sam.pl* interpolate_sam.pl* md5fa* plot-bamstats* samtools* soap2sam.pl* wgsim_eval.pl*
bowtie2sam.pl* maq2sam-long* md5sum-lite* psl2sam.pl* samtools.pl* varfilter.py* zoom2sam.pl*

For example, faidx is not there. Am I missing something here - is there another folder with the rest of the executables?

Thanks in advance!
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Old 06-21-2017, 08:22 AM   #2
GenoMax
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Default

I answered your identical question on Biostars: https://www.biostars.org/p/258576/ already.
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