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Category Archives: os x
Getting list of SIMD flags for Linux and OS X
Here are ways to get SIMD/SSE flags from machines running either Linux or OS X: On Linux (CentOS 7): On Mac OS X 10.12: See: https://stackoverflow.com/a/38345423/19410 for a discussion about how to detect instruction sets.
Speedy BED conversion tool: convert2bed
Finishing touches are in place for my convert2bed tool (GitHub site). This utility converts common genomics data formats (BAM, GFF, GTF, PSL, SAM, VCF, WIG) to lexicographically-sorted UCSC BED format. It offers two benefits over alternatives: It runs about 3-10x as fast as bedtools *ToBed equivalents It converts all input fields in as non-lossy a […]
Selecting a new gcc version installed via MacPorts
MacPorts is useful for installing a variety of command-line utilities and programs for Mac OS X. There are others, e.g. Homebrew. After using MacPorts to update a GNU gcc installation, it is useful to select the new revision. Tips were posted to this Stack Overflow thread. Basically, it boils down to two steps: sudo port […]