Mac install docker from source code install#
Mac install docker from source code zip file#
Mac install docker from source code code#

Mac install docker from source code zip file#

32-bit binaries are provided in the 32bit branch of sate-tools-linux git project (so download this zip file instead).ī. Those with 32-bit Linux machines need to be aware that the master branch has 64-bit binaries.You need to rename these directories and remove the -master part. When you use the zip files instead of using git, after decompressing the zip file you may get a directory called sate-tools-mac-master or sate-tools-linux-master instead of sate-tools-mac or sate-tools-linux.

Mac install docker from source code code#

Note that the tools directory and the PASTA code directory should be under the same parent directory.Or you can directly download these as zip files forĪnd decompress them in your target directory (e.g. Open a terminal and create a directory where you want to keep PASTA and go to this directory.

Mac install docker from source code install#

The setup script does not automatically install this. wxPython - only required if you want to use the GUI.Dendropy (but the setup script should automatically install dendropy for you if you don't have it).Python (version 2.7 or later, including python 3).Windows won't work currently (future versions may or may not support Windows). The current version of PASTA has been developed and tested entirely on Linux and MAC. This will create an app underĭist directory, which you should be able to run and copy to any other location. Installing PASTA from the source code (see below) and then run Simply run the PASTA app from where you copied it. dmg file and copy its content to your preferred destination (do not run PASTA from the image itself). Otherwise, we reocmmend either Docker or the code.ĭownload the MAC application. dmg file is a good option (although sometimes it can be behind the latest code). MAC: We have four options for MAC: VM, Docker, installing from the code, and downloading the.Linux: If you have Linux (or other *nix systems), you can still use Docker or VM, but downloading the code from github and installing it is what we recommend.Among those two options, Docker is the preferred method. Windows: If you have a Windows machine, currently using the Docker image or the Virtual Machine (VM) image we provide is your only option.You have four options for installing PASTA. In addition to this README file, you can consult this Tutorial. Niema Moshiri has contributed to the import to dendropy 4 and python 3 and to the Docker image. Refer to sate-doc directory for documentation of the SATé code, including the list of authors, license, etc. The current PASTA code is heavily based on the SATé code developed by Mark Holder's group at KU. The latest version of the code includes a new code decomposition designed and implemented by Uyen Mai. The code and the algorithm are developed by Siavash Mirarab and Tandy Warnow, with help from Nam Nguyen. doi:10.1101/591388.Īll questions and inquires should be addressed to our user email group: Please check our Tutorial and previous posts before sending new requests. “TreeCluster : Clustering Biological Sequences Using Phylogenetic Trees.” BioRxiv, 2019, 591388. Balaban, Metin, Niema Moshiri, Uyen Mai, and Siavash Mirarab.

The latest version includes a new decomposition technique described here: PASTA: Ultra-Large Multiple Sequence Alignment for Nucleotide and Amino-Acid Sequences.

Mirarab S, Nguyen N, Guo S, Wang L-S, Kim J, Warnow T.

PASTA: ultra-large multiple sequence alignment. This is an implementation of the PASTA (Practical Alignment using Saté and TrAnsitivity) algorithm published in RECOMB-2014 and JCB: