Merge latest ariba code from master #1
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Fix utf-8 encoding problems
Bowtie2 version issues
correct spelling mistake
Changed card to utilise .tar.bz2 from .tar.gz
Version bump 2.10.2
Mlst hetmin bug
update readme
dont require X to run ariba
Cleanup tmp dirs before copytree in case the test harness is repeated in a directory after previous run has failed with unhandled exceptions.
…des and Bowtie2. Spades improves upon default fermilight on challenging datasets with highly uneven coverage (viral, amplicon, single-cell). Multithreading for Spades and Bowtie2 subprocesses is adaptive - kicks in at the end of a multiprocessing map run when idle threads were appearing otherwise (or in cases of overall fewer clusters than total threads).
Option to use Spades and multithreading for Bowtie2 and Spades
Additional v2.14.0 updates
Backed out MANIFEST.in change, bumped release number to v2.14.1 and added fix for issue 263
…n PyPI and Bioconda distributions
Added AUTHORS and LICENSE to the manifest
…docker RT 660940 - add spades to docker file
…n_upd Removed the specific Ariba release number from the docker file
Addresses issue #275
Remove extra matplotlib entry in install_requires
Fix for issue #278 Version 3.0.3 of CARD breaks prepareref
…or the card database when using docker
Added default locale to docker file
…nnot method has been updated accordingly
Fixed GitHub issue #281 - ARG-ANNOT Fails to Download
Remove support information
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