[Segway-announce] Segway 2.0.5 released

Roberts, Eric Eric.Roberts at uhnresearch.ca
Wed Jun 26 07:26:17 PDT 2019


We are pleased to announce the availability of Segway 2.0.5!

This is primarily a bug fix and enhancement related release. It's highly recommended to upgrade to avoid these bugs in the future.

Segway (and Genomedata) are both available on Bioconda. With Bioconda installed, to install segway run 'conda install segway'. Segway can still be installed through older methods using "pip", see the Quickstart Guide (https://segway.readthedocs.io/en/latest/quick.html) for details.

Segway now performs marginally better in the case where it is running locally and not submitting to a cluster machine. Previously, Segway would hold off on submitting jobs to a cluster when running multiple instances in order not to immediately flood the job submission queue. This self-imposed job submission restriction has been removed in the case there is no cluster system Segway can submit jobs to.

Here is a full list of changes made since the last announcement here:

Enhancements:
* segway: removed sleeping on main segway process for multiple training instances
* segway: when running locally segway will no longer initially sleep training threads

Bug Fixes:
* segway: fixed bug causing identify to fail with archives of different track numbers
* segway: fixed python 3 encoding issue arising when --bigBed is selected
* segway: fix RestartableJob priority sorting when memory requirements match


Known Bugs: To see all known bugs head to the issue tracker at http://bitbucket.org/hoffmanlab/segway/issues


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