moving the lamppost

random musings of a molecular biologist turned code jockey in the era of big data and open science.

Blacktie BUGFIX release: 0.2.1.2

../../../_images/basic_cummerbund_plots.png

The Bug:

In short, on a Mac pprocess complained:

"AttributeError: 'module' object has no attribute 'poll'"

when trying to set up a queue.

This caused a fatal unhandled exception that was discovered on a Macintosh. Version 0.2.1.2 should restore functionality of blacktie for people experiencing this problem.

For more detail see github issue: https://github.com/xguse/blacktie/issues/10

The Fix:

This is a quick fix that looks for that exception and continues without using pprocess if it is encountered. A more permanent fix will be included once I understand what is going on.

Attention

  • It is recommended that all users update to 0.2.1.2 to avoid this issue.
  • Anyone with knowledge of this issue is encouraged to comment on the issues thread above or in the Comments section below.

What is blacktie?

blacktie is a pipeline to streamline the deployment of the popular “Tuxedo Protocol” for RNA-seq analysis. Please take a look at the Project Summary section of blacktie‘s documentation for more details.