id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
83	Importing PyTables HDF5 wrapper generates BytesWarning	Tom Goddard	Tom Goddard	"Opening an HDF5 density map (file suffix .cmap) generates a couples BytesWarning messages about comparison of string to bytes to the log panel.  The warnings are issued when PyTables is imported (import tables).  They are issued in a numpy dtype constructor call (implemented in C).  The underlying problem is that numpy is not cleanly ported to Python 3.  Numpy C code would have to be fixed to avoid this warning.

This warning from numpy is usually not seen.  By default BytesWarning produces no message from the Python warnings module.  But the Chimera 2 frozen main specifically enables these warnings in

  src/apps/chimera2/frozen.patch

While it is good to see errors in our code comparing bytes and strings, it is a nuisance to get stray warning messages from third-party packages.

Not sure what to do about this.

"	defect	closed	minor		Infrastructure		fixed		gregc@… conrad@… pett@…				all	chimera