Concoct won't read indexed bam file

[emily-ap]

Please additionally see issue https://github.com/BinPro/CONCOCT/issues/307.
Hi, I was trying to use my sorted bam files to run concoct, but it wanted things indexed. I indexed them and it didn't work. Then I found the issue linked above and am now creating bam files. However, the indexed files weren't made from these files so I'm remaking the indexes so concoct can use them without receiving the error that the indexed files were younger than the bam files.

Fortunately I have an abundance of data to bin. Unfortunately I don't have infinite space, and time. Solving these issues has pushed my timeline back immensely and required me to do a lot of storage sorting that other binning programs don't require me to do .

Concoct is a great binning software. If there's a way this issue can be avoided so that workflows could be more streamlined (i.e. be able to use sorted bams, or use index files without bams and sorted bams being present) I think it'd be an immense improvement.