if flowcell_lanes is a column in sample metadata, forces it to be a string…

[uwidocki]

…otherwise, the collating function will not work if it is a single integer. Minor edits to make defaults in the script match new defaults we also use on Jenkins UI

[jdavis3141]

Is there the potential that this would cause an issue when merging with our uncollapsed_raw_counts since we're not enforcing the same type there?

[uwidocki]

Is there the potential that this would cause an issue when merging with our uncollapsed_raw_counts since we're not enforcing the same type there?

There is no conflict with this merge since the lanes in uncollapsed were always read in as ints because it is a single integer in each entry, and the way flowcell_lanes in sample_meta is handled seems to assume they are always strings since the list of lanes is read in as a string.

[jdavis3141]

Thanks! Looks good to me then!

[ashishge1]

Would be good to check if QC_images.R or any of the other modules using sample_meta needs a similar fix. Otherwise, looks good to me!