Stuck on an issue?

Lightrun Answers was designed to reduce the constant googling that comes with debugging 3rd party libraries. It collects links to all the places you might be looking at while hunting down a tough bug.

And, if you’re still stuck at the end, we’re happy to hop on a call to see how we can help out.

HiC: All samples merged without considering group

See original GitHub issue

Hello!

I invoked HiC with a config.yaml file that included merge_samples: true and provided a sampleSheet:

name    condition
SRR7061198      siCTR
SRR7061199      siCTR
SRR7061200      siSA1
SRR7061201      siSA1
SRR7061202      siSA2
SRR7061203      siSA2

I expected HiC to merge the files based on the grouping I provided in the second column. Instead it merged all the samples together. Is this the expected behavior?

Thank you, Henry Miller

Issue Analytics

State:
Created 4 years ago
Comments:9 (5 by maintainers)

Top GitHub Comments

1reaction

millerh1commented, Aug 7, 2019

They were – I checked that using cat -T command

I haven’t had a chance to run this again – but I will let you know when I do! I’m sure it’s an error I made somewhere in my command if it hasn’t been reproducible

From: LeilyR notifications@github.com Sent: Wednesday, August 7, 2019 1:56 AM To: maxplanck-ie/snakepipes snakepipes@noreply.github.com Cc: Henry E. Miller millerh1@livemail.uthscsa.edu; Author author@noreply.github.com Subject: Re: [maxplanck-ie/snakepipes] HiC: All samples merged without considering group (#474)

To be honest I don’t think there is any differences between them. I cannot recall any recent changes on that, but yeah you could try develop if you want. Just be sure that your columns are tab separated!

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHubhttps://github.com/maxplanck-ie/snakepipes/issues/474?email_source=notifications&email_token=AKV4344B4JBAXLTF3QP4RODQDJWZPA5CNFSM4IIHR3B2YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOD3XM23A#issuecomment-518966636, or mute the threadhttps://github.com/notifications/unsubscribe-auth/AKV434572LEJHYNAQWLVPEDQDJWZPANCNFSM4IIHR3BQ.

1reaction

millerh1commented, Jul 31, 2019

Okay! Thank you for looking into this!