[PRE REVIEW]: WGS2NCBI - Toolkit for preparing genomes for submission to NCBI

[whedon]

Submitting author: @rvosa (Rutger Vos)
Repository: https://github.com/naturalis/wgs2ncbi
Version: v1.0.0
Editor: @lpantano
Reviewers: @druvus

Author instructions

Thanks for submitting your paper to JOSS @rvosa. Currently, there isn't an JOSS editor assigned to your paper.

@rvosa if you have any suggestions for potential reviewers then please mention them here in this thread. In addition, this list of people have already agreed to review for JOSS and may be suitable for this submission.

Editor instructions

The JOSS submission bot @whedon is here to help you find and assign reviewers and start the main review. To find out what @whedon can do for you type:

@whedon commands

[whedon]

Hello human, I'm @whedon, a robot that can help you with some common editorial tasks.

For a list of things I can do to help you, just type:

@whedon commands

What happens now?

This submission is currently in a pre-review state which means we are waiting for an editor to be assigned and for them to find some reviewers for your submission. This may take anything between a few hours to a couple of weeks. Thanks for your patience 😸

You can help the editor by looking at this list of potential reviewers to identify individuals who might be able to review your submission (please start at the bottom of the list). Also, feel free to suggest individuals who are not on this list by mentioning their GitHub handles here.

[whedon]

Attempting PDF compilation. Reticulating splines etc...

[whedon]

PDF failed to compile for issue #1353 with the following error:

/app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5469df74be0c/lib/whedon.rb:83:in check_fields': Paper YAML header is missing expected fields: affiliations (RuntimeError) from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5469df74be0c/lib/whedon.rb:69:in initialize'
from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5469df74be0c/lib/whedon/processor.rb:32:in new' from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5469df74be0c/lib/whedon/processor.rb:32:in set_paper'
from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5469df74be0c/bin/whedon:55:in prepare' from /app/vendor/bundle/ruby/2.4.0/gems/thor-0.20.3/lib/thor/command.rb:27:in run'
from /app/vendor/bundle/ruby/2.4.0/gems/thor-0.20.3/lib/thor/invocation.rb:126:in invoke_command' from /app/vendor/bundle/ruby/2.4.0/gems/thor-0.20.3/lib/thor.rb:387:in dispatch'
from /app/vendor/bundle/ruby/2.4.0/gems/thor-0.20.3/lib/thor/base.rb:466:in start' from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5469df74be0c/bin/whedon:116:in <top (required)>'
from /app/vendor/bundle/ruby/2.4.0/bin/whedon:23:in load' from /app/vendor/bundle/ruby/2.4.0/bin/whedon:23:in

'

[danielskatz]

@rvosa, please check your paper source, using https://joss.readthedocs.io/en/latest/submitting.html#example-paper-and-bibliography as an example/template. When you've made changes, enter @whedon generate pdf as a new comment here, and iterate until you are happy with the paper. Then we'll start the pre-review process by assigning an editor.

[danielskatz]

👋 bioinformatics editing team (@pjotrp @mgymrek @brainstorm @lpantano) - can one of you take on this submission as editor?

[rvosa]

@whedon generate pdf

[whedon]

Attempting PDF compilation. Reticulating splines etc...

[whedon]

👉 Check article proof 📄 👈

[pjotrp]

wave bioinformatics editing team (@pjotrp @mgymrek @brainstorm @lpantano) - can one of you take on this submission as editor?

We'll take it on. Thanks @rvosa for submitting this interesting tool!

[danielskatz]

👋 @pjotrp @mgymrek @brainstorm @lpantano - it would be great if whichever of you is willing to edit this would assign it yourself as editor :)

[lpantano]

@whedon assign @lpantano as editor

[lpantano]

@danielskatz @arfon I think whedon doesn't like me anymore ..... it doesn't assign me as editor, maybe I lost permissions :/

[kyleniemeyer]

@whedon assign @lpantano as editor

[whedon]

OK, the editor is @lpantano

[kyleniemeyer]

@lpantano weird! I had also been noticing some delays with whedon, maybe that was the issue.

[arfon]

@whedon list editors

[whedon]

Current editors:

@Kevin-Mattheus-Moerman
@VivianePons
@alexhanna
@arfon
@arokem
@brainstorm
@cMadan
@danielskatz
@eramirem
@gkthiruvathukal
@jasonclark
@jedbrown
@karthik
@katyhuff
@kthyng
@kyleniemeyer
@labarba
@leouieda
@lheagy
@lpantano
@mgymrek
@pjotrp
@poulson
@trallard
@usethedata
@xuanxu
@yochannah

[ooo]

👋 Hey @whedon...

Letting you know, @trallard is currently OOO until Sunday, April 7th 2019. ❤️

[arfon]

@danielskatz @arfon I think whedon doesn't like me anymore ..... it doesn't assign me as editor, maybe I lost permissions :/

Hrm, not sure what's up here.

[lpantano]

@whedon assign @druvus as reviewer

[whedon]

OK, the reviewer is @druvus

[lpantano]

@whedon start review

[whedon]

OK, I've started the review over in #1364. Feel free to close this issue now!