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[PRE REVIEW]: ccostr: An R package for estimating mean costs with censored data #1560

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whedon opened this issue Jul 11, 2019 · 13 comments

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commented Jul 11, 2019

Submitting author: @LarsHernandez (Lars Nielsen)
Repository: https://github.com/HaemAalborg/ccostr
Version: 0.1.0
Editor: @csoneson
Reviewer: Pending

Author instructions

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

@LarsHernandez 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 whedon added the pre-review label Jul 11, 2019

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commented Jul 11, 2019

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.

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commented Jul 11, 2019

Attempting PDF compilation. Reticulating splines etc...

@whedon whedon added R TeX labels Jul 11, 2019

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commented Jul 11, 2019

PDF failed to compile for issue #1560 with the following error:

/app/vendor/ruby-2.4.4/lib/ruby/2.4.0/psych.rb:377:in parse': (tmp/1560/paper.md): invalid leading UTF-8 octet at line 1 column 1 (Psych::SyntaxError) from /app/vendor/ruby-2.4.4/lib/ruby/2.4.0/psych.rb:377:in parse_stream'
from /app/vendor/ruby-2.4.4/lib/ruby/2.4.0/psych.rb:325:in parse' from /app/vendor/ruby-2.4.4/lib/ruby/2.4.0/psych.rb:252:in load'
from /app/vendor/ruby-2.4.4/lib/ruby/2.4.0/psych.rb:473:in block in load_file' from /app/vendor/ruby-2.4.4/lib/ruby/2.4.0/psych.rb:472:in open'
from /app/vendor/ruby-2.4.4/lib/ruby/2.4.0/psych.rb:472:in load_file' from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-85c572552d68/lib/whedon.rb:95:in load_yaml'
from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-85c572552d68/lib/whedon.rb:78:in initialize' from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-85c572552d68/lib/whedon/processor.rb:36:in new'
from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-85c572552d68/lib/whedon/processor.rb:36:in set_paper' from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-85c572552d68/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-85c572552d68/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 `

'

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commented Jul 11, 2019

👋 @csoneson - would you be willing to edit this submission for JOSS?

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commented Jul 11, 2019

@LarsHernandez - this PR should fix your paper compilation: HaemAalborg/ccostr#8

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commented Jul 11, 2019

👋 @csoneson - would you be willing to edit this submission for JOSS?

Yes, I can do that!

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commented Jul 11, 2019

@whedon assign @csoneson as editor

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commented Jul 11, 2019

OK, the editor is @csoneson

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commented Jul 11, 2019

@LarsHernandez - please let me know if you have suggestions for suitable reviewers (e.g. from the list in the first post above)!

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commented Jul 15, 2019

@whedon generate pdf

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commented Jul 15, 2019

Attempting PDF compilation. Reticulating splines etc...
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commented Jul 15, 2019

PDF failed to compile for issue #1560 with the following error:

/app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5a9319b684e6/lib/whedon.rb:115:in check_fields': Paper YAML header is missing expected fields: date (RuntimeError) from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5a9319b684e6/lib/whedon.rb:80:in initialize'
from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5a9319b684e6/lib/whedon/processor.rb:36:in new' from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5a9319b684e6/lib/whedon/processor.rb:36:in set_paper'
from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5a9319b684e6/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-5a9319b684e6/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

'

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commented Jul 15, 2019

👋 @LarsHernandez - it looks like whedon is not happy with the missing date field in your yaml header, could you add that? I compiled it locally to have a first look and it looks almost all good; could you just add case protection for {SAS} in the Zhao and Wang (2010) reference? Also, the word "naïve" doesn't show up properly in my locally compiled paper - whedon might have the same problem. Once you have pushed a new version to your GitHub repo, you can ask whedon to rebuild the pdf using the command above (@whedon generate pdf).

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