Closed whedon closed 5 years ago
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:
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Attempting PDF compilation. Reticulating splines etc...
PDF failed to compile for issue #1598 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: tags, authors, affiliations (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
Hi @chand-lab, thanks for your submission to JOSS. Please merge the PR I just submitted to your paper, which makes some necessary fixes to the authors and affiliation fields: https://github.com/chand-lab/openEyeTrack/pull/1
Also, please add ORCIDs for both authors; even after merging my PR, the paper will still not build correctly without those. (If you don't have ORCIDs, you can register for them here: https://orcid.org/register). Thanks!
@cMadan can you edit this submission?
Hi Kyle,
Yes. Adding orcids. I need to get my undergraduate to get one as well.
best,
Chand
On Fri, Jul 26, 2019 at 12:33 PM Kyle Niemeyer notifications@github.com wrote:
Hi @chand-lab https://github.com/chand-lab, thanks for your submission to JOSS. Please merge the PR I just submitted to your paper, which makes some necessary fixes to the authors and affiliation fields: chand-lab/openEyeTrack#1 https://github.com/chand-lab/openEyeTrack/pull/1
Also, please add ORCIDs for both authors; even after merging my PR, the paper will still not build correctly without those. (If you don't have ORCIDs, you can register for them here: https://orcid.org/register). Thanks!
— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/openjournals/joss-reviews/issues/1598?email_source=notifications&email_token=AMM4DRP2JOIRB5PWNSE64WDQBMRMFA5CNFSM4IHFL6K2YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOD25DETI#issuecomment-515519053, or mute the thread https://github.com/notifications/unsubscribe-auth/AMM4DRL4DHJ5PNKC6PKNC43QBMRMFANCNFSM4IHFL6KQ .
-- Chandramouli Chandrasekaran Assistant Professor of Anatomy and Neurobiology Assistant Professor of Psychological and Brain Sciences Boston University Boston, MA, USA http://www.chandlab.org Ph: 617 358 8359 (MED)
@whedon commands
Here are some things you can ask me to do:
# List Whedon's capabilities
@whedon commands
# List of editor GitHub usernames
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# List of reviewers together with programming language preferences and domain expertise
@whedon list reviewers
EDITORIAL TASKS
# Compile the paper
@whedon generate pdf
# Compile the paper from alternative branch
@whedon generate pdf from branch custom-branch-name
# Ask Whedon to check the references for missing DOIs
@whedon check references
@whedon generate pdf
Attempting PDF compilation. Reticulating splines etc...
PDF failed to compile for issue #1598 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: tags (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
@whedon generate pdf
Attempting PDF compilation. Reticulating splines etc...
PDF failed to compile for issue #1598 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: tags (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
@chand-lab my new PR should fix the issue: https://github.com/chand-lab/openEyeTrack/pull/2
@whedon generate pdf
Attempting PDF compilation. Reticulating splines etc...
PDF failed to compile for issue #1598 with the following error:
/app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5a9319b684e6/lib/whedon.rb:123:in block in check_orcids': Problem with ORCID (0000-0000-0000-0000) for Jorge (Paolo) Casas (RuntimeError) from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5a9319b684e6/lib/whedon.rb:121:in
each'
from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5a9319b684e6/lib/whedon.rb:121:in check_orcids' from /app/vendor/bundle/ruby/2.4.0/bundler/gems/whedon-5a9319b684e6/lib/whedon.rb:81: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
Yep - let me get a proper orcid for Paolo. I have emailed him :)!
@chand-lab ah, the issue now is that we need an actual ORCID for your coauthor; using zeros will not work. Thanks!
No problem :)! Just making sure the rest is working. Paolo is traveling I believe and we can resolve this shortly. Sorry!
@whedon generate pdf
Attempting PDF compilation. Reticulating splines etc...
@whedon generate pdf
Attempting PDF compilation. Reticulating splines etc...
@whedon commands
Here are some things you can ask me to do:
# List Whedon's capabilities
@whedon commands
# List of editor GitHub usernames
@whedon list editors
# List of reviewers together with programming language preferences and domain expertise
@whedon list reviewers
EDITORIAL TASKS
# Compile the paper
@whedon generate pdf
# Compile the paper from alternative branch
@whedon generate pdf from branch custom-branch-name
# Ask Whedon to check the references for missing DOIs
@whedon check references
@whedon list reviewers
Here's the current list of reviewers: https://bit.ly/joss-reviewers
@whedon assign @cMadan as editor
OK, the editor is @cMadan
@kyleniemeyer, sure, I can edit this one.
@cMadan - Can we suggest reviewers outside the list of reviewers with expertise in eye tracking?
@chand-lab yes, feel free to suggest any domain experts, with contact information if possible.
@chand-lab, can you clarify for me, what specialised hardware is needed for a reviewer to be able to evaluate this submission? How much of the submission can be evaluated without any specialised hardware?
@cmadan, this is code for an open source eye tracker which can be used for research settings. It unfortunately needs a high speed camera from Teledyne DALSA and an infrared emitter for getting purkinje images of the eye. Teledyne DALSA has an open source linux API. Our contribution comes from developing a multithreaded C++ client that can leverage their API and then use opencv to detect the pupil and send this data to other downstream applications through UDP. I recognize now that the need for hardware may make it unsuitable for JOSS :).
Reviewer suggestion: Jan Zimmerman (janz@umn.edu). Jan built the original open source non threaded video eye tracker. Our project builds on top of it.
@thejanzimmermann, would you be available and interested in reviewing this submission?
Sure !
From: Christopher Madan notifications@github.com Sent: Wednesday, July 31, 2019 12:18 AM To: openjournals/joss-reviews Cc: Jan Zimmermann; Mention Subject: Re: [openjournals/joss-reviews] [PRE REVIEW]: openEyeTrack - A high speed multi-threaded eye tracker for head-fixed applications (#1598)
@thejanzimmermannhttps://github.com/thejanzimmermann, would you be available and interested in reviewing this submission?
— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHubhttps://github.com/openjournals/joss-reviews/issues/1598?email_source=notifications&email_token=ACCBIISZGKHG3FG4RLZNY5DQCEODTA5CNFSM4IHFL6K2YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOD3GDL3A#issuecomment-516699628, or mute the threadhttps://github.com/notifications/unsubscribe-auth/ACCBIIRXRLZQOSVSGCCYIDDQCEODTANCNFSM4IHFL6KQ.
@thejanzimmermann, great, I assume you have access to the requisite hardware? I'll try and also get someone who's previously reviewed for JOSS on-board as well to help review the code, but likely wouldn't have the requiste hardware to do a full review of the functionality.
@adswa, would you be available and interested in reviewing this submission?
I have all the necessary hardware in the lab. Let me know the steps involved since this is the first time I am doing a review like this.
Let me look at the other repo and give you a heads up in a bit
From: Christopher Madan notifications@github.com Sent: Wednesday, July 31, 2019 3:46 AM To: openjournals/joss-reviews Cc: Jan Zimmermann; Mention Subject: Re: [openjournals/joss-reviews] [PRE REVIEW]: openEyeTrack - A high speed multi-threaded eye tracker for head-fixed applications (#1598)
@thejanzimmermannhttps://github.com/thejanzimmermann, great, I assume you have access to the requisite hardware? I'll try and also get someone who's previously reviewed for JOSS on-board as well to help review the code, but likely wouldn't have the requiste hardware to do a full review of the functionality.
@adswahttps://github.com/adswa, would you be available and interested in reviewing this submission?
— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHubhttps://github.com/openjournals/joss-reviews/issues/1598?email_source=notifications&email_token=ACCBIIXHJGZMXE2RNQAXG5DQCFGODA5CNFSM4IHFL6K2YY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOD3GRQSY#issuecomment-516757579, or mute the threadhttps://github.com/notifications/unsubscribe-auth/ACCBIIXHWRANALKFMYC6UXLQCFGODANCNFSM4IHFL6KQ.
Hey @cMadan, thanks for thinking of me! I don't think I'm able to provide the necessary prerequisites for this submission, though. I don't have access to the required hardware, and work with Python instead of c++. I'm happy to review submissions that are in the area of my expertise in the future, though :slightly_smiling_face:
Hi @cMadan. My other reviewer suggestions after looking through your list of reviewers is
1) @rougier who seems to be a computational neuroscientist with C++ experience. 2) @casteer who is a physicist interested in research instrumentation.
Just thoughts off the top of my head.
@rougier @casteer, if you are available to do a code review of this submission, it would be much appreciated! I figure you probably don't have access to the hardware to test the functionality of the submission, but we do have another reviewer that has that part covered.
I'm currently involved in two reviews for JOSS (and I'm on vacation) so it might be better to ask someone else, sorry.
@cMadan I would perhaps suggest @conradsnicta as a potential reviewer as well. He has C++ experience and also appears to be involved in computer vision and might actually be an ideal reviewer for this small package.
@cMadan @mailchand - I'll take a look, though it may take a little while (~2 weeks) as I'm juggling a few projects. I do not have the requisite hardware to do proper testing, so any review will necessarily not cover all the aspects of the software.
@conradsnicta, thank you for agreeing, that's fine with me. We do have another reviewer with access to the hardware, so just be as thorough as you can.
Submitting author: @chand-lab (Chandramouli Chandrasekaran) Repository: https://github.com/chand-lab/openEyeTrack Version: v1.0.0 Editor: @cMadan Reviewers: @conradsnicta, @thejanzimmermann
Author instructions
Thanks for submitting your paper to JOSS @chand-lab. Currently, there isn't an JOSS editor assigned to your paper.
@chand-lab 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.
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