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[PRE REVIEW]: Designing Machine Learning Pipeline Toolkit for AutoML Surrogate Modeling Optimization #88

Closed whedon closed 1 year ago

whedon commented 2 years ago

Submitting author: @ppalmes (Paulito Palmes) Repository: https://github.com/IBM/AutoMLPipeline.jl Version: Editor: @matbesancon Reviewers: @ablaom Managing EiC: Valentin Churavy

Author instructions

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

The author's suggestion for the handling editor is @matbesancon.

@ppalmes if you have any suggestions for potential reviewers then please mention them here in this thread (without tagging them with an @). In addition, this list of people have already agreed to review for JCON and may be suitable for this submission (please start at the bottom of the list).

Editor instructions

The JCON 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 commented 2 years ago

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

:warning: JOSS reduced service mode :warning:

Due to the challenges of the COVID-19 pandemic, JOSS is currently operating in a "reduced service mode". You can read more about what that means in our blog post.

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

@whedon commands

For example, to regenerate the paper pdf after making changes in the paper's md or bib files, type:

@whedon generate pdf
whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Can't find any papers to compile :-(
ppalmes commented 2 years ago

@whedon commands

whedon commented 2 years ago

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

# Ask Whedon to check repository statistics for the submitted software
@whedon check repository
ppalmes commented 2 years ago

@whedon check repository

whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Can't find any papers to compile :-(
whedon commented 2 years ago

I'm sorry human, I don't understand that. You can see what commands I support by typing:

@whedon commands
whedon commented 2 years ago 
Attempting PDF compilation from custom branch master. Reticulating splines etc...
whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Can't find any papers to compile :-(
ppalmes commented 2 years ago

@matbesancon i think i had the same issue last time i submitted a paper. the link to the paper was incorrect and whedon can't find it. whedon does not indicate what the errors are.

ppalmes commented 2 years ago

@whedon generate pdf from branch juliacon2021

whedon commented 2 years ago 
Attempting PDF compilation from custom branch juliacon2021. Reticulating splines etc...
matbesancon commented 2 years ago

@whedon generate pdf from branch juliacon2021

whedon commented 2 years ago 
Attempting PDF compilation from custom branch juliacon2021. Reticulating splines etc...
whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Latexmk: This is Latexmk, John Collins, 17 Jan. 2018, version: 4.55.
Rule 'pdflatex': Rules & subrules not known to be previously run:
   pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
      'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
===========Latexmk: Missing input file: 'nicefrac.sty' from line
  '! LaTeX Error: File `nicefrac.sty' not found.'
Latexmk: Missing input file: 'nicefrac.sty' from line
  '! LaTeX Error: File `nicefrac.sty' not found.'
Failure to make 'paper.pdf'
Collected error summary (may duplicate other messages):
  pdflatex: Command for 'pdflatex' gave return code 1
      Refer to 'paper.log' for details
Looks like we failed to compile the PDF
matbesancon commented 2 years ago

seems the error is linked to a missing package now

ppalmes commented 2 years ago

@whedon generate pdf from branch juliacon2021

whedon commented 2 years ago 
Attempting PDF compilation from custom branch juliacon2021. Reticulating splines etc...
whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Latexmk: This is Latexmk, John Collins, 17 Jan. 2018, version: 4.55.
Rule 'pdflatex': Rules & subrules not known to be previously run:
   pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
      'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
===========Latexmk: Missing input file: 'microtype.sty' from line
  '! LaTeX Error: File `microtype.sty' not found.'
Latexmk: Missing input file: 'microtype.sty' from line
  '! LaTeX Error: File `microtype.sty' not found.'
Failure to make 'paper.pdf'
Collected error summary (may duplicate other messages):
  pdflatex: Command for 'pdflatex' gave return code 1
      Refer to 'paper.log' for details
Looks like we failed to compile the PDF
ppalmes commented 2 years ago

@whedon generate pdf from branch juliacon2021

whedon commented 2 years ago 
Attempting PDF compilation from custom branch juliacon2021. Reticulating splines etc...
whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Can't find any papers to compile :-(
ppalmes commented 2 years ago

@whedon generate pdf from branch juliacon2021

whedon commented 2 years ago 
Attempting PDF compilation from custom branch juliacon2021. Reticulating splines etc...
whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Latexmk: This is Latexmk, John Collins, 17 Jan. 2018, version: 4.55.
Rule 'pdflatex': Rules & subrules not known to be previously run:
   pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
      'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
===========Latexmk: Missing input file: 'subfigure.sty' from line
  '! LaTeX Error: File `subfigure.sty' not found.'
Latexmk: Missing input file: 'subfigure.sty' from line
  '! LaTeX Error: File `subfigure.sty' not found.'
Failure to make 'paper.pdf'
Collected error summary (may duplicate other messages):
  pdflatex: Command for 'pdflatex' gave return code 1
      Refer to 'paper.log' for details
Looks like we failed to compile the PDF
ppalmes commented 2 years ago

@whedon generate pdf from branch juliacon2021

whedon commented 2 years ago 
Attempting PDF compilation from custom branch juliacon2021. Reticulating splines etc...
whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Latexmk: This is Latexmk, John Collins, 17 Jan. 2018, version: 4.55.
Rule 'pdflatex': Rules & subrules not known to be previously run:
   pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
      'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Rule 'pdflatex': File changes, etc:
   Changed files, or newly in use since previous run(s):
      'paper.aux'
      'paper.out'
------------
Run number 2 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Failure to make 'paper.pdf'
Collected error summary (may duplicate other messages):
  pdflatex: Command for 'pdflatex' gave return code 1
      Refer to 'paper.log' for details
Looks like we failed to compile the PDF
ppalmes commented 2 years ago

@whedon generate pdf from branch juliacon2021

whedon commented 2 years ago 
Attempting PDF compilation from custom branch juliacon2021. Reticulating splines etc...
whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Latexmk: This is Latexmk, John Collins, 17 Jan. 2018, version: 4.55.
Rule 'pdflatex': Rules & subrules not known to be previously run:
   pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
      'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Rule 'pdflatex': File changes, etc:
   Changed files, or newly in use since previous run(s):
      'paper.aux'
      'paper.out'
------------
Run number 2 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Failure to make 'paper.pdf'
Collected error summary (may duplicate other messages):
  pdflatex: Command for 'pdflatex' gave return code 1
      Refer to 'paper.log' for details
Looks like we failed to compile the PDF
ppalmes commented 2 years ago

@whedon generate pdf

whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Latexmk: This is Latexmk, John Collins, 17 Jan. 2018, version: 4.55.
Rule 'pdflatex': Rules & subrules not known to be previously run:
   pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
      'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
===========Latexmk: Missing input file: 'subfigure.sty' from line
  '! LaTeX Error: File `subfigure.sty' not found.'
Latexmk: Missing input file: 'subfigure.sty' from line
  '! LaTeX Error: File `subfigure.sty' not found.'
Failure to make 'paper.pdf'
Collected error summary (may duplicate other messages):
  pdflatex: Command for 'pdflatex' gave return code 1
      Refer to 'paper.log' for details
Looks like we failed to compile the PDF
ppalmes commented 2 years ago

@whedon generate pdf

whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Latexmk: This is Latexmk, John Collins, 17 Jan. 2018, version: 4.55.
Rule 'pdflatex': Rules & subrules not known to be previously run:
   pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
      'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Rule 'pdflatex': File changes, etc:
   Changed files, or newly in use since previous run(s):
      'paper.aux'
      'paper.out'
------------
Run number 2 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Failure to make 'paper.pdf'
Collected error summary (may duplicate other messages):
  pdflatex: Command for 'pdflatex' gave return code 1
      Refer to 'paper.log' for details
Looks like we failed to compile the PDF
ppalmes commented 2 years ago

@whedon generate pdf

whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Latexmk: This is Latexmk, John Collins, 17 Jan. 2018, version: 4.55.
Rule 'pdflatex': Rules & subrules not known to be previously run:
   pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
      'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Rule 'pdflatex': File changes, etc:
   Changed files, or newly in use since previous run(s):
      'paper.aux'
      'paper.out'
------------
Run number 2 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Failure to make 'paper.pdf'
Collected error summary (may duplicate other messages):
  pdflatex: Command for 'pdflatex' gave return code 1
      Refer to 'paper.log' for details
Looks like we failed to compile the PDF
ppalmes commented 2 years ago

@whedon generate pdf

whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Latexmk: This is Latexmk, John Collins, 17 Jan. 2018, version: 4.55.
Rule 'pdflatex': Rules & subrules not known to be previously run:
   pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
      'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Rule 'pdflatex': File changes, etc:
   Changed files, or newly in use since previous run(s):
      'paper.aux'
------------
Run number 2 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Rule 'pdflatex': File changes, etc:
   Changed files, or newly in use since previous run(s):
      'paper.out'
------------
Run number 3 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Failure to make 'paper.pdf'
Collected error summary (may duplicate other messages):
  pdflatex: Command for 'pdflatex' gave return code 1
      Refer to 'paper.log' for details
Looks like we failed to compile the PDF
ppalmes commented 2 years ago

@matbesancon , it compiles in my system with: latexmk -bibtex -pdf paper.tex and i don't see the error from the output of whedon.

ppalmes commented 2 years ago

@whedon generate pdf

whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Latexmk: This is Latexmk, John Collins, 17 Jan. 2018, version: 4.55.
Rule 'pdflatex': Rules & subrules not known to be previously run:
   pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
      'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Rule 'pdflatex': File changes, etc:
   Changed files, or newly in use since previous run(s):
      'paper.aux'
------------
Run number 2 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Rule 'pdflatex': File changes, etc:
   Changed files, or newly in use since previous run(s):
      'paper.out'
------------
Run number 3 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Failure to make 'paper.pdf'
Collected error summary (may duplicate other messages):
  pdflatex: Command for 'pdflatex' gave return code 1
      Refer to 'paper.log' for details
Looks like we failed to compile the PDF
ppalmes commented 2 years ago

@whedon generate pdf

whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Latexmk: This is Latexmk, John Collins, 17 Jan. 2018, version: 4.55.
Rule 'pdflatex': Rules & subrules not known to be previously run:
   pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
      'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Rule 'pdflatex': File changes, etc:
   Changed files, or newly in use since previous run(s):
      'paper.aux'
------------
Run number 2 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Rule 'pdflatex': File changes, etc:
   Changed files, or newly in use since previous run(s):
      'paper.out'
------------
Run number 3 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Failure to make 'paper.pdf'
Collected error summary (may duplicate other messages):
  pdflatex: Command for 'pdflatex' gave return code 1
      Refer to 'paper.log' for details
Looks like we failed to compile the PDF
vchuravy commented 2 years ago

@whedon assign @matbesancon as editor

whedon commented 2 years ago

OK, the editor is @matbesancon

vchuravy commented 2 years ago

@ppalmes you can use https://whedon.theoj.org/ to get access to the logs.

https://whedon.theoj.org/preview?id=1f1442aa9bb8bf86c6350bbb

Your paper failed to compile with the following errors:

Looks like we failed to compile the PDF with the following error: [WARNING] Could not load include file 'amlpcode' at line 225 column 19 [WARNING] Could not load include file 'amlpcode' at line 225 column 19 [WARNING] Could not load include file 'amlpcode' at line 225 column 19 [WARNING] Could not load include file 'amlpcode' at line 225 column 19 Error producing PDF. ! LaTeX Error: Can be used only in preamble. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ... l.313 \documentclass
ranjanan commented 2 years ago

Maybe the issue is that the .latexmkrc is missing from https://github.com/IBM/AutoMLPipeline.jl/tree/master/paper? Ref https://github.com/JuliaCon/proceedings-review/issues/80

ppalmes commented 2 years ago

@whedon generate pdf

whedon commented 2 years ago

PDF failed to compile for issue #88 with the following error: 

 Latexmk: This is Latexmk, John Collins, 17 Jan. 2018, version: 4.55.
Rule 'pdflatex': Rules & subrules not known to be previously run:
   pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
      'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Rule 'pdflatex': File changes, etc:
   Changed files, or newly in use since previous run(s):
      'paper.aux'
------------
Run number 2 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Rule 'pdflatex': File changes, etc:
   Changed files, or newly in use since previous run(s):
      'paper.out'
------------
Run number 3 of rule 'pdflatex'
------------
------------
Running 'pdflatex  -recorder  "paper.tex"'
------------
Failure to make 'paper.pdf'
Collected error summary (may duplicate other messages):
  pdflatex: Command for 'pdflatex' gave return code 1
      Refer to 'paper.log' for details
Looks like we failed to compile the PDF