Showing posts with label Writing. Show all posts
Showing posts with label Writing. Show all posts

mendeley 1.19.1 crash - QFSFileEngine::open: No file name specified

Personally, using the Mendeley Reference Manager is not easy, I really prefer to use the Desktop instead of the manager. From my point of view, providing the Mendeley Reference Manager only and giving up the support for both Desktop and Smart phones/pads is really disappointing. The more I use the Reference Manager, the more I feel in this way.


After upgrading to the Ubuntu 20.04, I tried to reinstall Mendeley Desktop, and it always gives the error with a crash: QFSFileEngine::open: No file name specified


After googling for some while, I found the relevant issue, and the corresponding solution. Running the command below to reset the Mendeley Desktop indeed saved my day.

$ mendeleydesktop --reset

After this, I needed to redownload and sync from Mendeley server, which is not a problem for me as I've been syncing local update to the server.


How to Insert a Tilde Symbol (~) in LaTeX

We can insert a tilde (sometimes called “twiddle”) in a LaTeX document by using \sim where sim refers to similar. When we would like to insert a tilde symbol on top of character(s), we can use \tilde{} instead.


Example




\documentclass{article}
\begin{document}
The model contains $\sim3M$ parameters. 
$\tilde{x}$ refers to the parameter of xxx.
\end{document}

Annotating PDF files using Wacom One

Wacom One does a decent job for writing on MS Powerpoint slides, and also its whiteboard. But when I try to use it for writing on PDF, it seems something is not right and it is extremely difficult to write on PDF files with the "Comment"=>"Draw" functionality of PDF with Wacom One.

After digging a little bit, I found out a workaround where you can change settings of Wacom Tablet Properties to make it working reasonably well on PDF files.

First, search the "Wacom Tablet Properties" and open it.




Secondly, go to "Mapping" and you will find at the bottom there is "Use WIndows ink" checked by default. UNCHECK it and close the window.



That's it! Now you will find writing on PDF files are musch smoother than before.

Source or dataset link placeholder for double-blind review

Double-blind review is a reviewing process in academic conferences or journals for submitted papers where the ideintities of authors and reviewers should remain anonymous for each other. An alternative adopted instead of the double-blind review is single-blind review where the reviewers know the authors but the reviewers' identities remain anonymous for authors.

One of the most important thing for double-blind reiview is that, as an author, you should not reveal your identities in any manner, e.g., using "in our previous work [1]" in the Related Work or including your source code or dataset link with a URL might contain your identity information (e.g., link to your shared Drive with some of your information can be disclosed).

An interesting solution discovered recently is adding the link http://www.omitted.link/ for the reviewing process and simply replace the link later with actual link. For example, in the latex of your article:

\footnote{\url{http://www.omitted.link/}} 

Specifically, the link will point to a dummy page with the following information:







How to center p column values in a LaTex table?

First we need to use the array package and define a new command P

\usepackage{array}
\newcolumntype{P}[1]{>{\centering\arraybackslash}p{#1}}
Afterwards, we can use the command P instead of p as follows when we define column type in the LaTex table

\begin{table}
  \centering
  \begin{tabular}{|P{2.5cm}|P{2.5cm}|P{2.5cm}|}
    \hline
    Reconstruction strategy & aa          & bb( \%) \\ \hline
    Classic                 & 3342 voxels & 68 \%   \\ \hline
    VC                      & 4296 voxels & 87 \%   \\ \hline
    V m=7                   & 4745 voxels & 96 \%   \\ \hline
  \end{tabular}
  \newline\newline
  \caption{title}\label{tab1}
\end{table}

This will give you the following output:


 

[Source]: https://tex.stackexchange.com/questions/157389/how-to-center-column-values-in-a-table

How to crop figures in LaTex?



It is common when we inserting figures in the papers in LaTex where some of them can have a white border taking up a lot of space. The trim option in \includegraphics aims to crop the figures inside the LaTex environment, which makes manipulating figures easy. For example, 
\begin{figure}[!bh]
\centering
\includegraphics[width=.8\linewidth,
trim=0cm 0cm 0cm .4cm, clip=true]
{images/user_difference.pdf}
\caption{The relationship between the number of favorites and retweets for two different users in a log scale.}
\label{fig:user_diff}
\end{figure}

The four locations after trim= are [left bottom right top] respectively, and [0cm 0cm 0cm .4cm] means we are trimming top for .4cm of the figure.

We can also use the clip=true or clip=false to turn on and off the trimming of the figure.

How to make thicker or thiner lines in LaTex tables?



Sometimes when we are writing articles with LaTex, thicker or thiner lines in the tables provide good and clear view on those tables. For instance, the one from the paper "aschern at SemEval-2020 Task 11: It Takes Three to Tango: RoBERTa, CRF, and Transfer Learning" at SemEval 2020 in the below, where the top and bottom lines are thicker than the middle line.


This can be simply achieved by using the makecell package and the corresponding command below:

First, just declaring we are using the makecell package

\usepackage{makecell} 
Second, we can use Xhline command instead of the hline with the thickness defined

  
\Xhline{2\arrayrulewidth}
\Xhline{1.5pt}  

Academic Resources

  


This is a curated list of resources related to PhD, doing research, writing, doing peer reviews, and career development, etc., which can be helpful for people at different stages of an academic trajectory from the github repository.

There are several ways you can engage with the list of resources if you like it.

  • Star the repo
  • Share the list
  • Suggest resources that you liked a lot but are missing from the list
  • Point out broken links of the resources

How to apply PhD


How to do that PhD


How to write


How to review


How to do research


How to develop your academic career

How to write a high quality review?


As a researcher, either you are pursuing a PhD. or an experienced researcher, we need to review conference or journal papers for the research community time to time. For example, your supervisor might assign you as a sub-reviewer to review paper(s) of your interests/expertise, or you might get invited more and more as you grow as an independent researcher in your field after your PhD.

Therefore, as a researcher in your research community, and since the review process pushes the research community moving forward, it is our responsibility to provide quality, constructive and not offensive reviews. Despite the importance of providing high quality reviews, unfortunately, we normally are not trained on this task during the PhD or afterwards.

Recently, professor Noah Smith from University of Washington gave a podcast which provides some fantastic advice on how to review a conference paper for the research community. Below, I summarize the main take-home messages from this podcast, as well as advice from other resources which might be helpful to reseachers who would like to write a high quality reviews.

Content

A review has three important parts:
  1. A brief summary of the paper
  2. Major pros and cons
  3. Minor things/comments/corrections
Let's discuss each part in the following in detail.

Brief Summary of the Paper

The first section provides a brief summary of the paper for others, e.g., an area chair who is extremely busy. This sectionn should:
  • say as it is, (what's new and contributions claimed by authors etc.)
  • that is, not judgement for this section
  • make it easy for others to get the idea of the paper quickly

Major Pros & Cons

Then we can move on to the pros & cons. Remember to give pros! of the paper. Even you do not like the paper, we should always analyze pros of a paper just as for finding cons of it.
  • particularly, we need to encourage (early) researchers keep going
  • there should be pros of a paper, e.g., the question itself is good and challenging

Even when we write cons of a paper, we still need to be constructive and positive. 
  • always give actionable details
  • e.g., instead of the method is confusing, talk about what equations or details are confusing

This section is main part of the review and needs to take into account of many key questions. 

For example, we can consider some of the questions below which include the ones from Professor Emery Berger (Computer Science at the University of Massachusetts Amherst):

Problem
  • Is the paper well-motivated? 
  • What problem does it address, and is it an important problem?
Quality
  • Is the submission technically sound? 
  • Are claims well supported by theoretical analysis or experimental results? Does the paper credibly support its claimed contributions? 
  • Is this a complete piece of work or work in progress? 
  • Does the paper describe something that has actually been implemented? If so, has it been evaluated properly? Is it publicly available so that these results can be verified? Are the results in the paper able to be reproduced easily?
  • Are the authors careful and honest about evaluating both the strengths and weaknesses of their work?
Clarity
  • Is the submission clearly written? Is the paper sufficiently clear that most venue attendees will be able to read and understand it? 
  • Is it well organized? (If not, please make constructive suggestions for improving its clarity.) 
  • Does it adequately inform the reader? (Note: a superbly written paper provides enough information for an expert reader to reproduce its results.)
  • What is the intuition behind certain choices?
Originality
  • What are the paper’s key insights? 
  • What are the paper’s key scientific and technical contributions? 
  • What did you learn from the paper? 
  • Does the paper significantly advance the state of the art or break new ground? 
  • Are the tasks or methods new? 
  • Is the work a novel combination of well-known techniques? 
  • Is it clear how this work differs from previous contributions? 
  • Is related work adequately cited? Does the paper clearly establish its context with respect to prior work? Does it discuss prior work accurately and completely? Are comparisons with previous work clear and explicit? 
  • Incremental approach could be challenged to accept, check what contribution is left after removing others.
Significance
  • Are the results important? 
  • Are others (researchers or practitioners) likely to use the ideas or build on them? 
  • Does the submission address a difficult task in a better way than previous work? 
  • Does it advance the state of the art in a demonstrable way? 
  • Does it provide unique data, unique conclusions about existing data, or a unique theoretical or experimental approach?
  • What impact is this paper likely to have (on theory & practice)? Is the work of broad appeal and interest to the research community?




Minor Things/Comments/Corrections

This section can provide some other minor issues, such as grammer errors. Please note that these minor things are not enough to reject a paper though.




About Reviewing Process

Prof. Noah Smith also discussed about his personal process of reviewing a paper, which is useful to me to adopt for future reviews.
  • quick scan (introduction, figures, conclusions, reference list)
    • where it is positioned in the literature?
    • what kind of paper it is? (position paper? theoretical one? system one?)
  • top-down reading with red pen
  • come back later with my review notes
  • any unclear things can be asked as a reviewer
    • e.g., the explaination/notation/prove is confusing or did the preprocessing also applied to baselines etc.
    • note that it's not criticizing, it is just want to encourage the paper make clear on the next version


Summary

To sum up, in this post we discussed the structure of review, and the review process and a couple of things can be considered or checked while reviewing a paper. 

Finally, we should keep in mind that the reviews that we write should
  • help the authors to improve the paper 
  • be what we expect to see in the next version of the paper

Did you have experience or any thought or advice which might be helpful for writing a high quality review? Leave a comment to share it with others:)


Related resources

Tips for writing paper


  • Save chart with 300dpi from Excel
    1. Select chart (12pt)
    2. [Save as] PDF (default 300dpi)
    3.  Insert into paper
  • Insert images in Mac 2011 Word 
    • Insert image directly (Use Textbox the images will be disappeared while converting the file to PDF)
  • How to format footnote separator line?
    1. Switch to Draft View
    2. Select View> Footnotes
    3. Open the list in the bar that appears in the lower part of the document window
    4. Select Footnote Separator
    5. Click Reset
  • Pics are moving around the pages
    1. Right-click on the picture and select Format Picture
    2. Click on the Layout tab
    3. Click on the Advanced button
    4. Click on the Picture Position tab
    5. Under both the Horizontal and Vertical selections, select Absolute Position, and pick "Page" from the drop-down menu at the right
    6. Also, click on the checkbox that says "Lock anchor.