etherington-lieske

README.md

@@ -1,91 +1,25 @@
+# Resampling methods for evaluating classification accuracy of wildlife habitat models
 
-### ReScience submission repository
+![](article/resampling-results.png)
 
-This is the submission repository for the [Re**Science** journal](https://rescience.github.io).
+This is a replication of the following article:
 
-### How to submit an article ?
+Verbyla DL, Litvaitis JA (1989) Resampling methods for evaluating classification accuracy
+of wildlife habitat models. Environmental Management 13:783-787 https://doi.org/10.1007/BF01868317
 
+where the authors examined different resampling methods to test wildife habitat models.
 
-1. Create a [github](https://github.com) account
+## Pre-requisites
 
-2. [Fork](https://help.github.com/articles/fork-a-repo/) the [ReScience submission](https://github.com/ReScience/ReScience-submission) repository
+This replication has been written and tested on Windows 10 using the
+following packages:
 
-3. Clone this new repository into your desktop environment
+ * Python 3.6.4
+ * Numpy 1.14.2
+ * Scikit-learn 0.19.1
+ * Matplotlib 2.1.2
+ * pandas 0.22.0
 
-   ```
-   $ git clone https://github.com/YOUR-USERNAME/ReScience-submission
-   ```
+An installation of LaTeX is required to reproduce the figure annontations exactly, but is not required by the replication.
 
-4. Create a branch (the branch name should be author names separated with dashes)
-
-   ```
-   $ git checkout -b AUTHOR1-AUTHOR2
-   ```
-
-
-5. Add your code & article (see [author guidelines](https://rescience.github.io/write)) and commit your changes:
-
-   ```
-   $ git commit -a -m "Some comment"
-   ```
-
-
-6. [Push](https://help.github.com/articles/pushing-to-a-remote/) to github
-
-   ```
-   $ git push origin AUTHOR1-AUTHOR2
-   ```
-
-7. Issue a [pull request](https://help.github.com/articles/using-pull-requests/) (PR) to Re**Science** with title containing author(s) name and follow the template that will appear once you opened the pull request:
-
-  ```
-  **AUTHOR**
-
-  Dear @ReScience/editors,
-
-  I request a review for the following replication:
-
-  ### Original article
-
-  **Title:**  
-  **Author(s):**  
-  **Journal (or Conference):**  
-  **Year:**  
-  **DOI:**  
-  **PDF:**   
-
-  ### Replication
-
-  **Author(s)**:   
-  **Repository**:  
-  **PDF**:  
-  **Keywords**:  
-  **Language**:  
-  **Domain**:  
-
-  ### Results
-
-  * [ ] Article has been fully replicated
-  * [ ] Article has been partially replicated
-  * [ ] Article has not been replicated
-
-  ### Potential reviewers
-  <!-- If you know potential reviewers, you can tell us here -->
-  <!-- You can look at http://rescience.github.io/board for the -->
-  <!-- list of registered reviewers (but you can propose others) -->
-
-  ---
-
-  **EDITOR**
-
-  * [ ] Editor acknowledgment
-  * [ ] Reviewer 1 
-  * [ ] Reviewer 2
-  * [ ] Review 1 decision [accept/reject]
-  * [ ] Review 2 decision [accept/reject]
-  * [ ] Editor decision [accept/reject]
-  ```
-
-8. You can suggest reviewers from [editorial board](https://rescience.github.io/board).
-
-9. Answer questions and requests made in the PR conversation page.
+Unix users have reported a requirement for an installation of ```dvipng``` for Matplotlib to successfully export the plot.

article-latex/.gitignore

@@ -0,0 +1,11 @@
+*.aux
+*.idx
+*.log
+*.toc
+*.ist
+*.bbl
+*.blg
+*.bcf
+*.run.xml
+*.out
+

article-latex/Makefile

@@ -0,0 +1,35 @@
+# From  https://tex.stackexchange.com/questions/40738/how-to-properly-make-a-latex-project
+# -----------------------------------------------------------------------------
+# You want latexmk to *always* run, because make does not have all the info.
+# Also, include non-file targets in .PHONY so they are run regardless of any
+# file of the given name existing.
+.PHONY: clean
+
+# The first rule in a Makefile is the one executed by default ("make"). It
+# should always be the "all" rule, so that "make" and "make all" are identical.
+
+all: article
+article: article.pdf
+
+
+# CUSTOM BUILD RULES
+# -----------------------------------------------------------------------------
+metadata.tex: metadata.yaml
+	./yaml-to-latex.py -i $< -o $@
+
+
+# MAIN LATEXMK RULE
+# -----------------------------------------------------------------------------
+# -pdf tells latexmk to generate PDF directly (instead of DVI).
+# -pdflatex="" tells latexmk to call a specific backend with specific options.
+# -use-make tells latexmk to call make for generating missing files.
+# -interaction=nonstopmode keeps the pdflatex backend from stopping at a
+# missing file reference and interactively asking you for an alternative.
+
+article.pdf: article.tex content.tex metadata.tex rescience.cls
+	latexmk -pdf -pdflatex="xelatex -interaction=nonstopmode" -use-make article.tex
+
+clean:
+	@latexmk -CA
+	@rm -f *.bbl
+	@rm -f *.run.xml

article-latex/README.md

@@ -0,0 +1,30 @@
+### [ReScience C](https://rescience.github.io/) article template
+
+This repository contains the Latex (optional) template for writing a ReScience
+C article and the (mandatory) YAML metadata file. For the actual article,
+you're free to use any software you like as long as you enforce the proposed
+PDF style. A tool is available for the latex template that produces latex
+definitions from the metadata file. If you use another software, make sure that
+metadata and PDF are always synced.
+
+You can also use overleaf with the [provided template](https://www.overleaf.com/read/kfrwdmygjyqw) but in this case, you'll have to enter `metadata.tex` manually.
+
+#### Usage
+
+For a submission, fill in information in
+[metadata.yaml](./metadata.yaml), modify [content.tex](content.tex)
+and type:
+
+```bash
+$ make 
+```
+
+This will produce an `article.pdf` using xelatex and provided font.
+
+
+After acceptance, you'll need to complete [metadata.yaml](./metadata.yaml) with information provided by the editor and type again:
+
+```bash
+$ make
+```
+