Update all DOIs to point to this years data

SPAAM-community · Sep 16, 2024 · 6af33ea · 6af33ea
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diff --git a/accessing-ancient-metagenomic-data.qmd b/accessing-ancient-metagenomic-data.qmd
@@ -10,7 +10,7 @@ bibliography: assets/references/accessing-ancient-metagenomic-data.bib
 ::: {.callout-note collapse="true" title="Self guided: chapter environment setup"}
 For this chapter's exercises, if not already performed, you will need to download the chapter's dataset, decompress the archive, and create and activate the conda environment.
 
-Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.8413229](https://doi.org/10.5281/zenodo.8413229), and unpack
+Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.13759163](https://doi.org/10.5281/zenodo.13759163), and unpack
 
 ```bash
 tar xvf accessing-ancient-metagenomic-data.tar.gz 

diff --git a/ancient-metagenomic-pipelines.qmd b/ancient-metagenomic-pipelines.qmd
@@ -7,7 +7,8 @@ bibliography: assets/references/ancient-metagenomic-pipelines.bib
 ::: {.callout-note collapse="true" title="Self guided: chapter environment setup"}
 For this chapter's exercises, if not already performed, we will need to download the chapter's dataset, decompress the archive, and create and activate the conda environment.
 
-Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.8413239](https://doi.org/10.5281/zenodo.8413239), and unpack.
+Do this, use `wget` or right click and save to download this Zenodo archive: 
+[10.5281/zenodo.13759201](https://doi.org/10.5281/zenodo.13759201), and unpack.
 
 ```bash
 tar xvf ancient-metagenomic-pipelines.tar.gz 

diff --git a/authentication.qmd b/authentication.qmd
@@ -7,7 +7,7 @@ bibliography: assets/references/authentication.bib
 ::: {.callout-note collapse="true" title="Self guided: chapter environment setup"}
 For this chapter's exercises, if not already performed, you will need to download the chapter's dataset, decompress the archive, and create and activate the conda environment.
 
-Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.8413184](https://doi.org/10.5281/zenodo.8413184), and unpack
+Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.13759228](https://doi.org/10.5281/zenodo.13759228), and unpack
 
 ```bash
 tar xvf authentication.tar.gz 

diff --git a/bare-bones-bash.qmd b/bare-bones-bash.qmd
@@ -6,7 +6,7 @@ author: Thiseas C. Lamnidis, Aida Andrades Valtueña
 ::: {.callout-note collapse="true" title="Self guided: chapter environment setup"}
 For this chapter's exercises, if not already performed, you will need to download the chapter's dataset, decompress the archive, and create and activate the conda environment.
 
-Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.8412661](https://doi.org/10.5281/zenodo.8412661), and unpack.
+Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.13759270](10.5281/zenodo.13759270), and unpack.
 
 ```bash
 tar xvf bare-bones-bash.tar.gz 

diff --git a/contamination.qmd b/contamination.qmd
@@ -7,7 +7,7 @@ bibliography: assets/references/contamination.bib
 ::: {.callout-note collapse="true" title="Self guided: chapter environment setup"}
 For this chapter's exercises, if not already performed, you will need to download the chapter's dataset, decompress the archive, and create and activate the conda environment.
 
-Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.8413184](https://doi.org/10.5281/zenodo.8413184), and unpack
+Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.13759285](https://doi.org/10.5281/zenodo.13759285), and unpack
 
 ```bash
 tar xvf contamination.tar.gz

diff --git a/denovo-assembly.qmd b/denovo-assembly.qmd
@@ -13,7 +13,7 @@ library(pander)
 ::: {.callout-note collapse="true" title="Self guided: chapter environment setup"}
 For this chapter's exercises, if not already performed, you will need to download the chapter's dataset, decompress the archive, and create and activate the conda environment.
 
-Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.8413147](https://doi.org/10.5281/zenodo.8413147), and unpack
+Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.13759302](https://doi.org/10.5281/zenodo.13759302), and unpack
 
 ```bash
 tar xvf denovo-assembly.tar.gz 

diff --git a/genome-mapping.qmd b/genome-mapping.qmd
@@ -7,7 +7,7 @@ bibliography: assets/references/genome-mapping.bib
 :::{.callout-note collapse="true" title="Self guided: chapter environment setup"}
 For this chapter's exercises, if not already performed, you will need to download the chapter's dataset, decompress the archive, and create and activate the conda environment.
 
-Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.8413204](https://doi.org/10.5281/zenodo.8413204), and unpack.
+Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.13759321](https://doi.org/10.5281/zenodo.13759321), and unpack.
 
 ```bash
 tar xvf genome-mapping.tar.gz 

diff --git a/git-github.qmd b/git-github.qmd
@@ -7,7 +7,7 @@ bibliography: assets/references/git-github.bib
 ::: {.callout-note collapse="true" title="Self guided: chapter environment setup"}
 For this chapter's exercises, if not already performed, you will need to download the chapter's dataset, decompress the archive, and create and activate the conda environment.
 
-Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.8413100](https://doi.org/10.5281/zenodo.8413100), and unpack.
+Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.13759333](https://doi.org/10.5281/zenodo.13759333), and unpack.
 
 ```bash
 tar xvf git-github.tar.gz 

diff --git a/phylogenomics.qmd b/phylogenomics.qmd
@@ -7,7 +7,7 @@ bibliography: assets/references/phylogenomics.bib
 ::: {.callout-note collapse="true" title="Self guided: chapter environment setup"}
 For this chapter's exercises, if not already performed, you will need to download the chapter's dataset, decompress the archive, and create and activate the conda environment.
 
-Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.8413215](https://doi.org/10.5281/zenodo.8413215), and unpack.
+Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.13759782](https://doi.org/10.5281/zenodo.13759782), and unpack.
 
 ```bash
 tar xvf phylogenomics.tar.gz 

diff --git a/python-pandas.qmd b/python-pandas.qmd
@@ -10,7 +10,7 @@ This session is typically ran held in parallel to the Introduction to R and Tidy
 ::: {.callout-note collapse="true" title="Self guided: chapter environment setup"}
 For this chapter's exercises, if not already performed, you will need to download the chapter's dataset, decompress the archive, and create and activate the conda environment.
 
-Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.8413046](https://doi.org/10.5281/zenodo.8413046), and unpack
+Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.11394586](https://doi.org/10.5281/zenodo.11394586), and unpack
 
 ```bash
 tar xvf python-pandas.tar.gz 

diff --git a/r-tidyverse.qmd b/r-tidyverse.qmd
@@ -19,7 +19,7 @@ We recommend this session if you have no experience with neither R nor Python.
 ::: {.callout-note collapse="true" title="Self guided: chapter environment setup"}
 For this chapter's exercises, if not already performed, you will need to download the chapter's dataset, decompress the archive, and create and activate the conda environment.
 
-To do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.8413026](https://doi.org/10.5281/zenodo.8413026), and unpack
+To do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.13758879](https://doi.org/10.5281/zenodo.13758879), and unpack
 
 ```bash
 tar xvf r-tidyverse.tar.gz 

diff --git a/taxonomic-profiling.qmd b/taxonomic-profiling.qmd
@@ -7,7 +7,7 @@ bibliography: assets/references/taxonomic-profiling.bib
 ::: {.callout-note collapse="true" title="Self guided: chapter environment setup"}
 For this chapter's exercises, if not already performed, you will need to download the chapter's dataset, decompress the archive, and create and activate the conda environment.
 
-Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.8413138](https://doi.org/10.5281/zenodo.8413138), and unpack
+Do this, use `wget` or right click and save to download this Zenodo archive: [10.5281/zenodo.13760277](https://doi.org/10.5281/zenodo.13760277), and unpack
 
 ```bash
 tar xvf taxonomic-profiling.tar.gz