Merge branch 'pierremillard:master' into master

MetaSys-LISBP · Sep 21, 2022 · b27fad6 · b27fad6
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diff --git a/README.md b/README.md
@@ -6,11 +6,11 @@ These R scripts perform all analyses detailed in the following publication:
 
 > From toxic waste to beneficial nutrient: acetate boosts *Escherichia coli* growth at low glycolytic flux.
 >
-> P. Millard, S. Uttenweiler-Joseph, B. Enjalbert. bioRxiv, 2022, doi: [doi](https://doi.org/doi)
+> P. Millard, S. Uttenweiler-Joseph, B. Enjalbert. bioRxiv, 2022, doi: [10.1101/2022.09.20.506926](https://doi.org/10.1101/2022.09.20.506926)
 
 The model is available in COPASI format in the `./model/` directory, and in SBML format from the Biomodels database (http://www.ebi.ac.uk/biomodels/) under identifier MODEL2005050001. Details on the model can be found in the original publication (Millard et al., 2021, eLife, doi: [10.7554/eLife.63661](https://doi.org/10.7554/eLife.63661)) and at https://github.com/MetaSys-LISBP/acetate_regulation. Experimental data are provided in the `./data/` directory. Calculation results and figures are saved in the `./results/` directory.
 
-Details on the calculations can be found in the [original publication](https://doi.org/doi) and in the R scripts.
+Details on the calculations can be found in the [original publication](https://doi.org/10.1101/2022.09.20.506926) and in the R scripts.
 
 The code is open-source and available under [GPLv3 license](https://www.gnu.org/licenses/gpl-3.0.txt).
 
@@ -71,7 +71,7 @@ If you have any question, please open a new *issue*
 to [our GitHub issue tracker](https://github.com/MetaSys-LISBP/glucose_acetate_interplay/issues) so we could discuss together. 
 
 ## How to cite
-Millard P., Uttenweiler-Joseph S., Enjalbert B. From toxic waste to beneficial nutrient: acetate boosts *Escherichia coli* growth at low glycolytic flux. bioRxiv, 2022, doi: [doi](https://doi.org/doi)
+Millard P., Uttenweiler-Joseph S., Enjalbert B. From toxic waste to beneficial nutrient: acetate boosts *Escherichia coli* growth at low glycolytic flux. bioRxiv, 2022, doi: [10.1101/2022.09.20.506926](https://doi.org/10.1101/2022.09.20.506926)
 
 ## Authors
 Pierre Millard

diff --git a/run_calculations.R b/run_calculations.R
@@ -6,7 +6,7 @@
 #
 #   From toxic waste to beneficial nutrient: acetate boosts Escherichia coli growth at low glycolytic flux.
 #   P. Millard, S. Uttenweiler-Joseph, B. Enjalbert
-#   bioRxiv preprint, doi: XXX
+#   bioRxiv preprint, doi: 10.1101/2022.09.20.506926
 #
 # All scripts are available at https://github.com/MetaSys-LISBP/glucose_acetate_interplay
 #