From 877d337db6ff12941eec0a7e381ef99b65450118 Mon Sep 17 00:00:00 2001
From: Tomas Martinovic <tomas.martinovic@vsb.cz>
Date: Thu, 19 Sep 2024 17:00:07 +0200
Subject: [PATCH] put output file arguments at correct place in readme
---
README.md | 8 ++++----
1 file changed, 4 insertions(+), 4 deletions(-)
diff --git a/README.md b/README.md
index 6b7d47e..89beb07 100644
--- a/README.md
+++ b/README.md
@@ -46,7 +46,7 @@ Among the repository files is pre-prepared `docker-compose.yml` file which conta
In Your terminal navigate to the folder where the files from the repository are downloaded and execute the following command:
```shell
-docker compose run movement-classification R --quiet -e "rmarkdown::render('get_features.Rmd')"
+docker compose run movement-classification R --quiet -e "rmarkdown::render('get_features.Rmd', output_file = '/output/features.html')"
```
By default input dat are downloaded into a folder `data_zenodo` and output features are also placed into this folder.
@@ -58,7 +58,7 @@ In case You have not run the first step, in this step features are downloaded fr
In Your terminal navigate to the folder where the files from the repository are downloaded and execute the following command:
```shell
-docker compose run movement-classification R --quiet -e "rmarkdown::render('get_results.Rmd')"
+docker compose run movement-classification R --quiet -e "rmarkdown::render('get_results.Rmd', output_file = '/output/classification.html')"
```
The results are HTML document placed into the folder `output`.
@@ -108,7 +108,7 @@ reticulate::virtualenv_install("hmch", c("-r", "requirements.txt"))
Now You can execute the script by calling
```bash
-R -e "rmarkdown::render(get_features.Rmd, output_file = '/output/features.html')"
+R -e "rmarkdown::render(get_features.Rmd)"
```
## Step 2 Classification
@@ -127,7 +127,7 @@ renv::restore()
### Model execution
```bash
-R -e "rmarkdown::render(get_results.Rmd, output_file = '/output/classification.html')"
+R -e "rmarkdown::render(get_results.Rmd)"
```
At the same time this file reproduce figures from an article which is now under review and later we will link it when it is published.
--
GitLab