From af61bf0041f842751c7f07bc2456ff21caef1169 Mon Sep 17 00:00:00 2001 From: Phillip Chlap Date: Mon, 16 Dec 2024 13:29:56 +0100 Subject: [PATCH] Small formatting fixes --- CITATION.cff | 1 + README.md | 4 ++-- docs/conf.py | 4 ++++ 3 files changed, 7 insertions(+), 2 deletions(-) diff --git a/CITATION.cff b/CITATION.cff index f6c5370..ec2ba25 100644 --- a/CITATION.cff +++ b/CITATION.cff @@ -61,6 +61,7 @@ preferred-citation: date-published: "2024-12-14" doi: 10.1016/j.softx.2024.102010 journal: SoftwareX + issn: 2352-7110 publisher: name: Elsevier title: "PyDicer: An open-source python library for conversion and analysis of radiotherapy DICOM data" diff --git a/README.md b/README.md index 282e915..6066150 100644 --- a/README.md +++ b/README.md @@ -41,7 +41,7 @@ PyDicer will place converted and intermediate files into a specific directory st - `[working]/[dataset_name]`: Clean datasets prepared using the Dataset Preparation Module will be stored in a directory with their name and will symbolically link to converted in the `[working]/data` directory ![PyDicer Working Directory structure](assets/pydicer-working-directory-structure.png) -*PyDicer working directory structure ([Chlap, P. et al. SoftwareX](https://doi.org/10.1016/j.softx.2024.102010))* +PyDicer working directory structure. Ref. [Chlap, P. et al. SoftwareX](https://doi.org/10.1016/j.softx.2024.102010) ## Pipeline @@ -91,7 +91,7 @@ pydicer.run_pipeline() If you make use of PyDicer within your research work, please consider citing our SoftwareX paper: -**Chlap P, Al Mouiee D, Finnegan RN, et al. PyDicer: An open-source python library for conversion and analysis of radiotherapy DICOM data. *SoftwareX*. 2025;[29:102010. doi:10.1016/j.softx.2024.102010](https://doi.org/10.1016/j.softx.2024.102010)** +Chlap P, Al Mouiee D, Finnegan RN, et al. PyDicer: An open-source python library for conversion and analysis of radiotherapy DICOM data. *SoftwareX*. 2025;29:102010. [doi:10.1016/j.softx.2024.102010](https://doi.org/10.1016/j.softx.2024.102010) ## Contributing diff --git a/docs/conf.py b/docs/conf.py index fce8db2..3366746 100644 --- a/docs/conf.py +++ b/docs/conf.py @@ -93,3 +93,7 @@ def setup(app): shutil.copy("../examples/ObjectGeneration.ipynb", "_examples/ObjectGeneration.ipynb") shutil.copy("../examples/AutoSegmentation.ipynb", "_examples/AutoSegmentation.ipynb") shutil.copy("../examples/nnUNet.ipynb", "_examples/nnUNet.ipynb") + +shutil.rmtree("site/assets", ignore_errors=True) +os.makedirs("site", exist_ok=True) +shutil.copytree("../assets", "site/assets")